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2024


2024

Structural basis of DNA crossover capture by Escherichia coli DNA gyrase.
Vayssières M, Marechal N, Yun L, Lopez Duran B, Murugasamy NK, Fogg JM, Zechiedrich L, Nadal M, Lamour V
Science. 2024 Apr 12. 384(6692):227-232.

Acousto-optic holography for pseudo-two-dimensional dynamic light patterning.
Akemann W, Bourdieu L
APL Photonics. 2024 Apr 1. 9(4):046103.

Caenorhabditis elegans defective-pharynx and constipated mutants are resistant to Orsay virus infection.
González R, Félix MA
MicroPubl Biol. 2024. 2024.

Fasting upregulates the monocarboxylate transporter MCT1 at the rat blood-brain barrier through PPAR δ activation.
Chasseigneaux S, Cochois‑Guégan V, Lecorgne L, Lochus M, Nicolic S, Blugeon C, Jourdren L, Gomez‑Zepeda D, Tenzer S, Sanquer S, Nivet‑Antoine V, Menet MC, Laplanche JL, Declèves X, Cisternino S, Saubaméa B
Fluids Barriers CNS. 2024 Apr 8. 21(1):33.

The TELOMERE REPEAT BINDING proteins TRB4 and TRB5 function as transcriptional activators of PRC2-controlled genes to regulate plant development.
Amiard S, Feit L, Vanrobays E, Simon L, Le Goff S, Loizeau L, Wolff L, Butter F, Bourbousse C, Barneche F, Tatout C, Probst AV
Plant Commun. 2024 Apr 1:100890.

Neurophotonics beyond the Surface : Unmasking the Brain’s Complexity Exploiting Optical Scattering.
Xia F, Rimoli CV, Akemann W, Ventalon C, Bourdieu L, Gigan S, de Aguiar HB
ArXiv. 2024 Mar 21.

Genome-scale community modelling reveals conserved metabolic cross-feedings in epipelagic bacterioplankton communities.
Giordano N, Gaudin M, Trottier C, Delage E, Nef C, Bowler C, Chaffron S
Nat Commun. 2024 Mar 28. 15(1):2721.

Overlapping action of T(3) and T(4) during Xenopus laevis development.
Tribondeau A, Du Pasquier D, Benchouaia M, Blugeon C, Buisine N, Sachs LM
Front Endocrinol (Lausanne). 2024. 15:1360188.

Observing G4 formation and its resolution by Pif1 in real time by manipulation under magnetic tweezers.
Valle‑Orero J, Rieu M, Allemand JF, Bujaa D, Joubert A, Tran PLT, Croquette V, Boulé JB
Methods Enzymol. 2024. 695:119-158.

Translational modulator ISRIB alleviates synaptic and behavioral phenotypes in Fragile X syndrome.
Coulson RL, Frattini V, Moyer CE, Hodges J, Walter P, Mourrain P, Zuo Y, Wang GX
iScience. 2024 Apr 19. 27(4):109259.

New plastids, old proteins : repeated endosymbiotic acquisitions in kareniacean dinoflagellates.
Novák Vanclová AM, Nef C, Füssy Z, Vancl A, Liu F, Bowler C, Dorrell RG
EMBO Rep. 2024 Apr. 25(4):1859-1885.

Neutral diversity in experimental metapopulations.
Doulcier G, Lambert A
Theor Popul Biol. 2024 Mar 15.

Use of DNA forceps to measure receptor-ligand dissociation equilibrium constants in a single-molecule competition assay.
Stransky F, Kostrz D, Follenfant M, Pomplun S, Meyners C, Strick T, Hausch F, Gosse C
Methods Enzymol. 2024. 694:51-82.

The pelvic organs receive no parasympathetic innervation.
Sivori M, Dempsey B, Chettouh Z, Boismoreau F, Ayerdi M, Eymael A, Baulande S, Lameiras S, Coulpier F, Delattre O, Rohrer H, Mirabeau O, Brunet JF
Elife. 2024 Mar 15. 12.

Distinguishing cophylogenetic signal from phylogenetic congruence clarifies the interplay between evolutionary history and species interactions.
Perez‑Lamarque B, Morlon H
Syst Biol. 2024 Mar 13.

Synapsin 2a tetramerisation selectively controls the presynaptic nanoscale organisation of reserve synaptic vesicles.
Longfield SF, Gormal RS, Feller M, Parutto P, Reingruber J, Wallis TP, Joensuu M, Augustine GJ, Martínez‑Mármol R, Holcman D, Meunier FA
Nat Commun. 2024 Mar 12. 15(1):2217.

Molecular mechanisms reconstruction from single-cell multi-omics data with HuMMuS.
Trimbour R, Deutschmann IM, Cantini L
Bioinformatics. 2024 Mar 9.

Chaotic turnover of rare and abundant species in a strongly interacting model community.
Mallmin E, Traulsen A, De Monte S
Proc Natl Acad Sci U S A. 2024 Mar 12. 121(11):e2312822121.

Chat-based Generative Pretrained Transformers sits the European Diploma in Anaesthesiology and Intensive Care Part I examination : A computational study.
Andrei S, Longrois D, Stefan MG, Stefan G
Eur J Anaesthesiol. 2024 Apr 1. 41(4):323-325.

The intersection of sleep and synaptic translation in synaptic plasticity deficits in neurodevelopmental disorders.
Coulson RL, Mourrain P, Wang GX
J Comp Physiol B. 2024 Feb 24.

Metapopulation model of phage therapy of an acute Pseudomonas aeruginosa lung infection.
Rodriguez‑Gonzalez RA, Balacheff Q, Debarbieux L, Marchi J, Weitz JS
bioRxiv. 2024 Jan 31.

Caenorhabditis elegans immune responses to microsporidia and viruses.
González R, Félix MA
Dev Comp Immunol. 2024 May. 154:105148.

Phylogenetic conservation of the interdependent homeostatic relationship of sleep regulation and redox metabolism.
Terzi A, Ngo KJ, Mourrain P
J Comp Physiol B. 2024 Feb 7.

Microglia maintain structural integrity during fetal brain morphogenesis.
Lawrence AR, Canzi A, Bridlance C, Olivié N, Lansonneur C, Catale C, Pizzamiglio L, Kloeckner B, Silvin A, Munro DAD, Fortoul A, Boido D, Zehani F, Cartonnet H, Viguier S, Oller G, Squarzoni P, Candat A, Helft J, Allet C, Watrin F, Manent JB, Paoletti P, Thieffry D, Cantini L, Pridans C, Priller J, Gélot A, Giacobini P, Ciobanu L, Ginhoux F, Thion MS, Lokmane L, Garel S
Cell. 2024 Feb 15. 187(4):962-980.e19.

The plant POLYMERASE ASSOCIATED FACTOR1 complex links transcription and H2B monoubiquitination genome-wide.
Blanco‑Touriñán N, Pérez‑Alemany J, Bourbousse C, Latrasse D, Ait‑Mohamed O, Benhamed M, Barneche F, Blázquez MA, Gallego‑Bartolomé J, Alabadí D
Plant Physiol. 2024 Jan 29.

Two adjacent NLR genes conferring quantitative resistance to clubroot disease in Arabidopsis are regulated by a stably inherited epiallelic variation.
Gravot A, Liégard B, Quadrana L, Veillet F, Aigu Y, Bargain T, Bénéjam J, Lariagon C, Lemoine J, Colot V, Manzanares‑Dauleux MJ, Jubault M
Plant Commun. 2024 Jan 23:100824.

Chromatin phase separated nanoregions explored by polymer cross-linker models and reconstructed from single particle trajectories.
Papale A, Holcman D
PLoS Comput Biol. 2024 Jan. 20(1):e1011794.

Ordovician origin and subsequent diversification of the brown algae.
Choi SW, Graf L, Choi JW, Jo J, Boo GH, Kawai H, Choi CG, Xiao S, Knoll AH, Andersen RA, Yoon HS
Curr Biol. 2024 Feb 26. 34(4):740-754.e4.

Single-molecule characterization of Sen1 translocation properties provides insights into eukaryotic factor-dependent transcription termination.
Wang S, Han Z, Strick TR
Nucleic Acids Res. 2024 Apr 12. 52(6):3249-3261.

The UBP5 histone H2A deubiquitinase counteracts PRCs-mediated repression to regulate Arabidopsis development.
Godwin J, Govindasamy M, Nedounsejian K, March E, Halton R, Bourbousse C, Wolff L, Fort A, Krzyszton M, López Corrales J, Swiezewski S, Barneche F, Schubert D, Farrona S
Nat Commun. 2024 Jan 22. 15(1):667.

Naturally-associated bacteria modulate Orsay virus infection of Caenorhabditis elegans.
González R, Félix MA
PLoS Pathog. 2024 Jan. 20(1):e1011947.

Blood Monocyte Phenotype Is A Marker of Cardiovascular Risk in Type 2 Diabetes.
Julla JB, Girard D, Diedisheim M, Saulnier PJ, Tran Vuong B, Blériot C, Carcarino E, De Keizer J, Orliaguet L, Nemazanyy I, Potier C, Khider K, Tonui DC, Ejlalmanesh T, Ballaire R, Mambu Mambueni H, Germain S, Gaborit B, Vidal‑Trécan T, Riveline JP, Garchon HJ, Fenaille F, Lemoine S, Carlier A, Castelli F, Potier L, Masson D, Roussel R, Vandiedonck C, Hadjadj S, Alzaid F, Gautier JF, Venteclef N
Circ Res. 2024 Jan 19. 134(2):189-202.

Mapping general anesthesia states based on electro-encephalogram transition phases.
Loison V, Voskobiynyk Y, Lindquist B, Necula D, Longrois D, Paz J, Holcman D
Neuroimage. 2024 Jan. 285:120498.

Hypometabolism to survive the long polar night and subsequent successful return to light in the diatom Fragilariopsis cylindrus.
Joli N, Concia L, Mocaer K, Guterman J, Laude J, Guerin S, Sciandra T, Bruyant F, Ait‑Mohamed O, Beguin M, Forget MH, Bourbousse C, Lacour T, Bailleul B, Nef C, Savoie M, Tremblay JE, Campbell DA, Lavaud J, Schwab Y, Babin M, Bowler C
New Phytol. 2024 Mar. 241(5):2193-2208.

The genetic landscape of origins of replication in P. falciparum.
Castellano CM, Lacroix L, Mathis E, Prorok P, Hennion M, Lopez‑Rubio JJ, Méchali M, Gomes AR
Nucleic Acids Res. 2024 Jan 25. 52(2):660-676.

Molecular ecology of microbiomes in the wild : Common pitfalls, methodological advances and future directions.
Fountain‑Jones NM, Giraud T, Zinger L, Bik H, Creer S, Videvall E
Mol Ecol. 2024 Jan. 33(2):e17223.

rec-1 loss of function increases recombination in the central gene clusters at the expense of autosomal pairing centers.
Parée T, Noble L, Ferreira Gonçalves J, Teotónio H
Genetics. 2024 Mar 6. 226(3).

Live-Imaging Centriole Amplification in Mouse Brain Multiciliated Cells.
Boudjema AR, Al Jord A, Lemaître AI, Faucourt M, Delgehyr N, Spassky N, Meunier A
Methods Mol Biol. 2024. 2725:167-180.

Beyond reaction norms : the temporal dynamics of phenotypic plasticity.
Dupont L, Thierry M, Zinger L, Legrand D, Jacob S
Trends Ecol Evol. 2024 Jan. 39(1):41-51.

Regulation of cold-inducible RNA-binding protein (CIRBP) in response to cellular stresses.
Corre M, Lebreton A
Biochimie. 2024 Feb. 217:3-9.


Acousto-optic holography for pseudo-two-dimensional dynamic light patterning.
Akemann W, et al.
APL Photonics. 2024 Apr 1. 9(4):046103.



2023


2023

Neonatal CD4+T cells have a characteristic transcriptome and epigenome and respond to TCR stimulation with proliferation and yet a limited immune response.
Kempis‑Calanis LA, Rodríguez‑Jorge O, Gutiérrez‑Reyna DY, Ventura‑Martínez CJ, Spicuglia S, Medina‑Rivera A, Thieffry D, González A, Santana MA
J Leukoc Biol. 2023 Dec 26.

KCNN4 links PIEZO-dependent mechanotransduction to NLRP3 inflammasome activation.
Ran L, Ye T, Erbs E, Ehl S, Spassky N, Sumara I, Zhang Z, Ricci R
Sci Immunol. 2023 Dec 22. 8(90):eadf4699.

Transfer learning for versatile and training free high content screening analyses.
Corbe M, Boncompain G, Perez F, Del Nery E, Genovesio A
Sci Rep. 2023 Dec 18. 13(1):22599.

Fast wavefront shaping for two-photon brain imaging with multipatch correction.
Blochet B, Akemann W, Gigan S, Bourdieu L
Proc Natl Acad Sci U S A. 2023 Dec 19. 120(51):e2305593120.

Neural tube-associated boundary caps are a major source of mural cells in the skin.
Gerschenfeld G, Coulpier F, Gresset A, Pulh P, Job B, Topilko T, Siegenthaler J, Kastriti ME, Brunet I, Charnay P, Topilko P
Elife. 2023 Dec 14. 12.

GluD1 binds GABA and controls inhibitory plasticity.
Piot L, Heroven C, Bossi S, Zamith J, Malinauskas T, Johnson C, Wennagel D, Stroebel D, Charrier C, Aricescu AR, Mony L, Paoletti P
Science. 2023 Dec 22. 382(6677):1389-1394.

Airway ciliated cells in adult lung homeostasis and COPD.
Petit LMG, Belgacemi R, Ancel J, Saber Cherif L, Polette M, Perotin JM, Spassky N, Pilette C, Al Alam D, Deslée G, Dormoy V
Eur Respir Rev. 2023 Dec 31. 32(170).

SCO-spondin knockout mice exhibit small brain ventricles and mild spine deformation.
Xu H, Dugué GP, Cantaut‑Belarif Y, Lejeune FX, Gupta S, Wyart C, Lehtinen MK
Fluids Barriers CNS. 2023 Dec 5. 20(1):89.

Effect of the res2 transcription factor gene deletion on protein secretion and stress response in the hyperproducer strain Trichoderma reesei Rut-C30.
Alharake J, Bidard F, Aouam T, Sénamaud‑Beaufort C, Margeot A, Heiss‑Blanquet S
BMC Microbiol. 2023 Nov 30. 23(1):374.

Prdm12 represses the expression of the visceral neuron determinants Phox2a/b in developing somatosensory ganglia.
Vermeiren S, Cabochette P, Dannawi M, Desiderio S, San José AS, Achouri Y, Kricha S, Sitte M, Salinas‑Riester G, Vanhollebeke B, Brunet JF, Bellefroid EJ
iScience. 2023 Dec 15. 26(12):108364.

Viral strain-dependent impact of plant developmental stages on the nestedness and modularity of plant-virus interaction matrices.
Melero I, Elena SF, González R
MicroPubl Biol. 2023. 2023.

rec-1 loss of function increases recombination in the central gene clusters at the expense of autosomal pairing centers.
Parée T, Noble L, Gonçalves JF, Teotónio H
Genetics. 2023 Nov 24.

Paired single-cell multi-omics data integration with Mowgli.
Huizing GJ, Deutschmann IM, Peyré G, Cantini L
Nat Commun. 2023 Nov 24. 14(1):7711.

Fluorescence to measure light intensity.
Lahlou A, Tehrani HS, Coghill I, Shpinov Y, Mandal M, Plamont MA, Aujard I, Niu Y, Nedbal L, Lazár D, Mahou P, Supatto W, Beaurepaire E, Eisenmann I, Desprat N, Croquette V, Jeanneret R, Le Saux T, Jullien L
Nat Methods. 2023 Dec. 20(12):1930-1938.

Mechanisms of NMDA receptor regulation.
Mony L, Paoletti P
Curr Opin Neurobiol. 2023 Dec. 83:102815.

Genome-wide association and environmental suppression of the mortal germline phenotype of wild C. elegans.
Frézal L, Saglio M, Zhang G, Noble L, Richaud A, Félix MA
EMBO Rep. 2023 Dec 6. 24(12):e58116.

Convergent adaptation of true crabs (Decapoda : Brachyura) to a gradient of terrestrial environments.
Wolfe JM, Ballou L, Luque J, Watson‑Zink VM, Ahyong ST, Barido‑Sottani J, Chan TY, Chu KH, Crandall KA, Daniels SR, Felder DL, Mancke H, Martin JW, Ng PKL, Ortega‑Hernández J, Palacios Theil E, Pentcheff ND, Robles R, Thoma BP, Tsang LM, Wetzer R, Windsor AM, Bracken‑Grissom HD
Syst Biol. 2023 Nov 6.

Alternative splicing induced by bacterial pore-forming toxins sharpens CIRBP-mediated cell response to Listeria infection.
Corre M, Boehm V, Besic V, Kurowska A, Viry A, Mohammad A, Sénamaud‑Beaufort C, Thomas‑Chollier M, Lebreton A
Nucleic Acids Res. 2023 Dec 11. 51(22):12459-12475.

Comprehensive mapping of exon junction complex binding sites reveals universal EJC deposition in Drosophila.
Morillo L, Paternina T, Alasseur Q, Genovesio A, Schwartz S, Le Hir H
BMC Biol. 2023 Nov 7. 21(1):246.

iPS-cell-derived microglia promote brain organoid maturation via cholesterol transfer.
Park DS, Kozaki T, Tiwari SK, Moreira M, Khalilnezhad A, Torta F, Olivié N, Thiam CH, Liani O, Silvin A, Phoo WW, Gao L, Triebl A, Tham WK, Gonçalves L, Kong WT, Raman S, Zhang XM, Dunsmore G, Dutertre CA, Lee S, Ong JM, Balachander A, Khalilnezhad S, Lum J, Duan K, Lim ZM, Tan L, Low I, Utami KH, Yeo XY, Di Tommaso S, Dupuy JW, Varga B, Karadottir RT, Madathummal MC, Bonne I, Malleret B, Binte ZY, Wei Da N, Tan Y, Wong WJ, Zhang J, Chen J, Sobota RM, Howland SW, Ng LG, Saltel F, Castel D, Grill J, Minard V, Albani S, Chan JKY, Thion MS, Jung SY, Wenk MR, Pouladi MA, Pasqualini C, Angeli V, Cexus ONF, Ginhoux F
Nature. 2023 Nov. 623(7986):397-405.

Local glycolysis fuels actomyosin contraction during axonal retraction.
Santos R, Lokmane L, Ozdemir D, Traoré C, Agesilas A, Hakibilen C, Lenkei Z, Zala D
J Cell Biol. 2023 Dec 4. 222(12).

Choroid plexuses carry nodal-like cilia that undergo axoneme regression from early adult stage.
Ho KH, Candat A, Scarpetta V, Faucourt M, Weill S, Salio C, D’Este E, Meschkat M, Wurm CA, Kneussel M, Janke C, Magiera MM, Genovesio A, Meunier A, Sassoè‑Pognetto M, Brill MS, Spassky N, Patrizi A
Dev Cell. 2023 Dec 4. 58(23):2641-2651.e6.

Radial astrocyte synchronization modulates the visual system during behavioral-state transitions.
Uribe‑Arias A, Rozenblat R, Vinepinsky E, Marachlian E, Kulkarni A, Zada D, Privat M, Topsakalian D, Charpy S, Candat V, Nourin S, Appelbaum L, Sumbre G
Neuron. 2023 Dec 20. 111(24):4040-4057.e6.

Revealing invisible cell phenotypes with conditional generative modeling.
Lamiable A, Champetier T, Leonardi F, Cohen E, Sommer P, Hardy D, Argy N, Massougbodji A, Del Nery E, Cottrell G, Kwon YJ, Genovesio A
Nat Commun. 2023 Oct 11. 14(1):6386.

Transcriptomic landscape of posterior regeneration in the annelid Platynereis dumerilii.
Paré L, Bideau L, Baduel L, Dalle C, Benchouaia M, Schneider SQ, Laplane L, Clément Y, Vervoort M, Gazave E
BMC Genomics. 2023 Oct 2. 24(1):583.

Gains and losses of the epiphytic lifestyle in epidendroid orchids : review and new analyses of succulence traits.
Collobert G, Perez‑Lamarque B, Dubuisson JY, Martos F
Ann Bot. 2023 Nov 25. 132(4):787-800.

Disentangling local and global climate drivers in the population dynamics of mosquito-borne infections.
Cazelles B, Cazelles K, Tian H, Chavez M, Pascual M
Sci Adv. 2023 Sep 29. 9(39):eadf7202.

A protocol for whole-brain Ca(2+) imaging in Astyanax mexicanus, a model of comparative evolution.
Lloyd E, Privat M, Sumbre G, Duboué ER, Keene AC
STAR Protoc. 2023 Sep 23. 4(4):102517.

Predicting global distributions of eukaryotic plankton communities from satellite data.
Kaneko H, Endo H, Henry N, Berney C, Mahé F, Poulain J, Labadie K, Beluche O, El Hourany R, Chaffron S, Wincker P, Nakamura R, Karp‑Boss L, Boss E, Bowler C, de Vargas C, Tomii K, Ogata H
ISME Commun. 2023 Sep 22. 3(1):101.

Human-environment feedback and the consistency of proenvironmental behavior.
Ecotière C, Billiard S, André JB, Collet P, Ferrière R, Méléard S
PLoS Comput Biol. 2023 Sep. 19(9):e1011429.

Self-organizing models of human trunk organogenesis recapitulate spinal cord and spine co-morphogenesis.
Gribaudo S, Robert R, van Sambeek B, Mirdass C, Lyubimova A, Bouhali K, Ferent J, Morin X, van Oudenaarden A, Nedelec S
Nat Biotechnol. 2023 Sep 14.

Multi-feature clustering of CTCF binding creates robustness for loop extrusion blocking and Topologically Associating Domain boundaries.
Chang LH, Ghosh S, Papale A, Luppino JM, Miranda M, Piras V, Degrouard J, Edouard J, Poncelet M, Lecouvreur N, Bloyer S, Leforestier A, Joyce EF, Holcman D, Noordermeer D
Nat Commun. 2023 Sep 12. 14(1):5615.

Real-time detection of virus antibody interaction by label-free common-path interferometry.
Alhaddad S, Bey H, Thouvenin O, Boulanger P, Boccara C, Boccara M, Izeddin I
Biophys Rep (N Y). 2023 Sep 13. 3(3):100119.

Top abundant deep ocean heterotrophic bacteria can be retrieved by cultivation.
Sanz‑Sáez I, Sánchez P, Salazar G, Sunagawa S, de Vargas C, Bowler C, Sullivan MB, Wincker P, Karsenti E, Pedrós‑Alió C, Agustí S, Gojobori T, Duarte CM, Gasol JM, Sánchez O, Acinas SG
ISME Commun. 2023 Sep 2. 3(1):92.

Selection and the direction of phenotypic evolution.
Mallard F, Afonso B, Teotónio H
Elife. 2023 Aug 31. 12.

Global determinants of insect mitochondrial genetic diversity.
French CM, Bertola LD, Carnaval AC, Economo EP, Kass JM, Lohman DJ, Marske KA, Meier R, Overcast I, Rominger AJ, Staniczenko PPA, Hickerson MJ
Nat Commun. 2023 Aug 29. 14(1):5276.

Phylogenetic modeling of enhancer shifts in African mole-rats reveals regulatory changes associated with tissue-specific traits.
Parey E, Fernandez‑Aroca D, Frost S, Uribarren A, Park TJ, Zöttl M, St John Smith E, Berthelot C, Villar D
Genome Res. 2023 Sep. 33(9):1513-1526.

Ocean-wide comparisons of mesopelagic planktonic community structures.
Rigonato J, Budinich M, Murillo AA, Brandão MC, Pierella Karlusich JJ, Soviadan YD, Gregory AC, Endo H, Kokoszka F, Vik D, Henry N, Frémont P, Labadie K, Zayed AA, Dimier C, Picheral M, Searson S, Poulain J, Kandels S, Pesant S, Karsenti E, Bork P, Bowler C, de Vargas C, Eveillard D, Gehlen M, Iudicone D, Lombard F, Ogata H, Stemmann L, Sullivan MB, Sunagawa S, Wincker P, Chaffron S, Jaillon O
ISME Commun. 2023 Aug 18. 3(1):83.

Model of membrane deformations driven by a surface pH gradient.
Mendes TV, Ranft J, Berthoumieux H
Phys Rev E. 2023 Jul. 108(1-1):014113.

Special issue : Synaptic logistics - Maintenance of synaptic composition, properties and function.
Ziv NE, Triller A
Mol Cell Neurosci. 2023 Dec. 127:103885.

Deep Learning from Phylogenies for Diversification Analyses.
Lambert S, Voznica J, Morlon H
Syst Biol. 2023 Aug 9.

Plasticity of thalamocortical axons is regulated by serotonin levels modulated by preterm birth.
Sinclair‑Wilson A, Lawrence A, Ferezou I, Cartonnet H, Mailhes C, Garel S, Lokmane L
Proc Natl Acad Sci U S A. 2023 Aug 15. 120(33):e2301644120.

Rif1 restrains the rate of replication origin firing in Xenopus laevis.
Haccard O, Ciardo D, Narrissamprakash H, Bronchain O, Kumagai A, Dunphy WG, Goldar A, Marheineke K
Commun Biol. 2023 Jul 29. 6(1):788.

Histone H1 protects telomeric repeats from H3K27me3 invasion in Arabidopsis.
Teano G, Concia L, Wolff L, Carron L, Biocanin I, Adamusová K, Fojtová M, Bourge M, Kramdi A, Colot V, Grossniklaus U, Bowler C, Baroux C, Carbone A, Probst AV, Schrumpfová PP, Fajkus J, Amiard S, Grob S, Bourbousse C, Barneche F
Cell Rep. 2023 Aug 29. 42(8):112894.

A genome-wide screen reveals new regulators of the 2-cell-like cell state.
Gupta N, Yakhou L, Albert JR, Azogui A, Ferry L, Kirsh O, Miura F, Battault S, Yamaguchi K, Laisné M, Domrane C, Bonhomme F, Sarkar A, Delagrange M, Ducos B, Cristofari G, Ito T, Greenberg MVC, Defossez PA
Nat Struct Mol Biol. 2023 Aug. 30(8):1105-1118.

Evolutionary modifications of Astyanax larval prey capture (LPC) in a dark environment.
Espinasa L, Diamant R, Vinepinsky E, Espinasa M
Zool Res. 2023 Jul 18. 44(4):750-760.

Differences in carbonate chemistry up-regulation of long-lived reef-building corals.
Canesi M, Douville E, Montagna P, Taviani M, Stolarski J, Bordier L, Dapoigny A, Coulibaly GEH, Simon AC, Agelou M, Fin J, Metzl N, Iwankow G, Allemand D, Planes S, Moulin C, Lombard F, Bourdin G, Troublé R, Agostini S, Banaigs B, Boissin E, Boss E, Bowler C, de Vargas C, Flores M, Forcioli D, Furla P, Gilson E, Galand PE, Pesant S, Sunagawa S, Thomas OP, Vega Thurber R, Voolstra CR, Wincker P, Zoccola D, Reynaud S
Sci Rep. 2023 Jul 18. 13(1):11589.

Diversity of dynamic voltage patterns in neuronal dendrites revealed by nanopipette electrophysiology.
Mc Hugh J, Makarchuk S, Mozheiko D, Fernandez‑Villegas A, Kaminski Schierle GS, Kaminski CF, Keyser UF, Holcman D, Rouach N
Nanoscale. 2023 Jul 27. 15(29):12245-12254.

The genetic basis of epigenetic variation and its consequences for adaptation.
Baduel P, Sasaki E
Curr Opin Plant Biol. 2023 Oct. 75:102409.

G4access identifies G-quadruplexes and their associations with open chromatin and imprinting control regions.
Esnault C, Magat T, Zine El Aabidine A, Garcia‑Oliver E, Cucchiarini A, Bouchouika S, Lleres D, Goerke L, Luo Y, Verga D, Lacroix L, Feil R, Spicuglia S, Mergny JL, Andrau JC
Nat Genet. 2023 Aug. 55(8):1359-1369.

Editorial : Neurobiology of Drosophila : the 19th NeuroFly-2022 meeting.
Martin JR, Chatterjee A, Salecker I
Front Physiol. 2023. 14:1237065.

Natural antisense transcription of presenilin in sea urchin reveals a possible role for natural antisense transcription in the general control of gene expression during development.
Bronchain O, Ducos B, Putzer H, Delagrange M, Laalami S, Philippe‑Caraty L, Saroul K, Ciapa B
J Cell Sci. 2023 Jul 15. 136(14).

Diverse eukaryotic phytoplankton from around the Marquesas Islands documented by combined microscopy and molecular techniques.
Veselá‑Strejcová J, Scalco E, Zingone A, Colin S, Caputi L, Sarno D, Nebesářová J, Bowler C, Lukeš J
Protist. 2023 Aug. 174(4):125965.

Phylogenetic Comparative Approach Reveals Evolutionary Conservatism, Ancestral Composition, and Integration of Vertebrate Gut Microbiota.
Perez‑Lamarque B, Sommeria‑Klein G, Duret L, Morlon H
Mol Biol Evol. 2023 Jul 5. 40(7).

Repurposing of the multiciliation gene regulatory network in fate specification of Cajal-Retzius neurons.
Moreau MX, Saillour Y, Elorriaga V, Bouloudi B, Delberghe E, Deutsch Guerrero T, Ochandorena‑Saa A, Maeso‑Alonso L, Marques MM, Marin MC, Spassky N, Pierani A, Causeret F
Dev Cell. 2023 Aug 7. 58(15):1365-1382.e6.

Y-complex nucleoporins independently contribute to nuclear pore assembly and gene regulation in neuronal progenitors.
Orniacki C, Verrico A, Pelletier S, Souquet B, Coulpier F, Jourdren L, Benetti S, Doye V
J Cell Sci. 2023 Jun 1. 136(11).

Artificial selection of communities drives the emergence of structured interactions.
Fraboul J, Biroli G, De Monte S
J Theor Biol. 2023 Aug 21. 571:111557.

Combining DNA scaffolds and acoustic force spectroscopy to characterize individual protein bonds.
Wang YJ, Valotteau C, Aimard A, Villanueva L, Kostrz D, Follenfant M, Strick T, Chames P, Rico F, Gosse C, Limozin L
Biophys J. 2023 Jun 20. 122(12):2518-2530.

Magnetic actuation of otoliths allows behavioral and brain-wide neuronal exploration of vestibulo-motor processing in larval zebrafish.
Beiza‑Canelo N, Moulle H, Pujol T, Panier T, Migault G, Le Goc G, Tapie P, Desprat N, Straka H, Debrégeas G, Bormuth V
Curr Biol. 2023 Jun 19. 33(12):2438-2448.e6.

A QTL on chromosome IV explains a natural variation of QR.pap final position in Caenorhabditis elegans.
Dubois C, Félix MA
MicroPubl Biol. 2023. 2023.

Pervasive tandem duplications and convergent evolution shape coral genomes.
Noel B, Denoeud F, Rouan A, Buitrago‑López C, Capasso L, Poulain J, Boissin E, Pousse M, Da Silva C, Couloux A, Armstrong E, Carradec Q, Cruaud C, Labadie K, Lê‑Hoang J, Tambutté S, Barbe V, Moulin C, Bourdin G, Iwankow G, Romac S, Agostini S, Banaigs B, Boss E, Bowler C, de Vargas C, Douville E, Flores JM, Forcioli D, Furla P, Galand PE, Lombard F, Pesant S, Reynaud S, Sullivan MB, Sunagawa S, Thomas OP, Troublé R, Thurber RV, Allemand D, Planes S, Gilson E, Zoccola D, Wincker P, Voolstra CR, Aury JM
Genome Biol. 2023 Jun 1. 24(1):123.

Endogenous viral elements reveal associations between a non-retroviral RNA virus and symbiotic dinoflagellate genomes.
Veglia AJ, Bistolas KSI, Voolstra CR, Hume BCC, Ruscheweyh HJ, Planes S, Allemand D, Boissin E, Wincker P, Poulain J, Moulin C, Bourdin G, Iwankow G, Romac S, Agostini S, Banaigs B, Boss E, Bowler C, de Vargas C, Douville E, Flores M, Forcioli D, Furla P, Galand PE, Gilson E, Lombard F, Pesant S, Reynaud S, Sunagawa S, Thomas OP, Troublé R, Zoccola D, Correa AMS, Vega Thurber RL
Commun Biol. 2023 Jun 1. 6(1):566.

Integrative omics framework for characterization of coral reef ecosystems from the Tara Pacific expedition.
Belser C, Poulain J, Labadie K, Gavory F, Alberti A, Guy J, Carradec Q, Cruaud C, Da Silva C, Engelen S, Mielle P, Perdereau A, Samson G, Gas S, Voolstra CR, Galand PE, Flores JM, Hume BCC, Perna G, Ziegler M, Ruscheweyh HJ, Boissin E, Romac S, Bourdin G, Iwankow G, Moulin C, Paz García DA, Agostini S, Banaigs B, Boss E, Bowler C, de Vargas C, Douville E, Forcioli D, Furla P, Gilson E, Lombard F, Pesant S, Reynaud S, Sunagawa S, Thomas OP, Troublé R, Thurber RV, Zoccola D, Scarpelli C, Jacoby EK, Oliveira PH, Aury JM, Allemand D, Planes S, Wincker P
Sci Data. 2023 Jun 1. 10(1):326.

Host transcriptomic plasticity and photosymbiotic fidelity underpin Pocillopora acclimatization across thermal regimes in the Pacific Ocean.
Armstrong EJ, Lê‑Hoang J, Carradec Q, Aury JM, Noel B, Hume BCC, Voolstra CR, Poulain J, Belser C, Paz‑García DA, Cruaud C, Labadie K, Da Silva C, Moulin C, Boissin E, Bourdin G, Iwankow G, Romac S, Agostini S, Banaigs B, Boss E, Bowler C, de Vargas C, Douville E, Flores M, Forcioli D, Furla P, Galand PE, Gilson E, Lombard F, Pesant S, Reynaud S, Sullivan MB, Sunagawa S, Thomas OP, Troublé R, Thurber RV, Zoccola D, Planes S, Allemand D, Wincker P
Nat Commun. 2023 Jun 1. 14(1):3056.

Open science resources from the Tara Pacific expedition across coral reef and surface ocean ecosystems.
Lombard F, Bourdin G, Pesant S, Agostini S, Baudena A, Boissin E, Cassar N, Clampitt M, Conan P, Da Silva O, Dimier C, Douville E, Elineau A, Fin J, Flores JM, Ghiglione JF, Hume BCC, Jalabert L, John SG, Kelly RL, Koren I, Lin Y, Marie D, McMinds R, Mériguet Z, Metzl N, Paz‑García DA, Pedrotti ML, Poulain J, Pujo‑Pay M, Ras J, Reverdin G, Romac S, Rouan A, Röttinger E, Vardi A, Voolstra CR, Moulin C, Iwankow G, Banaigs B, Bowler C, de Vargas C, Forcioli D, Furla P, Galand PE, Gilson E, Reynaud S, Sunagawa S, Sullivan MB, Thomas OP, Troublé R, Thurber RV, Wincker P, Zoccola D, Allemand D, Planes S, Boss E, Gorsky G
Sci Data. 2023 Jun 1. 10(1):324.

Ecology of Endozoicomonadaceae in three coral genera across the Pacific Ocean.
Hochart C, Paoli L, Ruscheweyh HJ, Salazar G, Boissin E, Romac S, Poulain J, Bourdin G, Iwankow G, Moulin C, Ziegler M, Porro B, Armstrong EJ, Hume BCC, Aury JM, Pogoreutz C, Paz‑García DA, Nugues MM, Agostini S, Banaigs B, Boss E, Bowler C, de Vargas C, Douville E, Flores M, Forcioli D, Furla P, Gilson E, Lombard F, Pesant S, Reynaud S, Thomas OP, Troublé R, Wincker P, Zoccola D, Allemand D, Planes S, Thurber RV, Voolstra CR, Sunagawa S, Galand PE
Nat Commun. 2023 Jun 1. 14(1):3037.

Diversity of the Pacific Ocean coral reef microbiome.
Galand PE, Ruscheweyh HJ, Salazar G, Hochart C, Henry N, Hume BCC, Oliveira PH, Perdereau A, Labadie K, Belser C, Boissin E, Romac S, Poulain J, Bourdin G, Iwankow G, Moulin C, Armstrong EJ, Paz‑García DA, Ziegler M, Agostini S, Banaigs B, Boss E, Bowler C, de Vargas C, Douville E, Flores M, Forcioli D, Furla P, Gilson E, Lombard F, Pesant S, Reynaud S, Thomas OP, Troublé R, Zoccola D, Voolstra CR, Thurber RV, Sunagawa S, Wincker P, Allemand D, Planes S
Nat Commun. 2023 Jun 1. 14(1):3039.

Telomere DNA length regulation is influenced by seasonal temperature differences in short-lived but not in long-lived reef-building corals.
Rouan A, Pousse M, Djerbi N, Porro B, Bourdin G, Carradec Q, Hume BC, Poulain J, Lê‑Hoang J, Armstrong E, Agostini S, Salazar G, Ruscheweyh HJ, Aury JM, Paz‑García DA, McMinds R, Giraud‑Panis MJ, Deshuraud R, Ottaviani A, Morini LD, Leone C, Wurzer L, Tran J, Zoccola D, Pey A, Moulin C, Boissin E, Iwankow G, Romac S, de Vargas C, Banaigs B, Boss E, Bowler C, Douville E, Flores M, Reynaud S, Thomas OP, Troublé R, Thurber RV, Planes S, Allemand D, Pesant S, Galand PE, Wincker P, Sunagawa S, Röttinger E, Furla P, Voolstra CR, Forcioli D, Lombard F, Gilson E
Nat Commun. 2023 Jun 1. 14(1):3038.

Neural network and kinetic modelling of human genome replication reveal replication origin locations and strengths.
Arbona JM, Kabalane H, Barbier J, Goldar A, Hyrien O, Audit B
PLoS Comput Biol. 2023 May. 19(5):e1011138.

Excitatory GluN1/GluN3A glycine receptors (eGlyRs) in brain signaling.
Bossi S, Pizzamiglio L, Paoletti P
Trends Neurosci. 2023 Aug. 46(8):667-681.

Single-cell phenotypic plasticity modulates social behavior in Dictyostelium discoideum.
Forget M, Adiba S, De Monte S
iScience. 2023 Jun 16. 26(6):106783.

Cerebellar control of fear learning via the cerebellar nuclei-Multiple pathways, multiple mechanisms ?
Urrutia Desmaison JD, Sala RW, Ayyaz A, Nondhalee P, Popa D, Léna C
Front Syst Neurosci. 2023. 17:1176668.

Inferring the ecological and evolutionary determinants of community genetic diversity.
Overcast I, Noguerales V, Meramveliotakis E, Andújar C, Arribas P, Creedy TJ, Emerson BC, Vogler AP, Papadopoulou A, Morlon H
Mol Ecol. 2023 Dec. 32(23):6093-6109.

Upregulation of breathing rate during running exercise by central locomotor circuits in mice.
Hérent C, Diem S, Usseglio G, Fortin G, Bouvier J
Nat Commun. 2023 May 22. 14(1):2939.

Theory of the asynchronous state of structured rotator networks and its application to recurrent networks of excitatory and inhibitory units.
Ranft J, Lindner B
Phys Rev E. 2023 Apr. 107(4-1):044306.

Wavelet clustering analysis as a tool for characterizing community structure in the human microbiome.
Benincà E, Pinto S, Cazelles B, Fuentes S, Shetty S, Bogaards JA
Sci Rep. 2023 May 17. 13(1):8042.

Prox2 and Runx3 vagal sensory neurons regulate esophageal motility.
Lowenstein ED, Ruffault PL, Misios A, Osman KL, Li H, Greenberg RS, Thompson R, Song K, Dietrich S, Li X, Vladimirov N, Woehler A, Brunet JF, Zampieri N, Kühn R, Liberles SD, Jia S, Lewin GR, Rajewsky N, Lever TE, Birchmeier C
Neuron. 2023 Jul 19. 111(14):2184-2200.e7.

Protein Biomarkers of New-Onset Heart Failure : Insights From the Heart Omics and Ageing Cohort, the Atherosclerosis Risk in Communities Study, and the Framingham Heart Study.
Girerd N, Levy D, Duarte K, Ferreira JP, Ballantyne C, Collier T, Pizard A, Björkman J, Butler J, Clark A, Cleland JG, Delles C, Diez J, González A, Hazebroek M, Ho J, Huby AC, Hwang SJ, Latini R, Mariottoni B, Mebazaa A, Pellicori P, Sattar N, Sever P, Staessen JA, Verdonschot J, Heymans S, Rossignol P, Zannad F
Circ Heart Fail. 2023 May. 16(5):e009694.

Precise temporal control of neuroblast migration through combined regulation and feedback of a Wnt receptor.
Schild ES, Gupta S, Dubois C, Fernandes Póvoa EE, Félix MA, Mugler A, Korswagen HC
Elife. 2023 May 15. 12.

The ClaDS rate-heterogeneous birth-death prior for full phylogenetic inference in BEAST2.
Barido‑Sottani J, Morlon H
Syst Biol. 2023 Nov 1. 72(5):1180-1187.

The build-up of the present-day tropical diversity of tetrapods.
Quintero I, Landis MJ, Jetz W, Morlon H
Proc Natl Acad Sci U S A. 2023 May 16. 120(20):e2220672120.

Dynamics of Gene Loss following Ancient Whole-Genome Duplication in the Cryptic Paramecium Complex.
Gout JF, Hao Y, Johri P, Arnaiz O, Doak TG, Bhullar S, Couloux A, Guérin F, Malinsky S, Potekhin A, Sawka N, Sperling L, Labadie K, Meyer E, Duharcourt S, Lynch M
Mol Biol Evol. 2023 May 2. 40(5).

The MIR34B/C genomic region contains multiple potential regulators of multiciliogenesis.
Cavard A, Redman E, Mercey O, Abelanet S, Plaisant M, Arguel MJ, Magnone V, Ruiz García S, Rios G, Deprez M, Lebrigand K, Ponzio G, Caballero I, Barbry P, Zaragosi LE, Marcet B
FEBS Lett. 2023 Jun. 597(12):1623-1637.

Boundary vector cells in the goldfish central telencephalon encode spatial information.
Cohen L, Vinepinsky E, Donchin O, Segev R
PLoS Biol. 2023 Apr. 21(4):e3001747.

Multifaceted microglia during brain development : Models and tools.
Bridlance C, Thion MS
Front Neurosci. 2023. 17:1125729.

High Growth Rate of Diatoms Explained by Reduced Carbon Requirement and Low Energy Cost of Silica Deposition.
Inomura K, Pierella Karlusich JJ, Dutkiewicz S, Deutsch C, Harrison PJ, Bowler C
Microbiol Spectr. 2023 Jun 15. 11(3):e0331122.

Interpreting the pervasive observation of U-shaped Site Frequency Spectra.
Freund F, Kerdoncuff E, Matuszewski S, Lapierre M, Hildebrandt M, Jensen JD, Ferretti L, Lambert A, Sackton TB, Achaz G
PLoS Genet. 2023 Mar. 19(3):e1010677.

Spectral EEG correlations from the different phases of general anesthesia.
Sun C, Longrois D, Holcman D
Front Med (Lausanne). 2023. 10:1009434.

Filopodia-like protrusions of adjacent somatic cells shape the developmental potential of oocytes.
Crozet F, Letort G, Bulteau R, Da Silva C, Eichmuller A, Tortorelli AF, Blévinal J, Belle M, Dumont J, Piolot T, Dauphin A, Coulpier F, Chédotal A, Maître JL, Verlhac MH, Clarke HJ, Terret ME
Life Sci Alliance. 2023 Jun. 6(6).

The cerebellum regulates fear extinction through thalamo-prefrontal cortex interactions in male mice.
Frontera JL, Sala RW, Georgescu IA, Baba Aissa H, d’Almeida MN, Popa D, Léna C
Nat Commun. 2023 Mar 17. 14(1):1508.

At the crossroads of epidemiology and biology : Bridging the gap between SARS-CoV-2 viral strain properties and epidemic wave characteristics.
Poydenot F, Lebreton A, Haiech J, Andreotti B
Biochimie. 2023 Oct. 213:54-65.

Direct whole-cell patch-clamp recordings from small boutons in rodent primary neocortical neuron cultures.
Ritzau‑Jost A, Nerlich J, Kaas T, Krueger M, Tsintsadze T, Eilers J, Barbour B, Smith SM, Hallermann S
STAR Protoc. 2023 Mar 14. 4(2):102168.

Beta oscillations and waves in motor cortex can be accounted for by the interplay of spatially structured connectivity and fluctuating inputs.
Kang L, Ranft J, Hakim V
Elife. 2023 Mar 14. 12.

Light-dependent signal transduction in the marine diatom Phaeodactylum tricornutum.
Agarwal A, Levitan O, Cruz de Carvalho H, Falkowski PG
Proc Natl Acad Sci U S A. 2023 Mar 14. 120(11):e2216286120.

The model diatom Phaeodactylum tricornutum provides insights into the diversity and function of microeukaryotic DNA methyltransferases.
Hoguin A, Yang F, Groisillier A, Bowler C, Genovesio A, Ait‑Mohamed O, Vieira FRJ, Tirichine L
Commun Biol. 2023 Mar 9. 6(1):253.

Evolution is not Uniform Along Coding Sequences.
Bricout R, Weil D, Stroebel D, Genovesio A, Roest Crollius H
Mol Biol Evol. 2023 Mar 4. 40(3).

Horizontal Gene Transfer and Fusion Spread Carotenogenesis Among Diverse Heterotrophic Protists.
Rius M, Rest JS, Filloramo GV, Novák Vanclová AMG, Archibald JM, Collier JL
Genome Biol Evol. 2023 Mar 3. 15(3).

Interactive nanocluster compaction of the ELKS scaffold and Cacophony Ca(2+) channels drives sustained active zone potentiation.
Ghelani T, Escher M, Thomas U, Esch K, Lützkendorf J, Depner H, Maglione M, Parutto P, Gratz S, Matkovic‑Rachid T, Ryglewski S, Walter AM, Holcman D, O’Connor Giles K, Heine M, Sigrist SJ
Sci Adv. 2023 Feb 17. 9(7):eade7804.

Characterization of a Marine Diatom Chitin Synthase Using a Combination of Meta-Omics, Genomics, and Heterologous Expression Approaches.
Shao Z, Ampomah O, Vieira FRJ, Dorrell RG, Li S, Tirichine L, Bulone V, Duan D, Bowler C
mSystems. 2023 Apr 27. 8(2):e0113122.

Single-cytosine methylation at W-boxes repels binding of WRKY transcription factors through steric hindrance.
Charvin M, Halter T, Blanc‑Mathieu R, Barraud P, Aumont‑Nicaise M, Parcy F, Navarro L
Plant Physiol. 2023 May 2. 192(1):77-84.

Differential expression patterns of long noncoding RNAs in a pleiomorphic diatom and relation to hyposalinity.
Debit A, Charton F, Pierre‑Elies P, Bowler C, Cruz de Carvalho H
Sci Rep. 2023 Feb 10. 13(1):2440.

Genome structures resolve the early diversification of teleost fishes.
Parey E, Louis A, Montfort J, Bouchez O, Roques C, Iampietro C, Lluch J, Castinel A, Donnadieu C, Desvignes T, Floi Bucao C, Jouanno E, Wen M, Mejri S, Dirks R, Jansen H, Henkel C, Chen WJ, Zahm M, Cabau C, Klopp C, Thompson AW, Robinson‑Rechavi M, Braasch I, Lecointre G, Bobe J, Postlethwait JH, Berthelot C, Roest Crollius H, Guiguen Y
Science. 2023 Feb 10. 379(6632):572-575.

PlantACT ! - how to tackle the climate crisis.
Hirt H, Al‑Babili S, Almeida‑Trapp M, Martin A, Aranda M, Bartels D, Bennett M, Blilou I, Boer D, Boulouis A, Bowler C, Brunel‑Muguet S, Chardon F, Colcombet J, Colot V, Daszkowska‑Golec A, Dinneny JR, Field B, Froehlich K, Gardener CH, Gojon A, Gomès E, Gomez‑Alvarez EM, Gutierrez C, Havaux M, Hayes S, Heard E, Hodges M, Alghamdi AK, Laplaze L, Lauersen KJ, Leonhardt N, Johnson X, Jones J, Kollist H, Kopriva S, Krapp A, Masson ML, McCabe MF, Merendino L, Molina A, Moreno Ramirez JL, Mueller‑Roeber B, Nicolas M, Nir I, Orduna IO, Pardo JM, Reichheld JP, Rodriguez PL, Rouached H, Saad MM, Schlögelhofer P, Singh KA, De Smet I, Stanschewski C, Stra A, Tester M, Walsh C, Weber APM, Weigel D, Wigge P, Wrzaczek M, Wulff BBH, Young IM
Trends Plant Sci. 2023 May. 28(5):537-543.

High-throughput droplet-based analysis of influenza A virus genetic reassortment by single-virus RNA sequencing.
Chen KY, Karuppusamy J, O’Neill MB, Opuu V, Bahin M, Foulon S, Ibanez P, Quintana‑Murci L, Ozawa T, van der Werf S, Nghe P, Naffakh N, Griffiths A, Isel C
Proc Natl Acad Sci U S A. 2023 Feb 7. 120(6):e2211098120.

Bottlenecks can constrain and channel evolutionary paths.
Gamblin J, Gandon S, Blanquart F, Lambert A
Genetics. 2023 May 26. 224(2).

Author Correction : Astroblastomas exhibit radial glia stem cell lineages and differential expression of imprinted and X-inactivation escape genes.
Lehman NL, Spassky N, Sak M, Webb A, Zumbar CT, Usubalieva A, Alkhateeb KJ, McElroy JP, Maclean KH, Fadda P, Liu T, Gangalapudi V, Carver J, Abdullaev Z, Timmers C, Parker JR, Pierson CR, Mobley BC, Gokden M, Hattab EM, Parrett T, Cooke RX, Lehman TD, Costinean S, Parwani A, Williams BJ, Jensen RL, Aldape K, Mistry AM
Nat Commun. 2023 Jan 31. 14(1):507.

SCORPiOs, a Novel Method to Reconstruct Gene Phylogenies in the Context of a Known WGD Event.
Parey E, Roest Crollius H, Berthelot C
Methods Mol Biol. 2023. 2545:155-173.

Towards evolutionary predictions : Current promises and challenges.
Wortel MT, Agashe D, Bailey SF, Bank C, Bisschop K, Blankers T, Cairns J, Colizzi ES, Cusseddu D, Desai MM, van Dijk B, Egas M, Ellers J, Groot AT, Heckel DG, Johnson ML, Kraaijeveld K, Krug J, Laan L, Lässig M, Lind PA, Meijer J, Noble LM, Okasha S, Rainey PB, Rozen DE, Shitut S, Tans SJ, Tenaillon O, Teotónio H, de Visser JAGM, Visser ME, Vroomans RMA, Werner GDA, Wertheim B, Pennings PS
Evol Appl. 2023 Jan. 16(1):3-21.

Plastic responses lead to increased neurotoxin production in the diatom Pseudo-nitzschia under ocean warming and acidification.
Xu D, Zheng G, Brennan G, Wang Z, Jiang T, Sun K, Fan X, Bowler C, Zhang X, Zhang Y, Wang W, Wang Y, Li Y, Wu H, Li Y, Fu FX, Hutchins DA, Tan Z, Ye N
ISME J. 2023 Apr. 17(4):525-536.

Genome-wide measurement of DNA replication fork directionality and quantification of DNA replication initiation and termination with Okazaki fragment sequencing.
Wu X, Liu Y, d’Aubenton‑Carafa Y, Thermes C, Hyrien O, Chen CL, Petryk N
Nat Protoc. 2023 Apr. 18(4):1260-1295.

Data-driven multiscale dynamical framework to control a pandemic evolution with non-pharmaceutical interventions.
Reingruber J, Papale A, Ruckly S, Timsit JF, Holcman D
PLoS One. 2023. 18(1):e0278882.

Reconstruction of hundreds of reference ancestral genomes across the eukaryotic kingdom.
Muffato M, Louis A, Nguyen NTT, Lucas J, Berthelot C, Roest Crollius H
Nat Ecol Evol. 2023 Mar. 7(3):355-366.

Annexin A1 is a polarity cue that directs mitotic spindle orientation during mammalian epithelial morphogenesis.
Fankhaenel M, Hashemi FSG, Mourao L, Lucas E, Hosawi MM, Skipp P, Morin X, Scheele CLGJ, Elias S
Nat Commun. 2023 Jan 11. 14(1):151.

Exclusion of m6A from splice-site proximal regions by the exon junction complex dictates m6A topologies and mRNA stability.
Uzonyi A, Dierks D, Nir R, Kwon OS, Toth U, Barbosa I, Burel C, Brandis A, Rossmanith W, Le Hir H, Slobodin B, Schwartz S
Mol Cell. 2023 Jan 19. 83(2):237-251.e7.

Guidelines for G-quadruplexes : I. In vitro characterization.
Luo Y, Granzhan A, Marquevielle J, Cucchiarini A, Lacroix L, Amrane S, Verga D, Mergny JL
Biochimie. 2023 Nov. 214(Pt A):5-23.

Variation in mutational (co)variances.
Mallard F, Noble L, Baer CF, Teotónio H
G3 (Bethesda). 2023 Feb 9. 13(2).

Convergent evolution and horizontal gene transfer in Arctic Ocean microalgae.
Dorrell RG, Kuo A, Füssy Z, Richardson EH, Salamov A, Zarevski N, Freyria NJ, Ibarbalz FM, Jenkins J, Pierella Karlusich JJ, Stecca Steindorff A, Edgar RE, Handley L, Lail K, Lipzen A, Lombard V, McFarlane J, Nef C, Novák Vanclová AM, Peng Y, Plott C, Potvin M, Vieira FRJ, Barry K, de Vargas C, Henrissat B, Pelletier E, Schmutz J, Wincker P, Dacks JB, Bowler C, Grigoriev IV, Lovejoy C
Life Sci Alliance. 2023 Mar. 6(3).

Microglial TNFα orchestrates protein phosphorylation in the cortex during the sleep period and controls homeostatic sleep.
Pinto MJ, Cottin L, Dingli F, Laigle V, Ribeiro LF, Triller A, Henderson F, Loew D, Fabre V, Bessis A
EMBO J. 2023 Jan 4. 42(1):e111485.

Estimating the Age of Poorly Dated Fossil Specimens and Deposits Using a Total-Evidence Approach and the Fossilized Birth-Death Process.
Barido‑Sottani J, Żyła D, Heath TA
Syst Biol. 2023 Jun 16. 72(2):466-475.

In mice and humans, brain microvascular contractility matures postnatally.
Slaoui L, Gilbert A, Rancillac A, Delaunay‑Piednoir B, Chagnot A, Gerard Q, Letort G, Mailly P, Robil N, Gelot A, Lefebvre M, Favier M, Dias K, Jourdren L, Federici L, Auvity S, Cisternino S, Vivien D, Cohen‑Salmon M, Boulay AC
Brain Struct Funct. 2023 Mar. 228(2):475-492.

Quantifying postsynaptic receptor dynamics : insights into synaptic function.
Maynard SA, Ranft J, Triller A
Nat Rev Neurosci. 2023 Jan. 24(1):4-22.

KCa1.1 channels contribute to optogenetically driven post-stimulation silencing in cerebellar molecular layer interneurons.
Kassa M, Bradley J, Jalil A, Llano I
J Gen Physiol. 2023 Jan 2. 155(1).

Fungal microbiomes associated with Lycopodiaceae during ecological succession.
Perez‑Lamarque B, Laurent‑Webb L, Bourceret A, Maillet L, Bik F, Cartier D, Labolle F, Holveck P, Epp D, Selosse MA
Environ Microbiol Rep. 2023 Apr. 15(2):109-118.

Collective and harmonized high throughput barcoding of insular arthropod biodiversity : Toward a Genomic Observatories Network for islands.
Emerson BC, Borges PAV, Cardoso P, Convey P, deWaard JR, Economo EP, Gillespie RG, Kennedy S, Krehenwinkel H, Meier R, Roderick GK, Strasberg D, Thébaud C, Traveset A, Creedy TJ, Meramveliotakis E, Noguerales V, Overcast I, Morlon H, Papadopoulou A, Vogler AP, Arribas P, Andújar C
Mol Ecol. 2023 Dec. 32(23):6161-6176.

Comparing different computational approaches for detecting long-term vertical transmission in host-associated microbiota.
Perez‑Lamarque B, Morlon H
Mol Ecol. 2023 Dec. 32(23):6671-6685.

A robust approach to estimate relative phytoplankton cell abundances from metagenomes.
Pierella Karlusich JJ, Pelletier E, Zinger L, Lombard F, Zingone A, Colin S, Gasol JM, Dorrell RG, Henry N, Scalco E, Acinas SG, Wincker P, de Vargas C, Bowler C
Mol Ecol Resour. 2023 Jan. 23(1):16-40.

Community metabarcoding reveals the relative role of environmental filtering and spatial processes in metacommunity dynamics of soil microarthropods across a mosaic of montane forests.
Noguerales V, Meramveliotakis E, Castro‑Insua A, Andújar C, Arribas P, Creedy TJ, Overcast I, Morlon H, Emerson BC, Vogler AP, Papadopoulou A
Mol Ecol. 2023 Dec. 32(23):6110-6128.



2022


2022

Principled, practical, flexible, fast : a new approach to phylogenetic factor analysis.
Hassler GW, Gallone B, Aristide L, Allen WL, Tolkoff MR, Holbrook AJ, Baele G, Lemey P, Suchard MA
Methods Ecol Evol. 2022 Oct. 13(10):2181-2197.

Functional repertoire convergence of distantly related eukaryotic plankton lineages abundant in the sunlit ocean.
Delmont TO, Gaia M, Hinsinger DD, Frémont P, Vanni C, Fernandez‑Guerra A, Eren AM, Kourlaiev A, d’Agata L, Clayssen Q, Villar E, Labadie K, Cruaud C, Poulain J, Da Silva C, Wessner M, Noel B, Aury JM, de Vargas C, Bowler C, Karsenti E, Pelletier E, Wincker P, Jaillon O
Cell Genom. 2022 May 11. 2(5):100123.

FUSTA : leveraging FUSE for manipulation of multiFASTA files at scale.
Delehelle F, Roest Crollius H
Bioinform Adv. 2022. 2(1):vbac091.

Neurotransmitter content heterogeneity within an interneuron class shapes inhibitory transmission at a central synapse.
Dumontier D, Mailhes‑Hamon C, Supplisson S, Dieudonné S
Front Cell Neurosci. 2022. 16:1060189.

Guidelines for G-quadruplexes : I. In vitro characterization.
Luo Y, Granzhan A, Marquevielle J, Cucchiarini A, Lacroix L, Amrane S, Verga D, Mergny JL
Biochimie. 2022 Dec 31.

In vivo localization of iron starvation induced proteins under variable iron supplementation regimes in Phaeodactylum tricornutum.
Kazamia E, Mach J, McQuaid JB, Gao X, Coale TH, Malych R, Camadro JM, Lesuisse E, Allen AE, Bowler C, Sutak R
Plant Direct. 2022 Dec. 6(12):e472.

p53/p21 pathway activation contributes to the ependymal fate decision downstream of GemC1.
Ortiz‑Álvarez G, Fortoul A, Srivastava A, Moreau MX, Bouloudi B, Mailhes‑Hamon C, Delgehyr N, Faucourt M, Bahin M, Blugeon C, Breau M, Géli V, Causeret F, Meunier A, Spassky N
Cell Rep. 2022 Dec 13. 41(11):111810.

Philippe Ascher (1936-2022).
Paoletti P, Trautmann A, Marty A
Neuron. 2022 Dec 7. 110(23):3864-3865.

Displacement and dissociation of oligonucleotides during DNA hairpin closure under strain.
Ding F, Cocco S, Raj S, Manosas M, Nguyen TTT, Spiering MM, Bensimon D, Allemand JF, Croquette V
Nucleic Acids Res. 2022 Nov 28. 50(21):12082-12093.

A 2-million-year-old ecosystem in Greenland uncovered by environmental DNA.
Kjær KH, Winther Pedersen M, De Sanctis B, De Cahsan B, Korneliussen TS, Michelsen CS, Sand KK, Jelavić S, Ruter AH, Schmidt AMA, Kjeldsen KK, Tesakov AS, Snowball I, Gosse JC, Alsos IG, Wang Y, Dockter C, Rasmussen M, Jørgensen ME, Skadhauge B, Prohaska A, Kristensen JÅ, Bjerager M, Allentoft ME, Coissac E, Rouillard A, Simakova A, Fernandez‑Guerra A, Bowler C, Macias‑Fauria M, Vinner L, Welch JJ, Hidy AJ, Sikora M, Collins MJ, Durbin R, Larsen NK, Willerslev E
Nature. 2022 Dec. 612(7939):283-291.

Alterations of the axon initial segment in multiple sclerosis grey matter.
Senol AD, Pinto G, Beau M, Guillemot V, Dupree JL, Stadelmann C, Ranft J, Lubetzki C, Davenne M
Brain Commun. 2022. 4(6):fcac284.

Whole-genome scanning reveals environmental selection mechanisms that shape diversity in populations of the epipelagic diatom Chaetoceros.
Nef C, Madoui MA, Pelletier É, Bowler C
PLoS Biol. 2022 Nov. 20(11):e3001893.

Evaluating cancer etiology and risk with a mathematical model of tumor evolution.
Pénisson S, Lambert A, Tomasetti C
Nat Commun. 2022 Nov 24. 13(1):7224.

Estimating the age of poorly dated fossil specimens and deposits using a total-evidence approach and the fossilized birth-death process.
Barido‑Sottani J, Żyła D, Heath TA
Syst Biol. 2022 Nov 16.

Microglia states and nomenclature : A field at its crossroads.
Paolicelli RC, Sierra A, Stevens B, Tremblay ME, Aguzzi A, Ajami B, Amit I, Audinat E, Bechmann I, Bennett M, Bennett F, Bessis A, Biber K, Bilbo S, Blurton‑Jones M, Boddeke E, Brites D, Brône B, Brown GC, Butovsky O, Carson MJ, Castellano B, Colonna M, Cowley SA, Cunningham C, Davalos D, De Jager PL, de Strooper B, Denes A, Eggen BJL, Eyo U, Galea E, Garel S, Ginhoux F, Glass CK, Gokce O, Gomez‑Nicola D, González B, Gordon S, Graeber MB, Greenhalgh AD, Gressens P, Greter M, Gutmann DH, Haass C, Heneka MT, Heppner FL, Hong S, Hume DA, Jung S, Kettenmann H, Kipnis J, Koyama R, Lemke G, Lynch M, Majewska A, Malcangio M, Malm T, Mancuso R, Masuda T, Matteoli M, McColl BW, Miron VE, Molofsky AV, Monje M, Mracsko E, Nadjar A, Neher JJ, Neniskyte U, Neumann H, Noda M, Peng B, Peri F, Perry VH, Popovich PG, Pridans C, Priller J, Prinz M, Ragozzino D, Ransohoff RM, Salter MW, Schaefer A, Schafer DP, Schwartz M, Simons M, Smith CJ, Streit WJ, Tay TL, Tsai LH, Verkhratsky A, von Bernhardi R, Wake H, Wittamer V, Wolf SA, Wu LJ, Wyss‑Coray T
Neuron. 2022 Nov 2. 110(21):3458-3483.

Zn(2+) inhibits spatial memory and hippocampal place cell representation through high-affinity binding to the NMDA receptor GluN2A subunit.
Sikora J, Di Bisceglie Caballero S, Reiss D, Kieffer BL, Paoletti P, Jacob PY, Ouagazzal AM
iScience. 2022 Nov 18. 25(11):105355.

Dynamic Regulation of Mitochondrial [Ca(2+)] in Hippocampal Neurons.
Kushnireva L, Basnayake K, Holcman D, Segal M, Korkotian E
Int J Mol Sci. 2022 Oct 14. 23(20).

Advanced Image Analysis Methods for Automated Segmentation of Subnuclear Chromatin Domains.
Johann To Berens P, Schivre G, Theune M, Peter J, Sall SO, Mutterer J, Barneche F, Bourbousse C, Molinier J
Epigenomes. 2022 Oct 5. 6(4).

Fate and biological impact of persistent luminescence nanoparticles after injection in mice : a one-year follow-up.
Lécuyer T, Seguin J, Balfourier A, Delagrange M, Burckel P, Lai‑Kuen R, Mignon V, Ducos B, Tharaud M, Saubaméa B, Scherman D, Mignet N, Gazeau F, Richard C
Nanoscale. 2022 Nov 3. 14(42):15760-15771.

A metabolic, phylogenomic and environmental atlas of diatom plastid transporters from the model species Phaeodactylum.
Liu S, Storti M, Finazzi G, Bowler C, Dorrell RG
Front Plant Sci. 2022. 13:950467.

Flux coupling, not specificity, shapes the transport and phylogeny of SLC6 glycine transporters.
Le Guellec B, Rousseau F, Bied M, Supplisson S
Proc Natl Acad Sci U S A. 2022 Oct 11. 119(41):e2205874119.

From individual-based epidemic models to McKendrick-von Foerster PDEs : a guide to modeling and inferring COVID-19 dynamics.
Foutel‑Rodier F, Blanquart F, Courau P, Czuppon P, Duchamps JJ, Gamblin J, Kerdoncuff É, Kulathinal R, Régnier L, Vuduc L, Lambert A, Schertzer E
J Math Biol. 2022 Sep 28. 85(4):43.

The DEAD box RNA helicase DDX42 is an intrinsic inhibitor of positive-strand RNA viruses.
Bonaventure B, Rebendenne A, Chaves Valadão AL, Arnaud‑Arnould M, Gracias S, Garcia de Gracia F, McKellar J, Labaronne E, Tauziet M, Vivet‑Boudou V, Bernard E, Briant L, Gros N, Djilli W, Courgnaud V, Parrinello H, Rialle S, Blaise M, Lacroix L, Lavigne M, Paillart JC, Ricci EP, Schulz R, Jouvenet N, Moncorgé O, Goujon C
EMBO Rep. 2022 Nov 7. 23(11):e54061.

Collective and harmonized high throughput barcoding of insular arthropod biodiversity : Toward a Genomic Observatories Network for islands.
Emerson BC, Borges PAV, Cardoso P, Convey P, deWaard JR, Economo EP, Gillespie RG, Kennedy S, Krehenwinkel H, Meier R, Roderick GK, Strasberg D, Thébaud C, Traveset A, Creedy TJ, Meramveliotakis E, Noguerales V, Overcast I, Morlon H, Papadopoulou A, Vogler AP, Arribas P, Andújar C
Mol Ecol. 2022 Sep 6.

Gene essentiality and variability : What is the link ? A within- and between-species perspective.
Dubois‑Mignon T, Monget P
Bioessays. 2022 Nov. 44(11):e2200132.

Individual differences in cocaine-induced conditioned place preference in male rats : Behavioral and transcriptomic evidence.
Atehortua Martinez LA, Curis E, Mekdad N, Larrieu C, Courtin C, Jourdren L, Blugeon C, Laplanche JL, Megarbane B, Marie‑Claire C, Benturquia N
J Psychopharmacol. 2022 Oct. 36(10):1161-1175.

Evolving social behavior through selection of single-cell adhesion in Dictyostelium discoideum.
Adiba S, Forget M, De Monte S
iScience. 2022 Sep 16. 25(9):105006.

Computational methods and diffusion theory in triangulation sensing to model neuronal navigation.
Dobramysl U, Holcman D
Rep Prog Phys. 2022 Oct 5. 85(10).

Comparing different computational approaches for detecting long-term vertical transmission in host-associated microbiota.
Perez‑Lamarque B, Morlon H
Mol Ecol. 2022 Sep 6.

High-throughput super-resolution single-particle trajectory analysis reconstructs organelle dynamics and membrane reorganization.
Parutto P, Heck J, Lu M, Kaminski C, Avezov E, Heine M, Holcman D
Cell Rep Methods. 2022 Aug 22. 2(8):100277.

Early macrophage response to obesity encompasses Interferon Regulatory Factor 5 regulated mitochondrial architecture remodelling.
Orliaguet L, Ejlalmanesh T, Humbert A, Ballaire R, Diedisheim M, Julla JB, Chokr D, Cuenco J, Michieletto J, Charbit J, Lindén D, Boucher J, Potier C, Hamimi A, Lemoine S, Blugeon C, Legoix P, Lameiras S, Baudrin LG, Baulande S, Soprani A, Castelli FA, Fenaille F, Riveline JP, Dalmas E, Rieusset J, Gautier JF, Venteclef N, Alzaid F
Nat Commun. 2022 Aug 30. 13(1):5089.

The Arabidopsis APOLO and human UPAT sequence-unrelated long noncoding RNAs can modulate DNA and histone methylation machineries in plants.
Fonouni‑Farde C, Christ A, Blein T, Legascue MF, Ferrero L, Moison M, Lucero L, Ramírez‑Prado JS, Latrasse D, Gonzalez D, Benhamed M, Quadrana L, Crespi M, Ariel F
Genome Biol. 2022 Aug 29. 23(1):181.

Robust Phylodynamic Analysis of Genetic Sequencing Data from Structured Populations.
Scire J, Barido‑Sottani J, Kühnert D, Vaughan TG, Stadler T
Viruses. 2022 Jul 27. 14(8).

An interplay between cellular growth and atypical fusion defines morphogenesis of a modular glial niche in Drosophila.
Rujano MA, Briand D, Ðelić B, Marc J, Spéder P
Nat Commun. 2022 Aug 25. 13(1):4999.

Sustained deep-tissue voltage recording using a fast indicator evolved for two-photon microscopy.
Liu Z, Lu X, Villette V, Gou Y, Colbert KL, Lai S, Guan S, Land MA, Lee J, Assefa T, Zollinger DR, Korympidou MM, Vlasits AL, Pang MM, Su S, Cai C, Froudarakis E, Zhou N, Patel SS, Smith CL, Ayon A, Bizouard P, Bradley J, Franke K, Clandinin TR, Giovannucci A, Tolias AS, Reimer J, Dieudonné S, St‑Pierre F
Cell. 2022 Sep 1. 185(18):3408-3425.e29.

Single amino-acid mutation in a Drosoph ila melanogaster ribosomal protein : An insight in uL11 transcriptional activity.
Grunchec H, Deraze J, Dardalhon‑Cuménal D, Ribeiro V, Coléno‑Costes A, Dias K, Bloyer S, Mouchel‑Vielh E, Peronnet F, Thomassin H
PLoS One. 2022. 17(8):e0273198.

Editorial overview : Special Issue on ’Chemogenetics and photopharmacology’.
Levitz J, Paoletti P
Curr Opin Pharmacol. 2022 Oct. 66:102273.

Novel approaches to study helicases using magnetic tweezers.
Ruiz‑Gutierrez N, Rieu M, Ouellet J, Allemand JF, Croquette V, Le Hir H
Methods Enzymol. 2022. 673:359-403.

An atlas of fish genome evolution reveals delayed rediploidization following the teleost whole-genome duplication.
Parey E, Louis A, Montfort J, Guiguen Y, Roest Crollius H, Berthelot C
Genome Res. 2022 Aug 12. 32(9):1685-97.

Light, chromatin, action : nuclear events regulating light signaling in Arabidopsis.
Patitaki E, Schivre G, Zioutopoulou A, Perrella G, Bourbousse C, Barneche F, Kaiserli E
New Phytol. 2022 Oct. 236(2):333-349.

Strand switching mechanism of Pif1 helicase induced by its collision with a G-quadruplex embedded in dsDNA.
Valle‑Orero J, Rieu M, Tran PLT, Joubert A, Raj S, Allemand JF, Croquette V, Boulé JB
Nucleic Acids Res. 2022 Aug 26. 50(15):8767-8778.

The success of the bloom-forming cyanobacteria Planktothrix : Genotypes variability supports variable responses to light and temperature stress.
Kim Tiam S, Comte K, Dalle C, Delagrange M, Djediat C, Ducos B, Duval C, Feilke K, Hamlaoui S, Le Manach S, Setif P, Yéprémian C, Marie B, Kirilovsky D, Gugger M, Bernard C
Harmful Algae. 2022 Aug. 117:102285.

Dual ontogeny of disease-associated microglia and disease inflammatory macrophages in aging and neurodegeneration.
Silvin A, Uderhardt S, Piot C, Da Mesquita S, Yang K, Geirsdottir L, Mulder K, Eyal D, Liu Z, Bridlance C, Thion MS, Zhang XM, Kong WT, Deloger M, Fontes V, Weiner A, Ee R, Dress R, Hang JW, Balachander A, Chakarov S, Malleret B, Dunsmore G, Cexus O, Chen J, Garel S, Dutertre CA, Amit I, Kipnis J, Ginhoux F
Immunity. 2022 Aug 9. 55(8):1448-1465.e6.

Blind cavefish retain functional connectivity in the tectum despite loss of retinal input.
Lloyd E, McDole B, Privat M, Jaggard JB, Duboué ER, Sumbre G, Keene AC
Curr Biol. 2022 Sep 12. 32(17):3720-3730.e3.

Genomic evidence for global ocean plankton biogeography shaped by large-scale current systems.
Richter DJ, Watteaux R, Vannier T, Leconte J, Frémont P, Reygondeau G, Maillet N, Henry N, Benoit G, Da Silva O, Delmont TO, Fernàndez‑Guerra A, Suweis S, Narci R, Berney C, Eveillard D, Gavory F, Guidi L, Labadie K, Mahieu E, Poulain J, Romac S, Roux S, Dimier C, Kandels S, Picheral M, Searson S, Pesant S, Aury JM, Brum JR, Lemaitre C, Pelletier E, Bork P, Sunagawa S, Lombard F, Karp‑Boss L, Bowler C, Sullivan MB, Karsenti E, Mariadassou M, Probert I, Peterlongo P, Wincker P, de Vargas C, Ribera d’Alcalà M, Iudicone D, Jaillon O
Elife. 2022 Aug 3. 11.

Chromosome-Scale Genome Assembly of the Marine Oleaginous Diatom Fistulifera solaris.
Maeda Y, Kobayashi R, Watanabe K, Yoshino T, Bowler C, Matsumoto M, Tanaka T
Mar Biotechnol (NY). 2022 Aug. 24(4):788-800.

Vertebrate Cell Differentiation, Evolution, and Diseases : The Vertebrate-Specific Developmental Potential Guardians VENTX/NANOG and POU5/OCT4 Enter the Stage.
Ducos B, Bensimon D, Scerbo P
Cells. 2022 Jul 26. 11(15).

A Curvilinear-Path Umbrella Sampling Approach to Characterizing the Interactions Between Rapamycin and Three FKBP12 Variants.
Joshi DC, Gosse C, Huang SY, Lin JH
Front Mol Biosci. 2022. 9:879000.

Structure and specialization of mycorrhizal networks in phylogenetically diverse tropical communities.
Perez‑Lamarque B, Petrolli R, Strullu‑Derrien C, Strasberg D, Morlon H, Selosse MA, Martos F
Environ Microbiome. 2022 Jul 20. 17(1):38.

Toward global integration of biodiversity big data : a harmonized metabarcode data generation module for terrestrial arthropods.
Arribas P, Andújar C, Bohmann K, deWaard JR, Economo EP, Elbrecht V, Geisen S, Goberna M, Krehenwinkel H, Novotny V, Zinger L, Creedy TJ, Meramveliotakis E, Noguerales V, Overcast I, Morlon H, Papadopoulou A, Vogler AP, Emerson BC
Gigascience. 2022 Jul 19. 11.

On the stability of stalled RNA polymerase and its removal by RapA.
Portman JR, Qayyum MZ, Murakami KS, Strick TR
Nucleic Acids Res. 2022 Jul 22. 50(13):7396-7405.

Schwann cell precursors represent a neural crest-like state with biased multipotency.
Kastriti ME, Faure L, Von Ahsen D, Bouderlique TG, Boström J, Solovieva T, Jackson C, Bronner M, Meijer D, Hadjab S, Lallemend F, Erickson A, Kaucka M, Dyachuk V, Perlmann T, Lahti L, Krivanek J, Brunet JF, Fried K, Adameyko I
EMBO J. 2022 Sep 1. 41(17):e108780.

Recommendations for empowering early career researchers to improve research culture and practice.
Kent BA, Holman C, Amoako E, Antonietti A, Azam JM, Ballhausen H, Bediako Y, Belasen AM, Carneiro CFD, Chen YC, Compeer EB, Connor CAC, Crüwell S, Debat H, Dorris E, Ebrahimi H, Erlich JC, Fernández‑Chiappe F, Fischer F, Gazda MA, Glatz T, Grabitz P, Heise V, Kent DG, Lo H, McDowell G, Mehta D, Neumann WJ, Neves K, Patterson M, Penfold NC, Piper SK, Puebla I, Quashie PK, Quezada CP, Riley JL, Rohmann JL, Saladi S, Schwessinger B, Siegerink B, Stehlik P, Tzilivaki A, Umbers KDL, Varma A, Walavalkar K, de Winde CM, Zaza C, Weissgerber TL
PLoS Biol. 2022 Jul. 20(7):e3001680.

Deep learning from phylogenies to uncover the epidemiological dynamics of outbreaks.
Voznica J, Zhukova A, Boskova V, Saulnier E, Lemoine F, Moslonka‑Lefebvre M, Gascuel O
Nat Commun. 2022 Jul 6. 13(1):3896.

A self-consistent analytical theory for rotator networks under stochastic forcing : Effects of intrinsic noise and common input.
Ranft J, Lindner B
Chaos. 2022 Jun. 32(6):063131.

Antennal movements can be used as behavioral readout of odor valence in honey bees.
Gascue F, Marachlian E, Azcueta M, Locatelli FF, Klappenbach M
IBRO Neurosci Rep. 2022 Jun. 12:323-332.

Critical slowing down may account for the robustness of development.
Zhang W, Scerbo P, Ducos B, Bensimon D
Proc Natl Acad Sci U S A. 2022 Jun 28. 119(26):e2205630119.

Biosynthetic potential of the global ocean microbiome.
Paoli L, Ruscheweyh HJ, Forneris CC, Hubrich F, Kautsar S, Bhushan A, Lotti A, Clayssen Q, Salazar G, Milanese A, Carlström CI, Papadopoulou C, Gehrig D, Karasikov M, Mustafa H, Larralde M, Carroll LM, Sánchez P, Zayed AA, Cronin DR, Acinas SG, Bork P, Bowler C, Delmont TO, Gasol JM, Gossert AD, Kahles A, Sullivan MB, Wincker P, Zeller G, Robinson SL, Piel J, Sunagawa S
Nature. 2022 Jul. 607(7917):111-118.

GluN3A excitatory glycine receptors control adult cortical and amygdalar circuits.
Bossi S, Dhanasobhon D, Ellis‑Davies GCR, Frontera J, de Brito Van Velze M, Lourenço J, Murillo A, Luján R, Casado M, Perez‑Otaño I, Bacci A, Popa D, Paoletti P, Rebola N
Neuron. 2022 Aug 3. 110(15):2438-2454.e8.

Functional abnormalities in the cerebello-thalamic pathways in a mouse model of DYT25 dystonia.
Aïssa HB, Sala RW, Georgescu Margarint EL, Frontera JL, Varani AP, Menardy F, Pelosi A, Hervé D, Léna C, Popa D
Elife. 2022 Jun 14. 11.

Cerebellar stimulation prevents Levodopa-induced dyskinesia in mice and normalizes activity in a motor network.
Coutant B, Frontera JL, Perrin E, Combes A, Tarpin T, Menardy F, Mailhes‑Hamon C, Perez S, Degos B, Venance L, Léna C, Popa D
Nat Commun. 2022 Jun 9. 13(1):3211.

Diversity and ecological footprint of Global Ocean RNA viruses.
Dominguez‑Huerta G, Zayed AA, Wainaina JM, Guo J, Tian F, Pratama AA, Bolduc B, Mohssen M, Zablocki O, Pelletier E, Delage E, Alberti A, Aury JM, Carradec Q, da Silva C, Labadie K, Poulain J, Bowler C, Eveillard D, Guidi L, Karsenti E, Kuhn JH, Ogata H, Wincker P, Culley A, Chaffron S, Sullivan MB
Science. 2022 Jun 10. 376(6598):1202-1208.

Genome-wide mapping of individual replication fork velocities using nanopore sequencing.
Theulot B, Lacroix L, Arbona JM, Millot GA, Jean E, Cruaud C, Pellet J, Proux F, Hennion M, Engelen S, Lemainque A, Audit B, Hyrien O, Le Tallec B
Nat Commun. 2022 Jun 8. 13(1):3295.

Mafa-dependent GABAergic activity promotes mouse neonatal apneas.
Lecoin L, Dempsey B, Garancher A, Bourane S, Ruffault PL, Morin‑Surun MP, Rocques N, Goulding M, Eychène A, Pouponnot C, Fortin G, Champagnat J
Nat Commun. 2022 Jun 7. 13(1):3284.

Macroevolutionary dynamics of climatic niche space.
Quintero I, Suchard MA, Jetz W
Proc Biol Sci. 2022 May 25. 289(1975):20220091.

Erratum : Author Correction : Malaria elimination on Hainan Island despite climate change.
Tian H, Li N, Li Y, Kraemer MUG, Tan H, Liu Y, Li Y, Wang B, Wu P, Cazelles B, Lourenço J, Gao D, Sun D, Song W, Li Y, Pybus OG, Wang G, Dye C
Commun Med (Lond). 2022. 2:22.

Malaria elimination on Hainan Island despite climate change.
Tian H, Li N, Li Y, Kraemer MUG, Tan H, Liu Y, Li Y, Wang B, Wu P, Cazelles B, Lourenço J, Gao D, Sun D, Song W, Li Y, Pybus OG, Wang G, Dye C
Commun Med (Lond). 2022. 2:12.

Modified climbing fiber/Purkinje cell synaptic connectivity in the cerebellum of the neonatal phencyclidine model of schizophrenia.
Veleanu M, Urrieta‑Chávez B, Sigoillot SM, Paul MA, Usardi A, Iyer K, Delagrange M, Doyle JP, Heintz N, Bécamel C, Selimi F
Proc Natl Acad Sci U S A. 2022 May 24. 119(21):e2122544119.

A unique cerebellar pattern of microglia activation in a mouse model of encephalopathy of prematurity.
Klein L, Van Steenwinckel J, Fleiss B, Scheuer T, Bührer C, Faivre V, Lemoine S, Blugeon C, Schwendimann L, Csaba Z, Bokobza C, Vousden DA, Lerch JP, Vernon AC, Gressens P, Schmitz T
Glia. 2022 Sep. 70(9):1699-1719.

RSAT 2022 : regulatory sequence analysis tools.
Santana‑Garcia W, Castro‑Mondragon JA, Padilla‑Gálvez M, Nguyen NTT, Elizondo‑Salas A, Ksouri N, Gerbes F, Thieffry D, Vincens P, Contreras‑Moreira B, van Helden J, Thomas‑Chollier M, Medina‑Rivera A
Nucleic Acids Res. 2022 Jul 5. 50(W1):W670-W676.

Environmental cues from neural crest derivatives act as metastatic triggers in an embryonic neuroblastoma model.
Ben Amar D, Thoinet K, Villalard B, Imbaud O, Costechareyre C, Jarrosson L, Reynaud F, Novion Ducassou J, Couté Y, Brunet JF, Combaret V, Corradini N, Delloye‑Bourgeois C, Castellani V
Nat Commun. 2022 May 10. 13(1):2549.

FORK-seq : Single-Molecule Profiling of DNA Replication.
Hennion M, Theulot B, Arbona JM, Audit B, Hyrien O
Methods Mol Biol. 2022. 2477:107-128.

Classification of non-coding variants with high pathogenic impact.
Moyon L, Berthelot C, Louis A, Nguyen NTT, Roest Crollius H
PLoS Genet. 2022 Apr. 18(4):e1010191.

Molecular biology for green recovery-A call for action.
Rodríguez‑Martínez M, Nielsen J, Dupont S, Vamathevan J, Glover BJ, Crosswell LC, Rouse B, Luisi BF, Bowler C, Gasser SM, Arendt D, Erb TJ, de Lorenzo V, Heard E, Patil KR
PLoS Biol. 2022 Apr. 20(4):e3001623.

Analysing diversification dynamics using barcoding data : The case of an obligate mycorrhizal symbiont.
Perez‑Lamarque B, Öpik M, Maliet O, Afonso Silva AC, Selosse MA, Martos F, Morlon H
Mol Ecol. 2022 Jun. 31(12):3496-3512.

Astroblastomas exhibit radial glia stem cell lineages and differential expression of imprinted and X-inactivation escape genes.
Lehman NL, Spassky N, Sak M, Webb A, Zumbar CT, Usubalieva A, Alkhateeb KJ, McElroy JP, Maclean KH, Fadda P, Liu T, Gangalapudi V, Carver J, Abdullaev Z, Timmers C, Parker JR, Pierson CR, Mobley BC, Gokden M, Hattab EM, Parrett T, Cooke RX, Lehman TD, Costinean S, Parwani A, Williams BJ, Jensen RL, Aldape K, Mistry AM
Nat Commun. 2022 Apr 19. 13(1):2083.

Step by step : cells with multiple functions in cortical circuit assembly.
Cossart R, Garel S
Nat Rev Neurosci. 2022 Jul. 23(7):395-410.

Dynamic interplay between thalamic activity and Cajal-Retzius cells regulates the wiring of cortical layer 1.
Genescu I, Aníbal‑Martínez M, Kouskoff V, Chenouard N, Mailhes‑Hamon C, Cartonnet H, Lokmane L, Rijli FM, López‑Bendito G, Gambino F, Garel S
Cell Rep. 2022 Apr 12. 39(2):110667.

The relationship between rising temperatures and malaria incidence in Hainan, China, from 1984 to 2010 : a longitudinal cohort study.
Wang Z, Liu Y, Li Y, Wang G, Lourenço J, Kraemer M, He Q, Cazelles B, Li Y, Wang R, Gao D, Li Y, Song W, Sun D, Dong L, Pybus OG, Stenseth NC, Tian H
Lancet Planet Health. 2022 Apr. 6(4):e350-e358.

Best practices in metabarcoding of fungi : From experimental design to results.
Tedersoo L, Bahram M, Zinger L, Nilsson RH, Kennedy PG, Yang T, Anslan S, Mikryukov V
Mol Ecol. 2022 May. 31(10):2769-2795.

CRISPR/Cas9 gene editing uncovers the roles of CONSTITUTIVE TRIPLE RESPONSE 1 and REPRESSOR OF SILENCING 1 in melon fruit ripening and epigenetic regulation.
Giordano A, Santo Domingo M, Quadrana L, Pujol M, Martín‑Hernández AM, Garcia‑Mas J
J Exp Bot. 2022 Jun 24. 73(12):4022-4033.

Contribution of genome-scale metabolic modelling to niche theory.
Régimbeau A, Budinich M, Larhlimi A, Pierella Karlusich JJ, Aumont O, Memery L, Bowler C, Eveillard D
Ecol Lett. 2022 Jun. 25(6):1352-1364.

Sleep deficiency as a driver of cellular stress and damage in neurological disorders.
Coulson RL, Mourrain P, Wang GX
Sleep Med Rev. 2022 Jun. 63:101616.

Nest architecture is linked with ecological success in songbirds.
Medina I, M Perez D, Silva ACA, Cally J, León C, Maliet O, Quintero I
Ecol Lett. 2022 Jun. 25(6):1365-1375.

Prospectively defined patterns of APOBEC3A mutagenesis are prevalent in human cancers.
DeWeerd RA, Németh E, Póti Á, Petryk N, Chen CL, Hyrien O, Szüts D, Green AM
Cell Rep. 2022 Mar 22. 38(12):110555.

Eukaryotic cellular intricacies shape mitochondrial proteomic complexity.
Hammond M, Dorrell RG, Speijer D, Lukeš J
Bioessays. 2022 May. 44(5):e2100258.

UPMaBoSS : A Novel Framework for Dynamic Cell Population Modeling.
Stoll G, Naldi A, Noël V, Viara E, Barillot E, Kroemer G, Thieffry D, Calzone L
Front Mol Biosci. 2022. 9:800152.

Publisher Correction : Discovery of a genetic module essential for assigning left-right asymmetry in humans and ancestral vertebrates.
Szenker‑Ravi E, Ott T, Khatoo M, Moreau de Bellaing A, Goh WX, Chong YL, Beckers A, Kannesan D, Louvel G, Anujan P, Ravi V, Bonnard C, Moutton S, Schoen P, Fradin M, Colin E, Megarbane A, Daou L, Chehab G, Di Filippo S, Rooryck C, Deleuze JF, Boland A, Arribard N, Eker R, Tohari S, Ng AY, Rio M, Lim CT, Eisenhaber B, Eisenhaber F, Venkatesh B, Amiel J, Crollius HR, Gordon CT, Gossler A, Roy S, Attie‑Bitach T, Blum M, Bouvagnet P, Reversade B
Nat Genet. 2022 Jun. 54(6):906.

Extra kinetic dimensions for label discrimination.
Chouket R, Pellissier‑Tanon A, Lahlou A, Zhang R, Kim D, Plamont MA, Zhang M, Zhang X, Xu P, Desprat N, Bourgeois D, Espagne A, Lemarchand A, Saux TL, Jullien L
Nat Commun. 2022 Mar 18. 13(1):1482.

Fast co-evolution of anti-silencing systems shapes the invasiveness of Mu-like DNA transposons in eudicots.
Sasaki T, Ro K, Caillieux E, Manabe R, Bohl‑Viallefond G, Baduel P, Colot V, Kakutani T, Quadrana L
EMBO J. 2022 Apr 19. 41(8):e110070.

Amber Suppression Technology for Mapping Site-specific Viral-host Protein Interactions in Mammalian Cells.
Isa NF, Bensaude O, Murphy S
Bio Protoc. 2022 Feb 5. 12(3):e4315.

Measuring the effects of COVID-19-related disruption on dengue transmission in southeast Asia and Latin America : a statistical modelling study.
Chen Y, Li N, Lourenço J, Wang L, Cazelles B, Dong L, Li B, Liu Y, Jit M, Bosse NI, Abbott S, Velayudhan R, Wilder‑Smith A, Tian H, Brady OJ
Lancet Infect Dis. 2022 May. 22(5):657-667.

Studying speciation and extinction dynamics from phylogenies : addressing identifiability issues.
Morlon H, Robin S, Hartig F
Trends Ecol Evol. 2022 Jun. 37(6):497-506.

Author Correction : HR-Bac, a toolbox based on homologous recombination for expression, screening and production of multiprotein complexes using the baculovirus expression system.
Kolesnikova O, Zachayus A, Pichard S, Osz J, Rochel N, Rossolillo P, Kolb‑Cheynel I, Troffer‑Charlier N, Compe E, Bensaude O, Berger I, Poterszman A
Sci Rep. 2022 Feb 24. 12(1):3443.

Hyperexcitable arousal circuits drive sleep instability during aging.
Li SB, Damonte VM, Chen C, Wang GX, Kebschull JM, Yamaguchi H, Bian WJ, Purmann C, Pattni R, Urban AE, Mourrain P, Kauer JA, Scherrer G, de Lecea L
Science. 2022 Feb 25. 375(6583):eabh3021.

Activity-dependent modulation of NMDA receptors by endogenous zinc shapes dendritic function in cortical neurons.
Morabito A, Zerlaut Y, Serraz B, Sala R, Paoletti P, Rebola N
Cell Rep. 2022 Feb 22. 38(8):110415.

Reply to Piochon et al. : NMDARs in Purkinje cells are not involved in parallel fiber-Purkinje cell synaptic plasticity or motor learning.
Schonewille M, Girasole AE, De Zeeuw CI, Bouvier G
Proc Natl Acad Sci U S A. 2022 Feb 22. 119(8).

Nucleosome Positioning on Large Tandem DNA Repeats of the ’601’ Sequence Engineered in Saccharomyces cerevisiae.
Lancrey A, Joubert A, Duvernois‑Berthet E, Routhier E, Raj S, Thierry A, Sigarteu M, Ponger L, Croquette V, Mozziconacci J, Boulé JB
J Mol Biol. 2022 Apr 15. 434(7):167497.

Intracellular reactive oxygen species trafficking participates in seed dormancy alleviation in Arabidopsis seeds.
Jurdak R, Rodrigues GAG, Chaumont N, Schivre G, Bourbousse C, Barneche F, Bou Dagher Kharrat M, Bailly C
New Phytol. 2022 May. 234(3):850-866.

Adaptations of intracellular bacteria to vacuolar or cytosolic niches.
Petit TJP, Lebreton A
Trends Microbiol. 2022 Aug. 30(8):736-748.

Optimal transport improves cell-cell similarity inference in single-cell omics data.
Huizing GJ, Peyré G, Cantini L
Bioinformatics. 2022 Apr 12. 38(8):2169-2177.

Fgf8 dynamics and critical slowing down may account for the temperature independence of somitogenesis.
Zhang W, Scerbo P, Delagrange M, Candat V, Mayr V, Vriz S, Distel M, Ducos B, Bensimon D
Commun Biol. 2022 Feb 7. 5(1):113.

HR-Bac, a toolbox based on homologous recombination for expression, screening and production of multiprotein complexes using the baculovirus expression system.
Kolesnikova O, Zachayus A, Pichard S, Osz J, Rochel N, Rossolillo P, Kolb‑Cheynel I, Troffer‑Charlier N, Compe E, Bensaude O, Berger I, Poterszman A
Sci Rep. 2022 Feb 7. 12(1):2030.

Bacterial filamentation as a mechanism for cell-to-cell spread within an animal host.
Tran TD, Ali MA, Lee D, Félix MA, Luallen RJ
Nat Commun. 2022 Feb 4. 13(1):693.

Publisher Correction : Fast optical recording of neuronal activity by three-dimensional custom-access serial holography.
Akemann W, Wolf S, Villette V, Mathieu B, Tangara A, Fodor J, Ventalon C, Léger JF, Dieudonné S, Bourdieu L
Nat Methods. 2022 Feb. 19(2):257.

Limited Evidence for Microbial Transmission in the Phylosymbiosis between Hawaiian Spiders and Their Microbiota.
Perez‑Lamarque B, Krehenwinkel H, Gillespie RG, Morlon H
mSystems. 2022 Feb 22. 7(1):e0110421.

Correction to : Heterotrophic bacterial diazotrophs are more abundant than their cyanobacterial counterparts in metagenomes covering most of the sunlit ocean.
Delmont TO, Pierella Karlusich JJ, Veseli I, Fuessel J, Eren AM, Foster RA, Bowler C, Wincker P, Pelletier E
ISME J. 2022 Apr. 16(4):1203.

Complex genetic patterns and distribution limits mediated by native congeners of the worldwide invasive red-eared slider turtle.
Espindola S, Vázquez‑Domínguez E, Nakamura M, Osorio‑Olvera L, Martínez‑Meyer E, Myers EA, Overcast I, Reid BN, Burbrink FT
Mol Ecol. 2022 Mar. 31(6):1766-1782.

The chloroplast redox-responsive transcriptome of solanaceous plants reveals significant nuclear gene regulatory motifs associated to stress acclimation.
Arce RC, Carrillo N, Pierella Karlusich JJ
Plant Mol Biol. 2022 Apr. 108(6):513-530.

The CLASSY family controls tissue-specific DNA methylation patterns in Arabidopsis.
Zhou M, Coruh C, Xu G, Martins LM, Bourbousse C, Lambolez A, Law JA
Nat Commun. 2022 Jan 11. 13(1):244.

Comparative transcriptome analysis of goat (Capra hircus) adipose tissue reveals physiological regulation of body reserve recovery after the peak of lactation.
Faulconnier Y, Boby C, Coulpier F, Lemoine S, Martin P, Leroux C
Comp Biochem Physiol Part D Genomics Proteomics. 2022 Mar. 41:100956.

A novel reticular node in the brainstem synchronizes neonatal mouse crying with breathing.
Wei XP, Collie M, Dempsey B, Fortin G, Yackle K
Neuron. 2022 Feb 16. 110(4):644-657.e6.

The possible fates of Fragilariopsis cylindrus (polar diatom) cells exposed to prolonged darkness.
Sciandra T, Forget MH, Bruyant F, Béguin M, Lacour T, Bowler C, Babin M
J Phycol. 2022 Apr. 58(2):281-296.

Fast optical recording of neuronal activity by three-dimensional custom-access serial holography.
Akemann W, Wolf S, Villette V, Mathieu B, Tangara A, Fodor J, Ventalon C, Léger JF, Dieudonné S, Bourdieu L
Nat Methods. 2022 Jan. 19(1):100-110.

Environmental control of marine phytoplankton stoichiometry in the North Atlantic Ocean.
Sauterey B, Ward BA
Proc Natl Acad Sci U S A. 2022 Jan 4. 119(1).

Discovery of a genetic module essential for assigning left-right asymmetry in humans and ancestral vertebrates.
Szenker‑Ravi E, Ott T, Khatoo M, Moreau de Bellaing A, Goh WX, Chong YL, Beckers A, Kannesan D, Louvel G, Anujan P, Ravi V, Bonnard C, Moutton S, Schoen P, Fradin M, Colin E, Megarbane A, Daou L, Chehab G, Di Filippo S, Rooryck C, Deleuze JF, Boland A, Arribard N, Eker R, Tohari S, Ng AY, Rio M, Lim CT, Eisenhaber B, Eisenhaber F, Venkatesh B, Amiel J, Crollius HR, Gordon CT, Gossler A, Roy S, Attie‑Bitach T, Blum M, Bouvagnet P, Reversade B
Nat Genet. 2022 Jan. 54(1):62-72.

Eco-evolutionary responses of the microbial loop to surface ocean warming and consequences for primary production.
Cherabier P, Ferrière R
ISME J. 2022 Apr. 16(4):1130-1139.

A holobiont view of island biogeography : Unravelling patterns driving the nascent diversification of a Hawaiian spider and its microbial associates.
Armstrong EE, Perez‑Lamarque B, Bi K, Chen C, Becking LE, Lim JY, Linderoth T, Krehenwinkel H, Gillespie RG
Mol Ecol. 2022 Feb. 31(4):1299-1316.

Decay of similarity across tropical forest communities : integrating spatial distance with soil nutrients.
Peguero G, Ferrín M, Sardans J, Verbruggen E, Ramírez‑Rojas I, Van Langenhove L, Verryckt LT, Murienne J, Iribar A, Zinger L, Grau O, Orivel J, Stahl C, Courtois EA, Asensio D, Gargallo‑Garriga A, Llusià J, Margalef O, Ogaya R, Richter A, Janssens IA, Peñuelas J
Ecology. 2022 Feb. 103(2):e03599.

Genomicus in 2022 : comparative tools for thousands of genomes and reconstructed ancestors.
Nguyen NTT, Vincens P, Dufayard JF, Roest Crollius H, Louis A
Nucleic Acids Res. 2022 Jan 7. 50(D1):D1025-D1031.

Hepatitis C virus core protein uses triacylglycerols to fold onto the endoplasmic reticulum membrane.
Ajjaji D, Ben M’barek K, Boson B, Omrane M, Gassama‑Diagne A, Blaud M, Penin F, Diaz E, Ducos B, Cosset FL, Thiam AR
Traffic. 2022 Jan. 23(1):63-80.

The Waiting Room Hypothesis revisited by orchids : were orchid mycorrhizal fungi recruited among root endophytes ?
Selosse MA, Petrolli R, Mujica MI, Laurent L, Perez‑Lamarque B, Figura T, Bourceret A, Jacquemyn H, Li T, Gao J, Minasiewicz J, Martos F
Ann Bot. 2022 Feb 11. 129(3):259-270.

Heterotrophic bacterial diazotrophs are more abundant than their cyanobacterial counterparts in metagenomes covering most of the sunlit ocean.
Delmont TO, Pierella Karlusich JJ, Veseli I, Fuessel J, Eren AM, Foster RA, Bowler C, Wincker P, Pelletier E
ISME J. 2022 Apr. 16(4):927-936.

Coming of age for COI metabarcoding of whole organism community DNA : Towards bioinformatic harmonisation.
Creedy TJ, Andújar C, Meramveliotakis E, Noguerales V, Overcast I, Papadopoulou A, Morlon H, Vogler AP, Emerson BC, Arribas P
Mol Ecol Resour. 2022 Apr. 22(3):847-861.

Positive allosteric modulation of NMDA receptors : mechanisms, physiological impact and therapeutic potential.
Geoffroy C, Paoletti P, Mony L
J Physiol. 2022 Jan. 600(2):233-259.

Fast and Accurate Estimation of Species-Specific Diversification Rates Using Data Augmentation.
Maliet O, Morlon H
Syst Biol. 2022 Feb 10. 71(2):353-366.



2021


2021

Fourier Motion Processing in the Optic Tectum and Pretectum of the Zebrafish Larva.
Duchemin A, Privat M, Sumbre G
Front Neural Circuits. 2021. 15:814128.

Interplay between SMAD2 and STAT5A is a critical determinant of IL-17A/IL-17F differential expression.
Corral‑Jara KF, Chauvin C, Abou‑Jaoudé W, Grandclaudon M, Naldi A, Soumelis V, Thieffry D
Mol Biomed. 2021 Apr 1. 2(1):9.

Editorial : Mixotrophic, Secondary Heterotrophic, and Parasitic Algae.
Oborník M, Dorrell RG, Tikhonenkov DV
Front Plant Sci. 2021. 12:798555.

Tuning Physicochemical Properties of a Macroporous Polysaccharide-Based Scaffold for 3D Neuronal Culture.
Gerschenfeld G, Aid R, Simon‑Yarza T, Lanouar S, Charnay P, Letourneur D, Topilko P
Int J Mol Sci. 2021 Nov 25. 22(23).

Identification of a stereotypic molecular arrangement of endogenous glycine receptors at spinal cord synapses.
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Emergence and fragmentation of the alpha-band driven by neuronal network dynamics.
Zonca L, Holcman D
PLoS Comput Biol. 2021 Dec. 17(12):e1009639.

Engineering of a fluorescent chemogenetic reporter with tunable color for advanced live-cell imaging.
Benaissa H, Ounoughi K, Aujard I, Fischer E, Goïame R, Nguyen J, Tebo AG, Li C, Le Saux T, Bertolin G, Tramier M, Danglot L, Pietrancosta N, Morin X, Jullien L, Gautier A
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Ligands binding to the prion protein induce its proteolytic release with therapeutic potential in neurodegenerative proteinopathies.
Linsenmeier L, Mohammadi B, Shafiq M, Frontzek K, Bär J, Shrivastava AN, Damme M, Song F, Schwarz A, Da Vela S, Massignan T, Jung S, Correia A, Schmitz M, Puig B, Hornemann S, Zerr I, Tatzelt J, Biasini E, Saftig P, Schweizer M, Svergun D, Amin L, Mazzola F, Varani L, Thapa S, Gilch S, Schätzl H, Harris DA, Triller A, Mikhaylova M, Aguzzi A, Altmeppen HC, Glatzel M
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Control of protein synthesis and memory by GluN3A-NMDA receptors through inhibition of GIT1/mTORC1 assembly.
Conde‑Dusman MJ, Dey PN, Elía‑Zudaire Ó, Rabaneda LG, García‑Lira C, Grand T, Briz V, Velasco ER, Andero R, Niñerola S, Barco A, Paoletti P, Wesseling JF, Gardoni F, Tavalin SJ, Perez‑Otaño I
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Compendium of 530 metagenome-assembled bacterial and archaeal genomes from the polar Arctic Ocean.
Royo‑Llonch M, Sánchez P, Ruiz‑González C, Salazar G, Pedrós‑Alió C, Sebastián M, Labadie K, Paoli L, M Ibarbalz F, Zinger L, Churcheward B, Chaffron S, Eveillard D, Karsenti E, Sunagawa S, Wincker P, Karp‑Boss L, Bowler C, Acinas SG
Nat Microbiol. 2021 Dec. 6(12):1561-1574.

Community metabarcoding reveals the relative role of environmental filtering and spatial processes in metacommunity dynamics of soil microarthropods across a mosaic of montane forests.
Noguerales V, Meramveliotakis E, Castro‑Insua A, Andújar C, Arribas P, Creedy TJ, Overcast I, Morlon H, Emerson BC, Vogler AP, Papadopoulou A
Mol Ecol. 2021 Nov 14.

Expression Pattern of Purinergic Signaling Components in Colorectal Cancer Cells and Differential Cellular Outcomes Induced by Extracellular ATP and Adenosine.
Dillard C, Borde C, Mohammad A, Puchois V, Jourdren L, Larsen AK, Sabbah M, Maréchal V, Escargueil AE, Pramil E
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Ecological ramifications of adaptation to size-selective mortality.
Evangelista C, Dupeu J, Sandkjenn J, Pauli BD, Herland A, Meriguet J, Vøllestad LA, Edeline E
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A medullary centre for lapping in mice.
Dempsey B, Sungeelee S, Bokiniec P, Chettouh Z, Diem S, Autran S, Harrell ER, Poulet JFA, Birchmeier C, Carey H, Genovesio A, McMullan S, Goridis C, Fortin G, Brunet JF
Nat Commun. 2021 Nov 2. 12(1):6307.

Infection of C. elegans by Haptoglossa Species Reveals Shared Features in the Host Response to Oomycete Detection.
Grover M, Fasseas MK, Essmann C, Liu K, Braendle C, Félix MA, Glockling SL, Barkoulas M
Front Cell Infect Microbiol. 2021. 11:733094.

Global drivers of eukaryotic plankton biogeography in the sunlit ocean.
Sommeria‑Klein G, Watteaux R, Ibarbalz FM, Pierella Karlusich JJ, Iudicone D, Bowler C, Morlon H
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HSV-1 ICP22 Is a Selective Viral Repressor of Cellular RNA Polymerase II-Mediated Transcription Elongation.
Isa NF, Bensaude O, Aziz NC, Murphy S
Vaccines (Basel). 2021 Sep 22. 9(10).

Editorial : Latest Advances on Excitatory Synapse Biology.
Huber KM, Paoletti P, Sjöström PJ
Front Synaptic Neurosci. 2021. 13:768651.

A role for AKT1 in nonsense-mediated mRNA decay.
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Nucleic Acids Res. 2021 Nov 8. 49(19):11022-11037.

Author Correction : Macroscale patterns of oceanic zooplankton composition and size structure.
Brandão MC, Benedetti F, Martini S, Soviadan YD, Irisson JO, Romagnan JB, Elineau A, Desnos C, Jalabert L, Freire AS, Picheral M, Guidi L, Gorsky G, Bowler C, Karp‑Boss L, Henry N, de Vargas C, Sullivan MB, Stemmann L, Lombard F
Sci Rep. 2021 Oct 6. 11(1):20226.

Non-REM and REM/paradoxical sleep dynamics across phylogeny.
Jaggard JB, Wang GX, Mourrain P
Curr Opin Neurobiol. 2021 Dec. 71:44-51.

Inertial Measurement of Head Tilt in Rodents : Principles and Applications to Vestibular Research.
Fayat R, Delgado Betancourt V, Goyallon T, Petremann M, Liaudet P, Descossy V, Reveret L, Dugué GP
Sensors (Basel). 2021 Sep 21. 21(18).

Transcriptome and Methylome Analysis Reveal Complex Cross-Talks between Thyroid Hormone and Glucocorticoid Signaling at Xenopus Metamorphosis.
Buisine N, Grimaldi A, Jonchere V, Rigolet M, Blugeon C, Hamroune J, Sachs LM
Cells. 2021 Sep 9. 10(9).

Comparative transcriptome analysis at the onset of speciation in a mimetic butterfly-The Ithomiini Melinaea marsaeus.
Piron‑Prunier F, Persyn E, Legeai F, McClure M, Meslin C, Robin S, Alves‑Carvalho S, Mohammad A, Blugeon C, Jacquin‑Joly E, Montagné N, Elias M, Gauthier J
J Evol Biol. 2021 Nov. 34(11):1704-1721.

RapGreen, an interactive software and web package to explore and analyze phylogenetic trees.
Dufayard JF, Bocs S, Guignon V, Larivière D, Louis A, Oubda N, Rouard M, Ruiz M, de Lamotte F
NAR Genom Bioinform. 2021 Sep. 3(3):lqab088.

Single-molecule kinetic locking allows fluorescence-free quantification of protein/nucleic-acid binding.
Rieu M, Valle‑Orero J, Ducos B, Allemand JF, Croquette V
Commun Biol. 2021 Sep 15. 4(1):1083.

Nanoscale molecular architecture controls calcium diffusion and ER replenishment in dendritic spines.
Basnayake K, Mazaud D, Kushnireva L, Bemelmans A, Rouach N, Korkotian E, Holcman D
Sci Adv. 2021 Sep 17. 7(38):eabh1376.

NMDARs in granule cells contribute to parallel fiber-Purkinje cell synaptic plasticity and motor learning.
Schonewille M, Girasole AE, Rostaing P, Mailhes‑Hamon C, Ayon A, Nelson AB, Triller A, Casado M, De Zeeuw CI, Bouvier G
Proc Natl Acad Sci U S A. 2021 Sep 14. 118(37).

The bowfin genome illuminates the developmental evolution of ray-finned fishes.
Thompson AW, Hawkins MB, Parey E, Wcisel DJ, Ota T, Kawasaki K, Funk E, Losilla M, Fitch OE, Pan Q, Feron R, Louis A, Montfort J, Milhes M, Racicot BL, Childs KL, Fontenot Q, Ferrara A, David SR, McCune AR, Dornburg A, Yoder JA, Guiguen Y, Roest Crollius H, Berthelot C, Harris MP, Braasch I
Nat Genet. 2021 Sep. 53(9):1373-1384.

An alternative D. melanogaster 7SK snRNP.
Nguyen D, Buisine N, Fayol O, Michels AA, Bensaude O, Price DH, Uguen P
BMC Mol Cell Biol. 2021 Aug 31. 22(1):43.

Selective Cleaning of Wild Caenorhabditis Nematodes to Enrich for Intestinal Microbiome Bacteria.
Morgan E, Longares JF, Félix MA, Luallen RJ
J Vis Exp. 2021 Aug 13. (174).

Environmental vulnerability of the global ocean epipelagic plankton community interactome.
Chaffron S, Delage E, Budinich M, Vintache D, Henry N, Nef C, Ardyna M, Zayed AA, Junger PC, Galand PE, Lovejoy C, Murray AE, Sarmento H, Acinas SG, Babin M, Iudicone D, Jaillon O, Karsenti E, Wincker P, Karp‑Boss L, Sullivan MB, Bowler C, de Vargas C, Eveillard D
Sci Adv. 2021 Aug. 7(35).

OTX2 Homeoprotein Functions in Adult Choroid Plexus.
Planques A, Oliveira Moreira V, Benacom D, Bernard C, Jourdren L, Blugeon C, Dingli F, Masson V, Loew D, Prochiantz A, Di Nardo AA
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Organization of DNA Replication Origin Firing in Xenopus Egg Extracts : The Role of Intra-S Checkpoint.
Ciardo D, Haccard O, Narassimprakash H, Arbona JM, Hyrien O, Audit B, Marheineke K, Goldar A
Genes (Basel). 2021 Aug 9. 12(8).

Tempo and mode of morphological evolution are decoupled from latitude in birds.
Drury JP, Clavel J, Tobias JA, Rolland J, Sheard C, Morlon H
PLoS Biol. 2021 Aug. 19(8):e3001270.

Unique properties of dually innervated dendritic spines in pyramidal neurons of the somatosensory cortex uncovered by 3D correlative light and electron microscopy.
Gemin O, Serna P, Zamith J, Assendorp N, Fossati M, Rostaing P, Triller A, Charrier C
PLoS Biol. 2021 Aug. 19(8):e3001375.

Functional analysis of a de novo variant in the neurodevelopment and generalized epilepsy disease gene NBEA.
Boulin T, Itani O, El Mouridi S, Leclercq‑Blondel A, Gendrel M, Macnamara E, Soldatos A, Murphy JL, Gorman MP, Lindsey A, Shimada S, Turner D, Silverman GA, Baldridge D, Malicdan MC, Schedl T, Pak SC
Mol Genet Metab. 2021 Sep-Oct. 134(1-2):195-202.

Identification and functional modelling of plausibly causative cis-regulatory variants in a highly-selected cohort with X-linked intellectual disability.
Bengani H, Grozeva D, Moyon L, Bhatia S, Louros SR, Hope J, Jackson A, Prendergast JG, Owen LJ, Naville M, Rainger J, Grimes G, Halachev M, Murphy LC, Spasic‑Boskovic O, van Heyningen V, Kind P, Abbott CM, Osterweil E, Raymond FL, Roest Crollius H, FitzPatrick DR
PLoS One. 2021. 16(8):e0256181.

Full-Length Transcriptome of Thalassiosira weissflogii as a Reference Resource and Mining of Chitin-Related Genes.
Cheng H, Bowler C, Xing X, Bulone V, Shao Z, Duan D
Mar Drugs. 2021 Jul 13. 19(7).

GluN2A and GluN2B NMDA receptors use distinct allosteric routes.
Tian M, Stroebel D, Piot L, David M, Ye S, Paoletti P
Nat Commun. 2021 Aug 5. 12(1):4709.

Macroscale patterns of oceanic zooplankton composition and size structure.
Brandão MC, Benedetti F, Martini S, Soviadan YD, Irisson JO, Romagnan JB, Elineau A, Desnos C, Jalabert L, Freire AS, Picheral M, Guidi L, Gorsky G, Bowler C, Karp‑Boss L, Henry N, de Vargas C, Sullivan MB, Stemmann L, Lombard F
Sci Rep. 2021 Aug 3. 11(1):15714.

Dynamics of the COVID-19 epidemic in Ireland under mitigation.
Cazelles B, Nguyen‑Van‑Yen B, Champagne C, Comiskey C
BMC Infect Dis. 2021 Aug 3. 21(1):735.

Massive colonization of protein-coding exons by selfish genetic elements in Paramecium germline genomes.
Sellis D, Guérin F, Arnaiz O, Pett W, Lerat E, Boggetto N, Krenek S, Berendonk T, Couloux A, Aury JM, Labadie K, Malinsky S, Bhullar S, Meyer E, Sperling L, Duret L, Duharcourt S
PLoS Biol. 2021 Jul. 19(7):e3001309.

A mechanistic and data-driven reconstruction of the time-varying reproduction number : Application to the COVID-19 epidemic.
Cazelles B, Champagne C, Nguyen‑Van‑Yen B, Comiskey C, Vergu E, Roche B
PLoS Comput Biol. 2021 Jul. 17(7):e1009211.

Cascading effects of moth outbreaks on subarctic soil food webs.
Calderón‑Sanou I, Münkemüller T, Zinger L, Schimann H, Yoccoz NG, Gielly L, Foulquier A, Hedde M, Ohlmann M, Roy M, Si‑Moussi S, Thuiller W
Sci Rep. 2021 Jul 23. 11(1):15054.

When the cerebellum holds the starting gun.
Frontera JL, Léna C
Neuron. 2021 Jul 21. 109(14):2207-2209.

The genetic architecture of temperature adaptation is shaped by population ancestry and not by selection regime.
Otte KA, Nolte V, Mallard F, Schlötterer C
Genome Biol. 2021 Jul 16. 22(1):211.

Global distribution patterns of marine nitrogen-fixers by imaging and molecular methods.
Pierella Karlusich JJ, Pelletier E, Lombard F, Carsique M, Dvorak E, Colin S, Picheral M, Cornejo‑Castillo FM, Acinas SG, Pepperkok R, Karsenti E, de Vargas C, Wincker P, Bowler C, Foster RA
Nat Commun. 2021 Jul 6. 12(1):4160.

A morphological trait involved in reproductive isolation between Drosophila sister species is sensitive to temperature.
Peluffo AE, Hamdani M, Vargas‑Valderrama A, David JR, Mallard F, Graner F, Courtier‑Orgogozo V
Ecol Evol. 2021 Jun. 11(12):7492-7506.

Gating mechanism and a modulatory niche of human GluN1-GluN2A NMDA receptors.
Wang H, Lv S, Stroebel D, Zhang J, Pan Y, Huang X, Zhang X, Paoletti P, Zhu S
Neuron. 2021 Aug 4. 109(15):2443-2456.e5.

Capturing the rapidly evolving study of adaptation.
Fruciano C, Franchini P, Jones JC
J Evol Biol. 2021 Jun. 34(6):856-865.

Logical modelling of in vitro differentiation of human monocytes into dendritic cells unravels novel transcriptional regulatory interactions.
Nuñez‑Reza KJ, Naldi A, Sánchez‑Jiménez A, Leon‑Apodaca AV, Santana MA, Thomas‑Chollier M, Thieffry D, Medina‑Rivera A
Interface Focus. 2021 Jun. 11(4):20200061.

Archaea : A Gold Mine for Topoisomerase Diversity.
Garnier F, Couturier M, Débat H, Nadal M
Front Microbiol. 2021. 12:661411.

Mitotic recombination between homologous chromosomes drives genomic diversity in diatoms.
Bulankova P, Sekulić M, Jallet D, Nef C, van Oosterhout C, Delmont TO, Vercauteren I, Osuna‑Cruz CM, Vancaester E, Mock T, Sabbe K, Daboussi F, Bowler C, Vyverman W, Vandepoele K, De Veylder L
Curr Biol. 2021 Aug 9. 31(15):3221-3232.e9.

Polycomb-dependent differential chromatin compartmentalization determines gene coregulation in Arabidopsis.
Huang Y, Sicar S, Ramirez‑Prado JS, Manza‑Mianza D, Antunez‑Sanchez J, Brik‑Chaouche R, Rodriguez‑Granados NY, An J, Bergounioux C, Mahfouz MM, Hirt H, Crespi M, Concia L, Barneche F, Amiard S, Probst AV, Gutierrez‑Marcos J, Ariel F, Raynaud C, Latrasse D, Benhamed M
Genome Res. 2021 Jun 3. 31(7):1230-44.

Glycine agonism in ionotropic glutamate receptors.
Stroebel D, Mony L, Paoletti P
Neuropharmacology. 2021 Aug 1. 193:108631.

Natural genetic variation drives microbiome selection in the Caenorhabditis elegans gut.
Zhang F, Weckhorst JL, Assié A, Hosea C, Ayoub CA, Khodakova AS, Cabrera ML, Vidal Vilchis D, Félix MA, Samuel BS
Curr Biol. 2021 Jun 21. 31(12):2603-2618.e9.

Differential regulation of glycinergic and GABAergic nanocolumns at mixed inhibitory synapses.
Yang X, Le Corronc H, Legendre P, Triller A, Specht CG
EMBO Rep. 2021 Jul 5. 22(7):e52154.

Biodiversity monitoring using environmental DNA.
Rodríguez‑Ezpeleta N, Zinger L, Kinziger A, Bik HM, Bonin A, Coissac E, Emerson BC, Lopes CM, Pelletier TA, Taberlet P, Narum S
Mol Ecol Resour. 2021 Jul. 21(5):1405-1409.

Testing the adaptive value of sporulation in budding yeast using experimental evolution.
Thomasson KM, Franks A, Teotónio H, Proulx SR
Evolution. 2021 Jul. 75(7):1889-1897.

Modeling the Th17 and Tregs Paradigm : Implications for Cancer Immunotherapy.
Corral‑Jara KF, Rosas da Silva G, Fierro NA, Soumelis V
Front Cell Dev Biol. 2021. 9:675099.

Deep ocean metagenomes provide insight into the metabolic architecture of bathypelagic microbial communities.
Acinas SG, Sánchez P, Salazar G, Cornejo‑Castillo FM, Sebastián M, Logares R, Royo‑Llonch M, Paoli L, Sunagawa S, Hingamp P, Ogata H, Lima‑Mendez G, Roux S, González JM, Arrieta JM, Alam IS, Kamau A, Bowler C, Raes J, Pesant S, Bork P, Agustí S, Gojobori T, Vaqué D, Sullivan MB, Pedrós‑Alió C, Massana R, Duarte CM, Gasol JM
Commun Biol. 2021 May 21. 4(1):604.

Author Correction : The impact of transposable elements on tomato diversity.
Domínguez M, Dugas E, Benchouaia M, Leduque B, Jiménez‑Gómez JM, Colot V, Quadrana L
Nat Commun. 2021 May 21. 12(1):3203.

Folding and persistence times of intramolecular G-quadruplexes transiently embedded in a DNA duplex.
Tran PLT, Rieu M, Hodeib S, Joubert A, Ouellet J, Alberti P, Bugaut A, Allemand JF, Boulé JB, Croquette V
Nucleic Acids Res. 2021 May 21. 49(9):5189-5201.

Coevolutionary transitions from antagonism to mutualism explained by the Co-Opted Antagonist Hypothesis.
Johnson CA, Smith GP, Yule K, Davidowitz G, Bronstein JL, Ferrière R
Nat Commun. 2021 May 17. 12(1):2867.

Carbon Dioxide Concentration Mechanisms in Natural Populations of Marine Diatoms : Insights From Tara Oceans.
Pierella Karlusich JJ, Bowler C, Biswas H
Front Plant Sci. 2021. 12:657821.

Ecological recipes for selecting community function.
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Nat Ecol Evol. 2021 Jul. 5(7):894-895.

Analysis of waveform and amplitude of mouse rod and cone flash responses.
Abtout A, Fain G, Reingruber J
J Physiol. 2021 Jul. 599(13):3295-3312.

Genetic and environmental modulation of transposition shapes the evolutionary potential of Arabidopsis thaliana.
Baduel P, Leduque B, Ignace A, Gy I, Gil J Jr, Loudet O, Colot V, Quadrana L
Genome Biol. 2021 May 6. 22(1):138.

A microfluidic dosimetry cell to irradiate solutions with poorly penetrating radiations : a step towards online dosimetry for synchrotron beamlines.
Huart L, Nicolas C, Hervé du Penhoat MA, Guigner JM, Gosse C, Palaudoux J, Lefrançois S, Mercere P, Dasilva P, Renault JP, Chevallard C
J Synchrotron Radiat. 2021 May 1. 28(Pt 3):778-789.

Jumpstarting evolution : How transposition can facilitate adaptation to rapid environmental changes.
Baduel P, Quadrana L
Curr Opin Plant Biol. 2021 Jun. 61:102043.

Correction to : Macromolecular interactions in vitro, comparing classical and novel approaches.
Velours C, Aumont‑Nicaise M, Uebel S, England P, Velazquez‑Campoy A, Stroebel D, Bec G, Soule P, Quétard C, Ebel C, Roussel A, Charbonnier JB, Varela PF
Eur Biophys J. 2021 May. 50(3-4):331.

Efficient Detection of Transposable Element Insertion Polymorphisms Between Genomes Using Short-Read Sequencing Data.
Baduel P, Quadrana L, Colot V
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Detection of Transposable Element Insertions in Arabidopsis Using Sequence Capture.
Quadrana L, Silveira AB, Caillieux E, Colot V
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Chromatin stability generated by stochastic binding and unbinding of cross-linkers at looping sites revealed by Markov models.
Papale A, Holcman D
Phys Biol. 2021 Jun 1. 18(4).

The epiallelic potential of transposable elements and its evolutionary significance in plants.
Baduel P, Colot V
Philos Trans R Soc Lond B Biol Sci. 2021 Jun 7. 376(1826):20200123.

How does epigenetics influence the course of evolution ?
Ashe A, Colot V, Oldroyd BP
Philos Trans R Soc Lond B Biol Sci. 2021 Jun 7. 376(1826):20200111.

A decadal perspective on north water microbial eukaryotes as Arctic Ocean sentinels.
Freyria NJ, Joli N, Lovejoy C
Sci Rep. 2021 Apr 16. 11(1):8413.

Engineered chlorophyll catabolism conferring predator resistance for microalgal biomass production.
Kashiyama Y, Ishizuka Y, Terauchi I, Matsuda T, Maeda Y, Yoshino T, Matsumoto M, Yabuki A, Bowler C, Tanaka T
Metab Eng. 2021 Jul. 66:79-86.

Magnetic Tweezers-Based Single-Molecule Assays to Study Interaction of E. coli SSB with DNA and RecQ Helicase.
Bagchi D, Zhang W, Hodeib S, Ducos B, Croquette V, Manosas M
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DNA molecular combing-based replication fork directionality profiling.
Blin M, Lacroix L, Petryk N, Jaszczyszyn Y, Chen CL, Hyrien O, Le Tallec B
Nucleic Acids Res. 2021 Jul 9. 49(12):e69.

Evaluating the Reproducibility of Single-Cell Gene Regulatory Network Inference Algorithms.
Kang Y, Thieffry D, Cantini L
Front Genet. 2021. 12:617282.

Cotranscriptional R-loop formation by Mfd involves topological partitioning of DNA.
Portman JR, Brouwer GM, Bollins J, Savery NJ, Strick TR
Proc Natl Acad Sci U S A. 2021 Apr 13. 118(15).

Balancing selection maintains hyper-divergent haplotypes in Caenorhabditis elegans.
Lee D, Zdraljevic S, Stevens L, Wang Y, Tanny RE, Crombie TA, Cook DE, Webster AK, Chirakar R, Baugh LR, Sterken MG, Braendle C, Félix MA, Rockman MV, Andersen EC
Nat Ecol Evol. 2021 Jun. 5(6):794-807.

In Memoriam Claudina Rodrigues-Pousada (1941-2021), a dedicated woman in science.
Bensaude O
Cell Stress Chaperones. 2021 May. 26(3):455-456.

Macromolecular interactions in vitro, comparing classical and novel approaches.
Velours C, Aumont‑Nicaise M, Uebel S, England P, Velazquez‑Campoy A, Stroebel D, Bec G, Soule P, Quétard C, Ebel C, Roussel A, Charbonnier JB, Varela PF
Eur Biophys J. 2021 May. 50(3-4):313-330.

On the importance of evolutionary constraint for regulatory sequence identification.
Giudicelli F, Roest Crollius H
Brief Funct Genomics. 2021 Mar 23.

Stochastic Epidemic Models inference and diagnosis with Poisson Random Measure Data Augmentation.
Nguyen‑Van‑Yen B, Del Moral P, Cazelles B
Math Biosci. 2021 May. 335:108583.

DET1-mediated COP1 regulation avoids HY5 activity over second-site gene targets to tune plant photomorphogenesis.
Cañibano E, Bourbousse C, García‑León M, Garnelo Gómez B, Wolff L, García‑Baudino C, Lozano‑Durán R, Barneche F, Rubio V, Fonseca S
Mol Plant. 2021 Jun 7. 14(6):963-982.

Publisher Correction : Detection of genetic variation and base modifications at base-pair resolution on both DNA and RNA.
Wang Z, Maluenda J, Giraut L, Vieille T, Lefevre A, Salthouse D, Radou G, Moulinas R, Astete S, D’Avezac P, Smith G, André C, Allemand JF, Bensimon D, Croquette V, Ouellet J, Hamilton G
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Gene-level quantitative trait mapping in Caenorhabditis elegans.
Noble LM, Rockman MV, Teotónio H
G3 (Bethesda). 2021 Feb 9. 11(2).

Iron metabolism strategies in diatoms.
Gao X, Bowler C, Kazamia E
J Exp Bot. 2021 Mar 17. 72(6):2165-2180.

Evolution : Drivers in a Traffic Jam.
Félix MA
Curr Biol. 2021 Mar 8. 31(5):R257-R260.

Human ORC/MCM density is low in active genes and correlates with replication time but does not delimit initiation zones.
Kirstein N, Buschle A, Wu X, Krebs S, Blum H, Kremmer E, Vorberg IM, Hammerschmidt W, Lacroix L, Hyrien O, Audit B, Schepers A
Elife. 2021 Mar 8. 10.

Comparison of SYK Signaling Networks Reveals the Potential Molecular Determinants of Its Tumor-Promoting and Suppressing Functions.
Buffard M, Naldi A, Freiss G, Deckert M, Radulescu O, Coopman PJ, Larive RM
Biomolecules. 2021 Feb 18. 11(2).

Sushi domain-containing protein 4 controls synaptic plasticity and motor learning.
González‑Calvo I, Iyer K, Carquin M, Khayachi A, Giuliani FA, Sigoillot SM, Vincent J, Séveno M, Veleanu M, Tahraoui S, Albert M, Vigy O, Bosso‑Lefèvre C, Nadjar Y, Dumoulin A, Triller A, Bessereau JL, Rondi‑Reig L, Isope P, Selimi F
Elife. 2021 Mar 4. 10.

Exon junction complex dependent mRNA localization is linked to centrosome organization during ciliogenesis.
Kwon OS, Mishra R, Safieddine A, Coleno E, Alasseur Q, Faucourt M, Barbosa I, Bertrand E, Spassky N, Le Hir H
Nat Commun. 2021 Mar 1. 12(1):1351.

A choreography of centrosomal mRNAs reveals a conserved localization mechanism involving active polysome transport.
Safieddine A, Coleno E, Salloum S, Imbert A, Traboulsi AM, Kwon OS, Lionneton F, Georget V, Robert MC, Gostan T, Lecellier CH, Chouaib R, Pichon X, Le Hir H, Zibara K, Mueller F, Walter T, Peter M, Bertrand E
Nat Commun. 2021 Mar 1. 12(1):1352.

Molecular parallelisms between pigmentation in the avian iris and the integument of ectothermic vertebrates.
Andrade P, Gazda MA, Araújo PM, Afonso S, Rasmussen JA, Marques CI, Lopes RJ, Gilbert MTP, Carneiro M
PLoS Genet. 2021 Feb. 17(2):e1009404.

Thermal and pH Stabilities of i-DNA : Confronting in vitro Experiments with Models and In-Cell NMR Data.
Cheng M, Qiu D, Tamon L, Ištvánková E, Víšková P, Amrane S, Guédin A, Chen J, Lacroix L, Ju H, Trantírek L, Sahakyan AB, Zhou J, Mergny JL
Angew Chem Int Ed Engl. 2021 Apr 26. 60(18):10286-10294.

Temporally regulated cell migration is sensitive to variation in body size.
Dubois C, Gupta S, Mugler A, Félix MA
Development. 2021 Mar 5. 148(5).

Dynamics of Ku and bacterial non-homologous end-joining characterized using single DNA molecule analysis.
Öz R, Wang JL, Guerois R, Goyal G, Kk S, Ropars V, Sharma R, Koca F, Charbonnier JB, Modesti M, Strick TR, Westerlund F
Nucleic Acids Res. 2021 Mar 18. 49(5):2629-2641.

Complex Response of the Chlorarachniophyte Bigelowiella natans to Iron Availability.
Kotabova E, Malych R, Pierella Karlusich JJ, Kazamia E, Eichner M, Mach J, Lesuisse E, Bowler C, Prášil O, Sutak R
mSystems. 2021 Feb 9. 6(1).

Parallel, linear, and subnanometric 3D tracking of microparticles with Stereo Darkfield Interferometry.
Rieu M, Vieille T, Radou G, Jeanneret R, Ruiz‑Gutierrez N, Ducos B, Allemand JF, Croquette V
Sci Adv. 2021 Feb. 7(6).

Parallel trends in the transmission of SARS-CoV-2 and retail/recreation and public transport mobility during non-lockdown periods.
Cazelles B, Comiskey C, Nguyen‑Van‑Yen B, Champagne C, Roche B
Int J Infect Dis. 2021 Mar. 104:693-695.

Reciprocal stabilization of glycine receptors and gephyrin scaffold proteins at inhibitory synapses.
Chapdelaine T, Hakim V, Triller A, Ranft J, Specht CG
Biophys J. 2021 Mar 2. 120(5):805-817.

Genome-wide analysis of allele-specific expression of genes in the model diatom Phaeodactylum tricornutum.
Hoguin A, Rastogi A, Bowler C, Tirichine L
Sci Rep. 2021 Feb 3. 11(1):2954.

A single-nucleotide change underlies the genetic assimilation of a plastic trait.
Vigne P, Gimond C, Ferrari C, Vielle A, Hallin J, Pino‑Querido A, El Mouridi S, Mignerot L, Frøkjær‑Jensen C, Boulin T, Teotónio H, Braendle C
Sci Adv. 2021 Feb. 7(6).

Genome wide natural variation of H3K27me3 selectively marks genes predicted to be important for cell differentiation in Phaeodactylum tricornutum.
Zhao X, Rastogi A, Deton Cabanillas AF, Ait Mohamed O, Cantrel C, Lombard B, Murik O, Genovesio A, Bowler C, Bouyer D, Loew D, Lin X, Veluchamy A, Vieira FRJ, Tirichine L
New Phytol. 2021 Mar. 229(6):3208-3220.

Detection of genetic variation and base modifications at base-pair resolution on both DNA and RNA.
Wang Z, Maluenda J, Giraut L, Vieille T, Lefevre A, Salthouse D, Radou G, Moulinas R, Astete S, D’Avezac P, Smith G, André C, Allemand JF, Bensimon D, Croquette V, Ouellet J, Hamilton G
Commun Biol. 2021 Jan 29. 4(1):128.

Density-dependent natural selection mediates harvest-induced trait changes.
Bouffet‑Halle A, Mériguet J, Carmignac D, Agostini S, Millot A, Perret S, Motard E, Decenciere B, Edeline E
Ecol Lett. 2021 Apr. 24(4):648-657.

Learning-dependent plasticity in the antennal lobe improves discrimination and recognition of odors in the honeybee.
Marachlian E, Klappenbach M, Locatelli F
Cell Tissue Res. 2021 Jan. 383(1):165-175.

Dysregulation of the NRG1/ERBB pathway causes a developmental disorder with gastrointestinal dysmotility in humans.
Le TL, Galmiche L, Levy J, Suwannarat P, Hellebrekers DM, Morarach K, Boismoreau F, Theunissen TE, Lefebvre M, Pelet A, Martinovic J, Gelot A, Guimiot F, Calleroz A, Gitiaux C, Hully M, Goulet O, Chardot C, Drunat S, Capri Y, Bole‑Feysot C, Nitschké P, Whalen S, Mouthon L, Babcock HE, Hofstra R, de Coo IF, Tabet AC, Molina TJ, Keren B, Brooks A, Smeets HJ, Marklund U, Gordon CT, Lyonnet S, Amiel J, Bondurand N
J Clin Invest. 2021 Mar 15. 131(6).

Aggregative cycles evolve as a solution to conflicts in social investment.
Miele L, De Monte S
PLoS Comput Biol. 2021 Jan. 17(1):e1008617.

The Arabidopsis active demethylase ROS1 cis-regulates defence genes by erasing DNA methylation at promoter-regulatory regions.
Halter T, Wang J, Amesefe D, Lastrucci E, Charvin M, Singla Rastogi M, Navarro L
Elife. 2021 Jan 20. 10.

Male fertility in Arabidopsis requires active DNA demethylation of genes that control pollen tube function.
Khouider S, Borges F, LeBlanc C, Ungru A, Schnittger A, Martienssen R, Colot V, Bouyer D
Nat Commun. 2021 Jan 18. 12(1):410.

Polycomb mutant partially suppresses DNA hypomethylation-associated phenotypes in Arabidopsis.
Rougée M, Quadrana L, Zervudacki J, Hure V, Colot V, Navarro L, Deleris A
Life Sci Alliance. 2021 Feb. 4(2).

Large, Stable Spikes Exhibit Differential Broadening in Excitatory and Inhibitory Neocortical Boutons.
Ritzau‑Jost A, Tsintsadze T, Krueger M, Ader J, Bechmann I, Eilers J, Barbour B, Smith SM, Hallermann S
Cell Rep. 2021 Jan 12. 34(2):108612.

Connecting high-throughput biodiversity inventories : Opportunities for a site-based genomic framework for global integration and synthesis.
Arribas P, Andújar C, Bidartondo MI, Bohmann K, Coissac É, Creer S, deWaard JR, Elbrecht V, Ficetola GF, Goberna M, Kennedy S, Krehenwinkel H, Leese F, Novotny V, Ronquist F, Yu DW, Zinger L, Creedy TJ, Meramveliotakis E, Noguerales V, Overcast I, Morlon H, Vogler AP, Papadopoulou A, Emerson BC
Mol Ecol. 2021 Mar. 30(5):1120-1135.

Phylogenomic fingerprinting of tempo and functions of horizontal gene transfer within ochrophytes.
Dorrell RG, Villain A, Perez‑Lamarque B, Audren de Kerdrel G, McCallum G, Watson AK, Ait‑Mohamed O, Alberti A, Corre E, Frischkorn KR, Pierella Karlusich JJ, Pelletier E, Morlon H, Bowler C, Blanc G
Proc Natl Acad Sci U S A. 2021 Jan 26. 118(4).

The Tumor Microenvironment Impairs Th1 IFNγ Secretion through Alternative Splicing Modifications of Irf1 Pre-mRNA.
Bernard A, Hibos C, Richard C, Viltard E, Chevrier S, Lemoine S, Melin J, Humblin E, Mary R, Accogli T, Chalmin F, Bruchard M, Peixoto P, Hervouet E, Apetoh L, Ghiringhelli F, Végran F, Boidot R
Cancer Immunol Res. 2021 Mar. 9(3):324-336.

Benchmarking joint multi-omics dimensionality reduction approaches for the study of cancer.
Cantini L, Zakeri P, Hernandez C, Naldi A, Thieffry D, Remy E, Baudot A
Nat Commun. 2021 Jan 5. 12(1):124.

Mechanism of efficient double-strand break repair by a long non-coding RNA.
Thapar R, Wang JL, Hammel M, Ye R, Liang K, Sun C, Hnizda A, Liang S, Maw SS, Lee L, Villarreal H, Forrester I, Fang S, Tsai MS, Blundell TL, Davis AJ, Lin C, Lees‑Miller SP, Strick TR, Tainer JA
Nucleic Acids Res. 2021 Jan 25. 49(2):1199-1200.

Evolutionary Plasticity of Mating-Type Determination Mechanisms in Paramecium aurelia Sibling Species.
Sawka‑Gądek N, Potekhin A, Singh DP, Grevtseva I, Arnaiz O, Penel S, Sperling L, Tarcz S, Duret L, Nekrasova I, Meyer E
Genome Biol Evol. 2021 Feb 3. 13(2).

Deciphering and modelling the TGF-β signalling interplays specifying the dorsal-ventral axis of the sea urchin embryo.
Floc’hlay S, Molina MD, Hernandez C, Haillot E, Thomas‑Chollier M, Lepage T, Thieffry D
Development. 2021 Jan 20. 148(2).

One progenitor to generate them all : new evidence for multi-fated neural progenitors.
Ortiz‑Álvarez G, Spassky N
Curr Opin Neurobiol. 2021 Feb. 66:186-194.

Fate restrictions in embryonic neural progenitors.
Fischer E, Morin X
Curr Opin Neurobiol. 2021 Feb. 66:178-185.

Being superficial : a developmental viewpoint on cortical layer 1 wiring.
Genescu I, Garel S
Curr Opin Neurobiol. 2021 Feb. 66:125-134.

Validated MAGIC and GWAS population mapping reveals the link between vitamin E content and natural variation in chorismate metabolism in tomato.
Burgos E, Belen De Luca M, Diouf I, de Haro LA, Albert E, Sauvage C, Tao ZJ, Bermudez L, Asís R, Nesi AN, Matringe M, Bréhélin C, Guiraud T, Ferrand C, Atienza I, Jorly J, Mauxion JP, Baldet P, Fernie AR, Quadrana L, Rothan C, Causse M, Carrari F
Plant J. 2021 Feb. 105(4):907-923.

Sharing and reporting benefits from biodiversity research.
Marden E, Abbott RJ, Austerlitz F, Ortiz‑Barrientos D, Baucom RS, Bongaerts P, Bonin A, Bonneaud C, Browne L, Alex Buerkle C, Caicedo AL, Coltman DW, Cruzan MB, Davison A, DeWoody JA, Dumbrell AJ, Emerson BC, Fountain‑Jones NM, Gillespie R, Giraud T, Hansen MM, Hodgins KA, Heuertz M, Hirase S, Hooper R, Hohenlohe P, Kane NC, Kelley JL, Kinziger AP, McKenzie VJ, Moreau CS, Nazareno AG, Pelletier TA, Pemberton JM, Qu Y, Renaut S, Riginos C, Rodríguez‑Ezpeleta N, Rogers SM, Russell JA, Schoville SD, Shi S, Smith M, Sork VL, Stone GN, Taberlet P, Videvall E, Waits L, Warschefsky E, Wayne RK, Whibley A, Willoughby J, Yoder JB, Zinger L, Sibbett B, Narum S, Rieseberg LH
Mol Ecol. 2021 Mar. 30(5):1103-1107.

New insights into homoeologous copy number variations in the hexaploid wheat genome.
Juery C, Concia L, De Oliveira R, Papon N, Ramírez‑González R, Benhamed M, Uauy C, Choulet F, Paux E
Plant Genome. 2021 Mar. 14(1):e20069.

Trans-synaptic interactions of ionotropic glutamate receptors.
Fossati M, Charrier C
Curr Opin Neurobiol. 2021 Feb. 66:85-92.

Global functional and phylogenetic structure of avian assemblages across elevation and latitude.
Jarzyna MA, Quintero I, Jetz W
Ecol Lett. 2021 Feb. 24(2):196-207.

Type 2 diabetes is associated with impaired jejunal enteroendocrine GLP-1 cell lineage in human obesity.
Osinski C, Le Gléau L, Poitou C, de Toro‑Martin J, Genser L, Fradet M, Soula HA, Leturque A, Blugeon C, Jourdren L, Hubert EL, Clément K, Serradas P, Ribeiro A
Int J Obes (Lond). 2021 Jan. 45(1):170-183.

Frequency of mispackaging of Prochlorococcus DNA by cyanophage.
Laurenceau R, Raho N, Forget M, Arellano AA, Chisholm SW
ISME J. 2021 Jan. 15(1):129-140.

Architecture and function of NMDA receptors : an evolutionary perspective.
Stroebel D, Paoletti P
J Physiol. 2021 May. 599(10):2615-2638.

A comparative pan-genomic analysis of 53 C. pseudotuberculosis strains based on functional domains.
Bernardes JS, Eberle RJ, Vieira FRJ, Coronado MA
J Biomol Struct Dyn. 2021 Nov. 39(18):6974-6986.

Multifaceted activities of the plant SAGA complex.
Grasser KD, Rubio V, Barneche F
Biochim Biophys Acta Gene Regul Mech. 2021 Feb. 1864(2):194613.

The Minimum Information about a Molecular Interaction CAusal STatement (MI2CAST).
Touré V, Vercruysse S, Acencio ML, Lovering RC, Orchard S, Bradley G, Casals‑Casas C, Chaouiya C, Del‑Toro N, Flobak Å, Gaudet P, Hermjakob H, Hoyt CT, Licata L, Lægreid A, Mungall CJ, Niknejad A, Panni S, Perfetto L, Porras P, Pratt D, Saez‑Rodriguez J, Thieffry D, Thomas PD, Türei D, Kuiper M
Bioinformatics. 2021 Apr 5. 36(24):5712-5718.

Microglia modulate gliotransmission through the regulation of VAMP2 proteins in astrocytes.
Takata‑Tsuji F, Chounlamountri N, Do LD, Philippot C, Novion Ducassou J, Couté Y, Ben Achour S, Honnorat J, Place C, Pascual O
Glia. 2021 Jan. 69(1):61-72.



2020


2020

Convergence in the RNA processing of fractured algal organelle genomes.
Dorrell RG
J Phycol. 2020 Oct. 56(5):1121-1123.

Cilia density and flow velocity affect alignment of motile cilia from brain cells.
Pellicciotta N, Das D, Kotar J, Faucourt M, Spassky N, Lauga E, Cicuta P
J Exp Biol. 2020 Dec 29. 223(Pt 24).

Distinctive Cellular and Metabolic Reprogramming in Porcine Lung Mononuclear Phagocytes Infected With Type 1 PRRSV Strains.
Crisci E, Moroldo M, Vu Manh TP, Mohammad A, Jourdren L, Urien C, Bouguyon E, Bordet E, Bevilacqua C, Bourge M, Pezant J, Pléau A, Boulesteix O, Schwartz I, Bertho N, Giuffra E
Front Immunol. 2020. 11:588411.

An Integrated Analysis of miRNA and Gene Expression Changes in Response to an Obesogenic Diet to Explore the Impact of Transgenerational Supplementation with Omega 3 Fatty Acids.
Corral‑Jara KF, Cantini L, Poupin N, Ye T, Rigaudière JP, De Saint Vincent S, Pinel A, Morio B, Capel F
Nutrients. 2020 Dec 17. 12(12).

Reduced Interhemispheric Coherence in Cerebellar Kainic Acid-Induced Lateralized Dystonia.
Georgescu Margarint EL, Georgescu IA, Zahiu CDM, Tirlea SA, Şteopoaie AR, Zǎgrean L, Popa D, Zǎgrean AM
Front Neurol. 2020. 11:580540.

The structure and global distribution of the endoplasmic reticulum network are actively regulated by lysosomes.
Lu M, van Tartwijk FW, Lin JQ, Nijenhuis W, Parutto P, Fantham M, Christensen CN, Avezov E, Holt CE, Tunnacliffe A, Holcman D, Kapitein L, Schierle GSK, Kaminski CF
Sci Adv. 2020 Dec. 6(51).

Cis-acting variation is common across regulatory layers but is often buffered during embryonic development.
Floc’hlay S, Wong E, Zhao B, Viales RR, Thomas‑Chollier M, Thieffry D, Garfield DA, Furlong EEM
Genome Res. 2020 Dec 11.

Diversity hotspots : Coldspots of speciation ?
Morlon H
Science. 2020 Dec 11. 370(6522):1268-1269.

Glucose-lactose mixture feeds in industry-like conditions : a gene regulatory network analysis on the hyperproducing Trichoderma reesei strain Rut-C30.
Pirayre A, Duval L, Blugeon C, Firmo C, Perrin S, Jourdier E, Margeot A, Bidard F
BMC Genomics. 2020 Dec 10. 21(1):885.

Genetic deciphering of the antagonistic activities of the melanin-concentrating hormone and melanocortin pathways in skin pigmentation.
Madelaine R, Ngo KJ, Skariah G, Mourrain P
PLoS Genet. 2020 Dec. 16(12):e1009244.

Does divergence from normal patterns of integration increase as chromosomal fusions increase in number ? A test on a house mouse hybrid zone.
Fruciano C, Colangelo P, Castiglia R, Franchini P
Curr Zool. 2020 Oct. 66(5):527-538.

Dynamical Boolean Modeling of Immunogenic Cell Death.
Checcoli A, Pol JG, Naldi A, Noel V, Barillot E, Kroemer G, Thieffry D, Calzone L, Stoll G
Front Physiol. 2020. 11:590479.

Absent phasing of respiratory and locomotor rhythms in running mice.
Hérent C, Diem S, Fortin G, Bouvier J
Elife. 2020 Dec 1. 9.

Cerebellar Cortex 4-12 Hz Oscillations and Unit Phase Relation in the Awake Rat.
Lévesque M, Gao H, Southward C, Langlois JMP, Léna C, Courtemanche R
Front Syst Neurosci. 2020. 14:475948.

Synchronization, Stochasticity, and Phase Waves in Neuronal Networks With Spatially-Structured Connectivity.
Kulkarni A, Ranft J, Hakim V
Front Comput Neurosci. 2020. 14:569644.

PhaeoNet : A Holistic RNAseq-Based Portrait of Transcriptional Coordination in the Model Diatom Phaeodactylum tricornutum.
Ait‑Mohamed O, Novák Vanclová AMG, Joli N, Liang Y, Zhao X, Genovesio A, Tirichine L, Bowler C, Dorrell RG
Front Plant Sci. 2020. 11:590949.

Translational study of the whole transcriptome in rats and genetic polymorphisms in humans identifies LRP1B and VPS13A as key genes involved in tolerance to cocaine-induced motor disturbances.
Vorspan F, Icick R, Mekdad N, Courtin C, Bloch V, Bellivier F, Laplanche JL, Prince N, Pishalin D, Firmo C, Blugeon C, Mégarbane B, Marie‑Claire C, Benturquia N
Transl Psychiatry. 2020 Nov 6. 10(1):381.

Algal plankton turn to hunting to survive and recover from end-Cretaceous impact darkness.
Gibbs SJ, Bown PR, Ward BA, Alvarez SA, Kim H, Archontikis OA, Sauterey B, Poulton AJ, Wilson J, Ridgwell A
Sci Adv. 2020 Oct. 6(44).

Computational Verification of Large Logical Models-Application to the Prediction of T Cell Response to Checkpoint Inhibitors.
Hernandez C, Thomas‑Chollier M, Naldi A, Thieffry D
Front Physiol. 2020. 11:558606.

Unraveling spatial cellular pattern by computational tissue shuffling.
Laruelle E, Spassky N, Genovesio A
Commun Biol. 2020 Oct 23. 3(1):605.

Triangulation Sensing to Determine the Gradient Source from Diffusing Particles to Small Cell Receptors.
Dobramysl U, Holcman D
Phys Rev Lett. 2020 Oct 2. 125(14):148102.

Bidirectional control of fear memories by cerebellar neurons projecting to the ventrolateral periaqueductal grey.
Frontera JL, Baba Aissa H, Sala RW, Mailhes‑Hamon C, Georgescu IA, Léna C, Popa D
Nat Commun. 2020 Oct 15. 11(1):5207.

Mechanism of efficient double-strand break repair by a long non-coding RNA.
Thapar R, Wang JL, Hammel M, Ye R, Liang K, Sun C, Hnizda A, Liang S, Maw SS, Lee L, Villarreal H, Forrester I, Fang S, Tsai MS, Blundell TL, Davis AJ, Lin C, Lees‑Miller SP, Strick TR, Tainer JA
Nucleic Acids Res. 2020 Nov 4. 48(19):10953-10972.

Fluorescent secreted bacterial effectors reveal active intravacuolar proliferation of Listeria monocytogenes in epithelial cells.
Peron‑Cane C, Fernandez JC, Leblanc J, Wingertsmann L, Gautier A, Desprat N, Lebreton A
PLoS Pathog. 2020 Oct. 16(10):e1009001.

Super-Resolution Microscopy and FIB-SEM Imaging Reveal Parental Centriole-Derived, Hybrid Cilium in Mammalian Multiciliated Cells.
Liu Z, Nguyen QPH, Nanjundappa R, Delgehyr N, Megherbi A, Doherty R, Thompson J, Jackson C, Albulescu A, Heng YM, Lucas JS, Dell SD, Meunier A, Czymmek K, Mahjoub MR, Mennella V
Dev Cell. 2020 Oct 26. 55(2):224-236.e6.

Large tandem duplications affect gene expression, 3D organization, and plant-pathogen response.
Picart‑Picolo A, Grob S, Picault N, Franek M, Llauro C, Halter T, Maier TR, Jobet E, Descombin J, Zhang P, Paramasivan V, Baum TJ, Navarro L, Dvořáčková M, Mirouze M, Pontvianne F
Genome Res. 2020 Nov. 30(11):1583-1592.

Evolution of communication signals and information during species radiation.
Garcia M, Theunissen F, Sèbe F, Clavel J, Ravignani A, Marin‑Cudraz T, Fuchs J, Mathevon N
Nat Commun. 2020 Oct 2. 11(1):4970.

Visualizing the dynamics of exported bacterial proteins with the chemogenetic fluorescent reporter FAST.
Chekli Y, Peron‑Cane C, Dell’Arciprete D, Allemand JF, Li C, Ghigo JM, Gautier A, Lebreton A, Desprat N, Beloin C
Sci Rep. 2020 Sep 25. 10(1):15791.

NCBP3 positively impacts mRNA biogenesis.
Dou Y, Barbosa I, Jiang H, Iasillo C, Molloy KR, Schulze WM, Cusack S, Schmid M, Le Hir H, LaCava J, Jensen TH
Nucleic Acids Res. 2020 Oct 9. 48(18):10413-10427.

A multi-scale eco-evolutionary model of cooperation reveals how microbial adaptation influences soil decomposition.
Abs E, Leman H, Ferrière R
Commun Biol. 2020 Sep 21. 3(1):520.

Adipocyte Reprogramming by the Transcriptional Coregulator GPS2 Impacts Beta Cell Insulin Secretion.
Drareni K, Ballaire R, Alzaid F, Goncalves A, Chollet C, Barilla S, Nguewa JL, Dias K, Lemoine S, Riveline JP, Roussel R, Dalmas E, Velho G, Treuter E, Gautier JF, Venteclef N
Cell Rep. 2020 Sep 15. 32(11):108141.

Ecological Dynamics : Integrating Empirical, Statistical, and Analytical Methods.
Laubmeier AN, Cazelles B, Cuddington K, Erickson KD, Fortin MJ, Ogle K, Wikle CK, Zhu K, Zipkin EF
Trends Ecol Evol. 2020 Dec. 35(12):1090-1099.

Engineering E. coli for Magnetic Control and the Spatial Localization of Functions.
Aubry M, Wang WA, Guyodo Y, Delacou E, Guigner JM, Espeli O, Lebreton A, Guyot F, Gueroui Z
ACS Synth Biol. 2020 Nov 20. 9(11):3030-3041.

JMJD6 Regulates Splicing of Its Own Gene Resulting in Alternatively Spliced Isoforms with Different Nuclear Targets.
Raguz N, Heim A, Engal E, Wesche J, Merl‑Pham J, Hauck SM, Erkelenz S, Schaal H, Bensaude O, Wolf A, Salton M, Böttger A
Int J Mol Sci. 2020 Sep 10. 21(18).

The Anatomical and Functional Heterogeneity of the Mediodorsal Thalamus.
Georgescu IA, Popa D, Zagrean L
Brain Sci. 2020 Sep 9. 10(9).

Reduced Interhemispheric Coherence after Cerebellar Vermis Output Perturbation.
Georgescu Margarint EL, Georgescu IA, Zahiu CD, Șteopoaie AR, Tirlea SA, Popa D, Zagrean AM, Zagrean L
Brain Sci. 2020 Sep 8. 10(9).

Biogeography of marine giant viruses reveals their interplay with eukaryotes and ecological functions.
Endo H, Blanc‑Mathieu R, Li Y, Salazar G, Henry N, Labadie K, de Vargas C, Sullivan MB, Bowler C, Wincker P, Karp‑Boss L, Sunagawa S, Ogata H
Nat Ecol Evol. 2020 Dec. 4(12):1639-1649.

An individual-based model for the eco-evolutionary emergence of bipartite interaction networks.
Maliet O, Loeuille N, Morlon H
Ecol Lett. 2020 Nov. 23(11):1623-1634.

The Salt Sensitivity Induced by Disruption of Cell Wall-Associated Kinase 1 (SlWAK1) Tomato Gene Is Linked to Altered Osmotic and Metabolic Homeostasis.
Meco V, Egea I, Ortíz‑Atienza A, Drevensek S, Esch E, Yuste‑Lisbona FJ, Barneche F, Vriezen W, Bolarin MC, Lozano R, Flores FB
Int J Mol Sci. 2020 Aug 31. 21(17).

A broad mutational target explains a fast rate of phenotypic evolution.
Besnard F, Picao‑Osorio J, Dubois C, Félix MA
Elife. 2020 Aug 27. 9.

Local Translation in Perisynaptic Astrocytic Processes Is Specific and Changes after Fear Conditioning.
Mazaré N, Oudart M, Moulard J, Cheung G, Tortuyaux R, Mailly P, Mazaud D, Bemelmans AP, Boulay AC, Blugeon C, Jourdren L, Le Crom S, Rouach N, Cohen‑Salmon M
Cell Rep. 2020 Aug 25. 32(8):108076.

SBML Level 3 : an extensible format for the exchange and reuse of biological models.
Keating SM, Waltemath D, König M, Zhang F, Dräger A, Chaouiya C, Bergmann FT, Finney A, Gillespie CS, Helikar T, Hoops S, Malik‑Sheriff RS, Moodie SL, Moraru II, Myers CJ, Naldi A, Olivier BG, Sahle S, Schaff JC, Smith LP, Swat MJ, Thieffry D, Watanabe L, Wilkinson DJ, Blinov ML, Begley K, Faeder JR, Gómez HF, Hamm TM, Inagaki Y, Liebermeister W, Lister AL, Lucio D, Mjolsness E, Proctor CJ, Raman K, Rodriguez N, Shaffer CA, Shapiro BE, Stelling J, Swainston N, Tanimura N, Wagner J, Meier‑Schellersheim M, Sauro HM, Palsson B, Bolouri H, Kitano H, Funahashi A, Hermjakob H, Doyle JC, Hucka M
Mol Syst Biol. 2020 Aug. 16(8):e9110.

Poultry farmer response to disease outbreaks in smallholder farming systems in southern Vietnam.
Delabouglise A, Thanh NTL, Xuyen HTA, Nguyen‑Van‑Yen B, Tuyet PN, Lam HM, Boni MF
Elife. 2020 Aug 25. 9.

Global identification of a marine diatom long noncoding natural antisense transcripts (NATs) and their response to phosphate fluctuations.
Cruz de Carvalho MH, Bowler C
Sci Rep. 2020 Aug 24. 10(1):14110.

Microglial ontogeny, diversity and neurodevelopmental functions.
Thion MS, Garel S
Curr Opin Genet Dev. 2020 Dec. 65:186-194.

Diversification and hybrid incompatibility in auto-pseudogamous species of Mesorhabditis nematodes.
Launay C, Félix MA, Dieng J, Delattre M
BMC Evol Biol. 2020 Aug 18. 20(1):105.

Dynamic nanopore long-read sequencing analysis of HIV-1 splicing events during the early steps of infection.
Nguyen Quang N, Goudey S, Ségéral E, Mohammad A, Lemoine S, Blugeon C, Versapuech M, Paillart JC, Berlioz‑Torrent C, Emiliani S, Gallois‑Montbrun S
Retrovirology. 2020 Aug 17. 17(1):25.

Loss of G protein pathway suppressor 2 in human adipocytes triggers lipid remodeling by upregulating ATP binding cassette subfamily G member 1.
Barilla S, Liang N, Mileti E, Ballaire R, Lhomme M, Ponnaiah M, Lemoine S, Soprani A, Gautier JF, Amri EZ, Le Goff W, Venteclef N, Treuter E
Mol Metab. 2020 Dec. 42:101066.

The impact of transposable elements on tomato diversity.
Domínguez M, Dugas E, Benchouaia M, Leduque B, Jiménez‑Gómez JM, Colot V, Quadrana L
Nat Commun. 2020 Aug 13. 11(1):4058.

Dimer interaction in the Hv1 proton channel.
Mony L, Stroebel D, Isacoff EY
Proc Natl Acad Sci U S A. 2020 Aug 25. 117(34):20898-20907.

A Dual Protein-mRNA Localization Screen Reveals Compartmentalized Translation and Widespread Co-translational RNA Targeting.
Chouaib R, Safieddine A, Pichon X, Imbert A, Kwon OS, Samacoits A, Traboulsi AM, Robert MC, Tsanov N, Coleno E, Poser I, Zimmer C, Hyman A, Le Hir H, Zibara K, Peter M, Mueller F, Walter T, Bertrand E
Dev Cell. 2020 Sep 28. 54(6):773-791.e5.

The contribution of transposable elements to transcriptional novelty in plants : the FLC affair.
Quadrana L
Transcription. 2020 Jun - Aug. 11(3-4):192-198.

Post-replicative pairing of sister ter regions in Escherichia coli involves multiple activities of MatP.
Crozat E, Tardin C, Salhi M, Rousseau P, Lablaine A, Bertoni T, Holcman D, Sclavi B, Cicuta P, Cornet F
Nat Commun. 2020 Jul 30. 11(1):3796.

Dynamic Functional Connectivity between order and randomness and its evolution across the human adult lifespan.
Battaglia D, Boudou T, Hansen ECA, Lombardo D, Chettouf S, Daffertshofer A, McIntosh AR, Zimmermann J, Ritter P, Jirsa V
Neuroimage. 2020 Nov 15. 222:117156.

The activation trajectory of plasmacytoid dendritic cells in vivo during a viral infection.
Abbas A, Vu Manh TP, Valente M, Collinet N, Attaf N, Dong C, Naciri K, Chelbi R, Brelurut G, Cervera‑Marzal I, Rauwel B, Davignon JL, Bessou G, Thomas‑Chollier M, Thieffry D, Villani AC, Milpied P, Dalod M, Tomasello E
Nat Immunol. 2020 Sep. 21(9):983-997.

Increased temperature has no consequence for behavioral manipulation despite effects on both partners in the interaction between a crustacean host and a manipulative parasite.
Labaude S, Cézilly F, De Marco L, Rigaud T
Sci Rep. 2020 Jul 15. 10(1):11670.

Dynamic Contrast for Plant Phenotyping.
Kelemen Z, Zhang R, Gissot L, Chouket R, Bellec Y, Croquette V, Jullien L, Faure JD, Le Saux T
ACS Omega. 2020 Jun 30. 5(25):15105-15114.

Eco-evolutionary dynamics of nested Darwinian populations and the emergence of community-level heredity.
Doulcier G, Lambert A, De Monte S, Rainey PB
Elife. 2020 Jul 7. 9.

Genome wide distribution of G-quadruplexes and their impact on gene expression in malaria parasites.
Gazanion E, Lacroix L, Alberti P, Gurung P, Wein S, Cheng M, Mergny JL, Gomes AR, Lopez‑Rubio JJ
PLoS Genet. 2020 Jul. 16(7):e1008917.

Active flow network generates molecular transport by packets : case of the endoplasmic reticulum.
Dora M, Holcman D
Proc Biol Sci. 2020 Jul 8. 287(1930):20200493.

Coordination of transcriptional and translational regulations in human epithelial cells infected by Listeria monocytogenes.
Besic V, Habibolahi F, Noël B, Rupp S, Genovesio A, Lebreton A
RNA Biol. 2020 Oct. 17(10):1492-1507.

IL-12 Signaling Contributes to the Reprogramming of Neonatal CD8+ T Cells.
Gutiérrez‑Reyna DY, Cedillo‑Baños A, Kempis‑Calanis LA, Ramírez‑Pliego O, Bargier L, Puthier D, Abad‑Flores JD, Thomas‑Chollier M, Thieffry D, Medina‑Rivera A, Spicuglia S, Santana MA
Front Immunol. 2020. 11:1089.

Conserved Small Nucleotidic Elements at the Origin of Concerted piRNA Biogenesis from Genes and lncRNAs.
Jensen S, Brasset E, Parey E, Roest Crollius H, Sharakhov IV, Vaury C
Cells. 2020 Jun 18. 9(6).

A Far-Red Emitting Fluorescent Chemogenetic Reporter for In Vivo Molecular Imaging.
Li C, Tebo AG, Thauvin M, Plamont MA, Volovitch M, Morin X, Vriz S, Gautier A
Angew Chem Int Ed Engl. 2020 Oct 5. 59(41):17917-17923.

Direct Readout of Neural Stem Cell Transgenesis with an Integration-Coupled Gene Expression Switch.
Kumamoto T, Maurinot F, Barry‑Martinet R, Vaslin C, Vandormael‑Pournin S, Le M, Lerat M, Niculescu D, Cohen‑Tannoudji M, Rebsam A, Loulier K, Nedelec S, Tozer S, Livet J
Neuron. 2020 Aug 19. 107(4):617-630.e6.

A kinetic analysis of mouse rod and cone photoreceptor responses.
Reingruber J, Ingram NT, Griffis KG, Fain GL
J Physiol. 2020 Sep. 598(17):3747-3763.

Synteny-Guided Resolution of Gene Trees Clarifies the Functional Impact of Whole-Genome Duplications.
Parey E, Louis A, Cabau C, Guiguen Y, Roest Crollius H, Berthelot C
Mol Biol Evol. 2020 Nov 1. 37(11):3324-3337.

Genome-enabled phylogenetic and functional reconstruction of an araphid pennate diatom Plagiostriata sp. CCMP470, previously assigned as a radial centric diatom, and its bacterial commensal.
Sato S, Nanjappa D, Dorrell RG, Vieira FRJ, Kazamia E, Tirichine L, Veluchamy A, Heilig R, Aury JM, Jaillon O, Wincker P, Fussy Z, Obornik M, Muñoz‑Gómez SA, Mann DG, Bowler C, Zingone A
Sci Rep. 2020 Jun 10. 10(1):9449.

Model-Based Inference of Punctuated Molecular Evolution.
Manceau M, Marin J, Morlon H, Lambert A
Mol Biol Evol. 2020 Nov 1. 37(11):3308-3323.

Interactions among interactions : The dynamical consequences of antagonism between mutualists.
Yule KM, Johnson CA, Bronstein JL, Ferrière R
J Theor Biol. 2020 Sep 21. 501:110334.

Characterizing amplitude and frequency modulation cues in natural soundscapes : A pilot study on four habitats of a biosphere reserve.
Thoret E, Varnet L, Boubenec Y, Férriere R, Le Tourneau FM, Krause B, Lorenzi C
J Acoust Soc Am. 2020 May. 147(5):3260.

Co-evolution of primitive methane-cycling ecosystems and early Earth’s atmosphere and climate.
Sauterey B, Charnay B, Affholder A, Mazevet S, Ferrière R
Nat Commun. 2020 Jun 1. 11(1):2705.

Blind deconvolution for spike inference from fluorescence recordings.
Tubiana J, Wolf S, Panier T, Debregeas G
J Neurosci Methods. 2020 Aug 1. 342:108763.

FORK-seq : replication landscape of the Saccharomyces cerevisiae genome by nanopore sequencing.
Hennion M, Arbona JM, Lacroix L, Cruaud C, Theulot B, Tallec BL, Proux F, Wu X, Novikova E, Engelen S, Lemainque A, Audit B, Hyrien O
Genome Biol. 2020 May 26. 21(1):125.

Logical modeling of cell fate specification-Application to T cell commitment.
Cacace E, Collombet S, Thieffry D
Curr Top Dev Biol. 2020. 139:205-238.

Modular Organization of Cis-regulatory Control Information of Neurotransmitter Pathway Genes in Caenorhabditis elegans.
Serrano‑Saiz E, Gulez B, Pereira L, Gendrel M, Kerk SY, Vidal B, Feng W, Wang C, Kratsios P, Rand JB, Hobert O
Genetics. 2020 Jul. 215(3):665-681.

The Ancestral Caenorhabditis elegans Cuticle Suppresses rol-1.
Noble LM, Miah A, Kaur T, Rockman MV
G3 (Bethesda). 2020 Jul 7. 10(7):2385-2395.

Coevolutionary patterns caused by prey selection.
B L Araujo S, Borges ME, W von Hartenthal F, R Jorge L, M Lewinsohn T, Guimarães PR Jr, van Baalen M
J Theor Biol. 2020 Sep 21. 501:110327.

Response to technical comment ’A cautionary note for users of linear diversification dependencies’.
Morlon H, Rolland J, Condamine FL
Ecol Lett. 2020 Jul. 23(7):1172-1174.

Coherence of dengue incidence and climate in the wet and dry zones of Sri Lanka.
Prabodanie RAR, Schreider S, Cazelles B, Stone L
Sci Total Environ. 2020 Jul 1. 724:138269.

Automated inference of Boolean models from molecular interaction maps using CaSQ.
Aghamiri SS, Singh V, Naldi A, Helikar T, Soliman S, Niarakis A
Bioinformatics. 2020 Aug 15. 36(16):4473-4482.

Neuronal Function and Dopamine Signaling Evolve at High Temperature in Drosophila.
Jakšić AM, Karner J, Nolte V, Hsu SK, Barghi N, Mallard F, Otte KA, Svečnjak L, Senti KA, Schlötterer C
Mol Biol Evol. 2020 Sep 1. 37(9):2630-2640.

Synergism of type 1 metabotropic and ionotropic glutamate receptors in cerebellar molecular layer interneurons in vivo.
Bao J, Graupner M, Astorga G, Collin T, Jalil A, Indriati DW, Bradley J, Shigemoto R, Llano I
Elife. 2020 May 13. 9.

Tara Oceans : towards global ocean ecosystems biology.
Sunagawa S, Acinas SG, Bork P, Bowler C, Eveillard D, Gorsky G, Guidi L, Iudicone D, Karsenti E, Lombard F, Ogata H, Pesant S, Sullivan MB, Wincker P, de Vargas C
Nat Rev Microbiol. 2020 Aug. 18(8):428-445.

Direct observation of helicase-topoisomerase coupling within reverse gyrase.
Yang X, Garnier F, Débat H, Strick TR, Nadal M
Proc Natl Acad Sci U S A. 2020 May 19. 117(20):10856-10864.

Early correction of synaptic long-term depression improves abnormal anxiety-like behavior in adult GluN2B-C456Y-mutant mice.
Shin W, Kim K, Serraz B, Cho YS, Kim D, Kang M, Lee EJ, Lee H, Bae YC, Paoletti P, Kim E
PLoS Biol. 2020 Apr. 18(4):e3000717.

In vivo large-scale analysis of Drosophila neuronal calcium traces by automated tracking of single somata.
Delestro F, Scheunemann L, Pedrazzani M, Tchenio P, Preat T, Genovesio A
Sci Rep. 2020 Apr 28. 10(1):7153.

Aire-dependent genes undergo Clp1-mediated 3’UTR shortening associated with higher transcript stability in the thymus.
Guyon C, Jmari N, Padonou F, Li YC, Ucar O, Fujikado N, Coulpier F, Blanchet C, Root DE, Giraud M
Elife. 2020 Apr 29. 9.

Structural and functional insights into CWC27/CWC22 heterodimer linking the exon junction complex to spliceosomes.
Busetto V, Barbosa I, Basquin J, Marquenet É, Hocq R, Hennion M, Paternina JA, Namane A, Conti E, Bensaude O, Le Hir H
Nucleic Acids Res. 2020 Jun 4. 48(10):5670-5683.

Inhibitory synaptic transmission tuned by Ca2+ and glutamate through the control of GABAA R lateral diffusion dynamics.
Bannai H, Niwa F, Sakuragi S, Mikoshiba K
Dev Growth Differ. 2020 Aug. 62(6):398-406.

Publisher Correction : Genetic tool development in marine protists : emerging model organisms for experimental cell biology.
Faktorová D, Nisbet RER, Fernández Robledo JA, Casacuberta E, Sudek L, Allen AE, Ares M Jr, Aresté C, Balestreri C, Barbrook AC, Beardslee P, Bender S, Booth DS, Bouget FY, Bowler C, Breglia SA, Brownlee C, Burger G, Cerutti H, Cesaroni R, Chiurillo MA, Clemente T, Coles DB, Collier JL, Cooney EC, Coyne K, Docampo R, Dupont CL, Edgcomb V, Einarsson E, Elustondo PA, Federici F, Freire‑Beneitez V, Freyria NJ, Fukuda K, García PA, Girguis PR, Gomaa F, Gornik SG, Guo J, Hampl V, Hanawa Y, Haro‑Contreras ER, Hehenberger E, Highfield A, Hirakawa Y, Hopes A, Howe CJ, Hu I, Ibañez J, Irwin NAT, Ishii Y, Janowicz NE, Jones AC, Kachale A, Fujimura‑Kamada K, Kaur B, Kaye JZ, Kazana E, Keeling PJ, King N, Klobutcher LA, Lander N, Lassadi I, Li Z, Lin S, Lozano JC, Luan F, Maruyama S, Matute T, Miceli C, Minagawa J, Moosburner M, Najle SR, Nanjappa D, Nimmo IC, Noble L, Novák Vanclová AMG, Nowacki M, Nuñez I, Pain A, Piersanti A, Pucciarelli S, Pyrih J, Rest JS, Rius M, Robertson D, Ruaud A, Ruiz‑Trillo I, Sigg MA, Silver PA, Slamovits CH, Jason Smith G, Sprecher BN, Stern R, Swart EC, Tsaousis AD, Tsypin L, Turkewitz A, Turnšek J, Valach M, Vergé V, von Dassow P, von der Haar T, Waller RF, Wang L, Wen X, Wheeler G, Woods A, Zhang H, Mock T, Worden AZ, Lukeš J
Nat Methods. 2020 May. 17(5):551.

Extreme escape from a cusp : When does geometry matter for the fastest Brownian particles moving in crowded cellular environments ?
Basnayake K, Holcman D
J Chem Phys. 2020 Apr 7. 152(13):134104.

Early Fate Defines Microglia and Non-parenchymal Brain Macrophage Development.
Utz SG, See P, Mildenberger W, Thion MS, Silvin A, Lutz M, Ingelfinger F, Rayan NA, Lelios I, Buttgereit A, Asano K, Prabhakar S, Garel S, Becher B, Ginhoux F, Greter M
Cell. 2020 Apr 30. 181(3):557-573.e18.

Genetic tool development in marine protists : emerging model organisms for experimental cell biology.
Faktorová D, Nisbet RER, Fernández Robledo JA, Casacuberta E, Sudek L, Allen AE, Ares M Jr, Aresté C, Balestreri C, Barbrook AC, Beardslee P, Bender S, Booth DS, Bouget FY, Bowler C, Breglia SA, Brownlee C, Burger G, Cerutti H, Cesaroni R, Chiurillo MA, Clemente T, Coles DB, Collier JL, Cooney EC, Coyne K, Docampo R, Dupont CL, Edgcomb V, Einarsson E, Elustondo PA, Federici F, Freire‑Beneitez V, Freyria NJ, Fukuda K, García PA, Girguis PR, Gomaa F, Gornik SG, Guo J, Hampl V, Hanawa Y, Haro‑Contreras ER, Hehenberger E, Highfield A, Hirakawa Y, Hopes A, Howe CJ, Hu I, Ibañez J, Irwin NAT, Ishii Y, Janowicz NE, Jones AC, Kachale A, Fujimura‑Kamada K, Kaur B, Kaye JZ, Kazana E, Keeling PJ, King N, Klobutcher LA, Lander N, Lassadi I, Li Z, Lin S, Lozano JC, Luan F, Maruyama S, Matute T, Miceli C, Minagawa J, Moosburner M, Najle SR, Nanjappa D, Nimmo IC, Noble L, Novák Vanclová AMG, Nowacki M, Nuñez I, Pain A, Piersanti A, Pucciarelli S, Pyrih J, Rest JS, Rius M, Robertson D, Ruaud A, Ruiz‑Trillo I, Sigg MA, Silver PA, Slamovits CH, Jason Smith G, Sprecher BN, Stern R, Swart EC, Tsaousis AD, Tsypin L, Turkewitz A, Turnšek J, Valach M, Vergé V, von Dassow P, von der Haar T, Waller RF, Wang L, Wen X, Wheeler G, Woods A, Zhang H, Mock T, Worden AZ, Lukeš J
Nat Methods. 2020 May. 17(5):481-494.

Corrigendum : Synaptic Mechanisms Underlying the Network State-Dependent Recruitment of VIP-Expressing Interneurons in the CA1 Hippocampus.
Luo X, Guet‑McCreight A, Villette V, Francavilla R, Marino B, Chamberland S, Skinner FK, Topolnik L
Cereb Cortex. 2020 May 14. 30(5):3437.

Artificially decreasing cortical tension generates aneuploidy in mouse oocytes.
Bennabi I, Crozet F, Nikalayevich E, Chaigne A, Letort G, Manil‑Ségalen M, Campillo C, Cadart C, Othmani A, Attia R, Genovesio A, Verlhac MH, Terret ME
Nat Commun. 2020 Apr 3. 11(1):1649.

Entrainment of mammalian motile cilia in the brain with hydrodynamic forces.
Pellicciotta N, Hamilton E, Kotar J, Faucourt M, Delgehyr N, Spassky N, Cicuta P
Proc Natl Acad Sci U S A. 2020 Apr 14. 117(15):8315-8325.

Mild drought in the vegetative stage induces phenotypic, gene expression, and DNA methylation plasticity in Arabidopsis but no transgenerational effects.
Van Dooren TJM, Silveira AB, Gilbault E, Jiménez‑Gómez JM, Martin A, Bach L, Tisné S, Quadrana L, Loudet O, Colot V
J Exp Bot. 2020 Jun 22. 71(12):3588-3602.

Dynamics and organization of proteins in the neuronal plasma membrane.
Triller A, Renner M, Choquet D
Neuropharmacology. 2020 Jun 1. 169:108043.

Long-term persistence of monotypic dengue transmission in small size isolated populations, French Polynesia, 1978-2014.
Teissier Y, Paul R, Aubry M, Rodo X, Dommar C, Salje H, Sakuntabhai A, Cazelles B, Cao‑Lormeau VM
PLoS Negl Trop Dis. 2020 Mar. 14(3):e0008110.

Disentangling the assembly mechanisms of ant cuticular bacterial communities of two Amazonian ant species sharing a common arboreal nest.
Birer C, Moreau CS, Tysklind N, Zinger L, Duplais C
Mol Ecol. 2020 Apr. 29(7):1372-1385.

Synaptic Mechanisms Underlying the Network State-Dependent Recruitment of VIP-Expressing Interneurons in the CA1 Hippocampus.
Luo X, Guet‑McCreight A, Villette V, Francavilla R, Marino B, Chamberland S, Skinner FK, Topolnik L
Cereb Cortex. 2020 May 18. 30(6):3667-3685.

Author Correction : Biotic soil-plant interaction processes explain most of hysteretic soil CO2 efflux response to temperature in cross-factorial mesocosm experiment.
Dusza Y, Sanchez‑Cañete EP, Galliard JL, Ferrière R, Chollet S, Massol F, Hansart A, Juarez S, Dontsova K, Haren JV, Troch P, Pavao‑Zuckerman MA, Hamerlynck E, Barron‑Gafford GA
Sci Rep. 2020 Feb 20. 10(1):3070.

A review of pathogens in selected Baltic Sea indicator species.
Sonne C, Lakemeyer J, Desforges JP, Eulaers I, Persson S, Stokholm I, Galatius A, Gross S, Gonnsen K, Lehnert K, Andersen‑Ranberg EU, Tange Olsen M, Dietz R, Siebert U
Environ Int. 2020 Apr. 137:105565.

Lifetime of a structure evolving by cluster aggregation and particle loss, and application to postsynaptic scaffold domains.
Hakim V, Ranft J
Phys Rev E. 2020 Jan. 101(1-1):012411.

Collective intelligence defines biological functions in Wikipedia as communities in the hidden protein connection network.
Zinovyev A, Czerwinska U, Cantini L, Barillot E, Frahm KM, Shepelyansky DL
PLoS Comput Biol. 2020 Feb. 16(2):e1007652.

The signaling peptide PapR is required for the activity of the quorum-sensor PlcRa in Bacillus thuringiensis.
Huillet E, Bridoux L, Barboza I, Lemy C, André‑Leroux G, Lereclus D
Microbiology (Reading). 2020 Apr. 166(4):398-410.

Reliable Phylogenetic Regressions for Multivariate Comparative Data : Illustration with the MANOVA and Application to the Effect of Diet on Mandible Morphology in Phyllostomid Bats.
Clavel J, Morlon H
Syst Biol. 2020 Sep 1. 69(5):927-943.

Differential Membrane Binding and Seeding of Distinct α-Synuclein Fibrillar Polymorphs.
Shrivastava AN, Bousset L, Renner M, Redeker V, Savistchenko J, Triller A, Melki R
Biophys J. 2020 Mar 24. 118(6):1301-1320.

Photocontrol of Metabotropic Glutamate Receptors : When One Agonist Is Not Enough, Make It Two.
Mony L, Paoletti P
Neuron. 2020 Feb 5. 105(3):395-397.

Cheating in arbuscular mycorrhizal mutualism : a network and phylogenetic analysis of mycoheterotrophy.
Perez‑Lamarque B, Selosse MA, Öpik M, Morlon H, Martos F
New Phytol. 2020 Jun. 226(6):1822-1835.

Biotic soil-plant interaction processes explain most of hysteric soil CO2 efflux response to temperature in cross-factorial mesocosm experiment.
Dusza Y, Sanchez‑Cañete EP, Galliard JL, Ferrière R, Chollet S, Massol F, Hansart A, Juarez S, Dontsova K, Haren JV, Troch P, Pavao‑Zuckerman MA, Hamerlynck E, Barron‑Gafford GA
Sci Rep. 2020 Jan 22. 10(1):905.

Spatiotemporal properties of whisker-evoked tactile responses in the mouse secondary somatosensory cortex.
Hubatz S, Hucher G, Shulz DE, Férézou I
Sci Rep. 2020 Jan 21. 10(1):763.

Enhancer-gene maps in the human and zebrafish genomes using evolutionary linkage conservation.
Clément Y, Torbey P, Gilardi‑Hebenstreit P, Crollius HR
Nucleic Acids Res. 2020 Mar 18. 48(5):2357-2371.

Adaptation of Biotrophic Leaf Pathogens to Fertilization-Mediated Changes in Plant Traits : A Comparison of the Optimization Principle to Invasion Fitness.
Précigout PA, Robert C, Claessen D
Phytopathology. 2020 May. 110(5):1039-1048.

Naturalistic Behavior : The Zebrafish Larva Strikes Back.
Privat M, Sumbre G
Curr Biol. 2020 Jan 6. 30(1):R27-R29.

[Corrigendum to "EEG power spectral density under Propofol and its association with burst suppression, a marker of cerebral fragility" [Clin. Neurophysiol. 130 (2019) 1311-1319].->https://doi.org/10.1016/j.clinph.2019.12.001]
Touchard C, Cartailler J, Levé C, Parutto P, Buxin C, Garnot L, Matéo J, Kubis N, Mebazaa A, Gayat E, Vallée F
Clin Neurophysiol. 2020 Mar. 131(3):781.

Interpreting pathways to discover cancer driver genes with Moonlight.
Colaprico A, Olsen C, Bailey MH, Odom GJ, Terkelsen T, Silva TC, Olsen AV, Cantini L, Zinovyev A, Barillot E, Noushmehr H, Bertoli G, Castiglioni I, Cava C, Bontempi G, Chen XS, Papaleo E
Nat Commun. 2020 Jan 3. 11(1):69.

Phytoplankton in the Tara Ocean.
Pierella Karlusich JJ, Ibarbalz FM, Bowler C
Ann Rev Mar Sci. 2020 Jan 3. 12:233-265.

From behavior to circuit modeling of light-seeking navigation in zebrafish larvae.
Karpenko S, Wolf S, Lafaye J, Le Goc G, Panier T, Bormuth V, Candelier R, Debrégeas G
Elife. 2020 Jan 2. 9.

PySpacell : A Python Package for Spatial Analysis of Cell Images.
Rose F, Rappez L, Triana SH, Alexandrov T, Genovesio A
Cytometry A. 2020 Mar. 97(3):288-295.

Interdependent Phenotypic and Biogeographic Evolution Driven by Biotic Interactions.
Quintero I, Landis MJ
Syst Biol. 2020 Jul 1. 69(4):739-755.

Increased Confinement and Polydispersity of STIM1 and Orai1 after Ca2+ Store Depletion.
Qin X, Liu L, Lee SK, Alsina A, Liu T, Wu C, Park H, Yu C, Kim H, Chu J, Triller A, Tang BZ, Hyeon C, Park CY, Park H
Biophys J. 2020 Jan 7. 118(1):70-84.

Synaptic zinc contributes to motor and cognitive deficits in 6-hydroxydopamine mouse models of Parkinson’s disease.
Sikora J, Kieffer BL, Paoletti P, Ouagazzal AM
Neurobiol Dis. 2020 Feb. 134:104681.

Natural Variation in a Dendritic Scaffold Protein Remodels Experience-Dependent Plasticity by Altering Neuropeptide Expression.
Beets I, Zhang G, Fenk LA, Chen C, Nelson GM, Félix MA, de Bono M
Neuron. 2020 Jan 8. 105(1):106-121.e10.

TFregulomeR reveals transcription factors’ context-specific features and functions.
Lin QXX, Thieffry D, Jha S, Benoukraf T
Nucleic Acids Res. 2020 Jan 24. 48(2):e10.

ParameciumDB 2019 : integrating genomic data across the genus for functional and evolutionary biology.
Arnaiz O, Meyer E, Sperling L
Nucleic Acids Res. 2020 Jan 8. 48(D1):D599-D605.

JASPAR 2020 : update of the open-access database of transcription factor binding profiles.
Fornes O, Castro‑Mondragon JA, Khan A, van der Lee R, Zhang X, Richmond PA, Modi BP, Correard S, Gheorghe M, Baranašić D, Santana‑Garcia W, Tan G, Chèneby J, Ballester B, Parcy F, Sandelin A, Lenhard B, Wasserman WW, Mathelier A
Nucleic Acids Res. 2020 Jan 8. 48(D1):D87-D92.

Only negligible deviations from electroneutrality are expected in dendritic spines.
Barbour B
Nat Rev Neurosci. 2020 Jan. 21(1):53.

Estimating Diversity Through Time Using Molecular Phylogenies : Old and Species-Poor Frog Families are the Remnants of a Diverse Past.
Billaud O, Moen DS, Parsons TL, Morlon H
Syst Biol. 2020 Mar 1. 69(2):363-383.

ANISEED 2019 : 4D exploration of genetic data for an extended range of tunicates.
Dardaillon J, Dauga D, Simion P, Faure E, Onuma TA, DeBiasse MB, Louis A, Nitta KR, Naville M, Besnardeau L, Reeves W, Wang K, Fagotto M, Guéroult‑Bellone M, Fujiwara S, Dumollard R, Veeman M, Volff JN, Roest Crollius H, Douzery E, Ryan JF, Davidson B, Nishida H, Dantec C, Lemaire P
Nucleic Acids Res. 2020 Jan 8. 48(D1):D668-D675.

Latent Dirichlet Allocation reveals spatial and taxonomic structure in a DNA-based census of soil biodiversity from a tropical forest.
Sommeria‑Klein G, Zinger L, Coissac E, Iribar A, Schimann H, Taberlet P, Chave J
Mol Ecol Resour. 2020 Mar. 20(2):371-386.

A genomics approach reveals the global genetic polymorphism, structure, and functional diversity of ten accessions of the marine model diatom Phaeodactylum tricornutum.
Rastogi A, Vieira FRJ, Deton‑Cabanillas AF, Veluchamy A, Cantrel C, Wang G, Vanormelingen P, Bowler C, Piganeau G, Hu H, Tirichine L
ISME J. 2020 Feb. 14(2):347-363.

Does the Latent Period of Leaf Fungal Pathogens Reflect Their Trophic Type ? A Meta-Analysis of Biotrophs, Hemibiotrophs, and Necrotrophs.
Précigout PA, Claessen D, Makowski D, Robert C
Phytopathology. 2020 Feb. 110(2):345-361.

Characterizing and Comparing Phylogenetic Trait Data from Their Normalized Laplacian Spectrum.
Lewitus E, Aristide L, Morlon H
Syst Biol. 2020 Mar 1. 69(2):234-248.

Fractional occupancy of synaptic binding sites and the molecular plasticity of inhibitory synapses.
Specht CG
Neuropharmacology. 2020 Jun 1. 169:107493.

Cell biology and dynamics of Neuronal Na+/K+-ATPase in health and diseases.
Shrivastava AN, Triller A, Melki R
Neuropharmacology. 2020 Jun 1. 169:107461.



2019


2019

Plant Chromatin Catches the Sun.
Bourbousse C, Barneche F, Laloi C
Front Plant Sci. 2019. 10:1728.

Considering the Role of Adaptive Evolution in Models of the Ocean and Climate System.
Ward BA, Collins S, Dutkiewicz S, Gibbs S, Bown P, Ridgwell A, Sauterey B, Wilson JD, Oschlies A
J Adv Model Earth Syst. 2019 Nov. 11(11):3343-3361.

Inhibitory Receptor Diffusion Dynamics.
Maynard SA, Triller A
Front Mol Neurosci. 2019. 12:313.

Activity-dependent death of transient Cajal-Retzius neurons is required for functional cortical wiring.
Riva M, Genescu I, Habermacher C, Orduz D, Ledonne F, Rijli FM, López‑Bendito G, Coppola E, Garel S, Angulo MC, Pierani A
Elife. 2019 Dec 31. 8.

RSAT variation-tools : An accessible and flexible framework to predict the impact of regulatory variants on transcription factor binding.
Santana‑Garcia W, Rocha‑Acevedo M, Ramirez‑Navarro L, Mbouamboua Y, Thieffry D, Thomas‑Chollier M, Contreras‑Moreira B, van Helden J, Medina‑Rivera A
Comput Struct Biotechnol J. 2019. 17:1415-1428.

A measure of force.
Strick TR, Yan J
Curr Opin Chem Biol. 2019 Dec. 53:A4-A6.

Relaxed purifying selection in autopolyploids drives transposable element over-accumulation which provides variants for local adaptation.
Baduel P, Quadrana L, Hunter B, Bomblies K, Colot V
Nat Commun. 2019 Dec 20. 10(1):5818.

Intraspecific Diversity in the Cold Stress Response of Transposable Elements in the Diatom Leptocylindrus aporus.
Pargana A, Musacchia F, Sanges R, Russo MT, Ferrante MI, Bowler C, Zingone A
Genes (Basel). 2019 Dec 20. 11(1).

GC content shapes mRNA storage and decay in human cells.
Courel M, Clément Y, Bossevain C, Foretek D, Vidal Cruchez O, Yi Z, Bénard M, Benassy MN, Kress M, Vindry C, Ernoult‑Lange M, Antoniewski C, Morillon A, Brest P, Hubstenberger A, Roest Crollius H, Standart N, Weil D
Elife. 2019 Dec 19. 8.

Contribution of ROS and metabolic status to neonatal and adult CD8+ T cell activation.
Sánchez‑Villanueva JA, Rodríguez‑Jorge O, Ramírez‑Pliego O, Rosas Salgado G, Abou‑Jaoudé W, Hernandez C, Naldi A, Thieffry D, Santana MA
PLoS One. 2019. 14(12):e0226388.

cAMP-EPAC-Dependent Regulation of Gephyrin Phosphorylation and GABAAR Trapping at Inhibitory Synapses.
Niwa F, Patrizio A, Triller A, Specht CG
iScience. 2019 Dec 20. 22:453-465.

Ultrafast Two-Photon Imaging of a High-Gain Voltage Indicator in Awake Behaving Mice.
Villette V, Chavarha M, Dimov IK, Bradley J, Pradhan L, Mathieu B, Evans SW, Chamberland S, Shi D, Yang R, Kim BB, Ayon A, Jalil A, St‑Pierre F, Schnitzer MJ, Bi G, Toth K, Ding J, Dieudonné S, Lin MZ
Cell. 2019 Dec 12. 179(7):1590-1608.e23.

Massive centriole production can occur in the absence of deuterosomes in multiciliated cells.
Mercey O, Levine MS, LoMastro GM, Rostaing P, Brotslaw E, Gomez V, Kumar A, Spassky N, Mitchell BJ, Meunier A, Holland AJ
Nat Cell Biol. 2019 Dec. 21(12):1544-1552.

An RNA-Binding Protein Secreted by a Bacterial Pathogen Modulates RIG-I Signaling.
Pagliuso A, Tham TN, Allemand E, Robertin S, Dupuy B, Bertrand Q, Bécavin C, Koutero M, Najburg V, Nahori MA, Tangy F, Stavru F, Bessonov S, Dessen A, Muchardt C, Lebreton A, Komarova AV, Cossart P
Cell Host Microbe. 2019 Dec 11. 26(6):823-835.e11.

Molecular scaffolds : when DNA becomes the hardware for single-molecule investigations.
Gosse C, Strick TR, Kostrz D
Curr Opin Chem Biol. 2019 Dec. 53:192-203.

Global Trends in Marine Plankton Diversity across Kingdoms of Life.
Ibarbalz FM, Henry N, Brandão MC, Martini S, Busseni G, Byrne H, Coelho LP, Endo H, Gasol JM, Gregory AC, Mahé F, Rigonato J, Royo‑Llonch M, Salazar G, Sanz‑Sáez I, Scalco E, Soviadan D, Zayed AA, Zingone A, Labadie K, Ferland J, Marec C, Kandels S, Picheral M, Dimier C, Poulain J, Pisarev S, Carmichael M, Pesant S, Babin M, Boss E, Iudicone D, Jaillon O, Acinas SG, Ogata H, Pelletier E, Stemmann L, Sullivan MB, Sunagawa S, Bopp L, de Vargas C, Karp‑Boss L, Wincker P, Lombard F, Bowler C, Zinger L
Cell. 2019 Nov 14. 179(5):1084-1097.e21.

Gene Expression Changes and Community Turnover Differentially Shape the Global Ocean Metatranscriptome.
Salazar G, Paoli L, Alberti A, Huerta‑Cepas J, Ruscheweyh HJ, Cuenca M, Field CM, Coelho LP, Cruaud C, Engelen S, Gregory AC, Labadie K, Marec C, Pelletier E, Royo‑Llonch M, Roux S, Sánchez P, Uehara H, Zayed AA, Zeller G, Carmichael M, Dimier C, Ferland J, Kandels S, Picheral M, Pisarev S, Poulain J, Acinas SG, Babin M, Bork P, Bowler C, de Vargas C, Guidi L, Hingamp P, Iudicone D, Karp‑Boss L, Karsenti E, Ogata H, Pesant S, Speich S, Sullivan MB, Wincker P, Sunagawa S
Cell. 2019 Nov 14. 179(5):1068-1083.e21.

The Crohn’s disease-associated Escherichia coli strain LF82 relies on SOS and stringent responses to survive, multiply and tolerate antibiotics within macrophages.
Demarre G, Prudent V, Schenk H, Rousseau E, Bringer MA, Barnich N, Tran Van Nhieu G, Rimsky S, De Monte S, Espéli O
PLoS Pathog. 2019 Nov. 15(11):e1008123.

Sensorimotor Transformations in the Zebrafish Auditory System.
Privat M, Romano SA, Pietri T, Jouary A, Boulanger‑Weill J, Elbaz N, Duchemin A, Soares D, Sumbre G
Curr Biol. 2019 Dec 2. 29(23):4010-4023.e4.

Trans-Synaptic Signaling through the Glutamate Receptor Delta-1 Mediates Inhibitory Synapse Formation in Cortical Pyramidal Neurons.
Fossati M, Assendorp N, Gemin O, Colasse S, Dingli F, Arras G, Loew D, Charrier C
Neuron. 2019 Dec 18. 104(6):1081-1094.e7.

Electrodiffusion Theory to Map the Voltage Distribution in Dendritic Spines at a Nanometer Scale.
Cartailler J, Holcman D
Neuron. 2019 Nov 6. 104(3):440-441.

No Extraction of Spine Neck Resistance from Underdetermined Equations.
Barbour B
Neuron. 2019 Nov 6. 104(3):438-439.

Investigating the epi-miRNome : identification of epi-miRNAs using transfection experiments.
Reale E, Taverna D, Cantini L, Martignetti L, Osella M, De Pittà C, Virga F, Orso F, Caselle M
Epigenomics. 2019 Nov. 11(14):1581-1599.

Electrical Stimulation in the Claustrum Area Induces a Deepening of Isoflurane Anesthesia in Rat.
Pavel B, Menardy F, Rotaru D, Paslaru AC, Acatrinei C, Zagrean L, Popa D, Zagrean AM
Brain Sci. 2019 Nov 1. 9(11).

Sparse force-bearing bridges between neighboring synaptic vesicles.
Wesseling JF, Phan S, Bushong EA, Siksou L, Marty S, Pérez‑Otaño I, Ellisman M
Brain Struct Funct. 2019 Dec. 224(9):3263-3276.

Altered trophic interactions in warming climates : consequences for predator diet breadth and fitness.
Bestion E, Soriano‑Redondo A, Cucherousset J, Jacob S, White J, Zinger L, Fourtune L, Di Gesu L, Teyssier A, Cote J
Proc Biol Sci. 2019 Nov 6. 286(1914):20192227.

Access to RNA-sequencing data from 1,173 plant species : The 1000 Plant transcriptomes initiative (1KP).
Carpenter EJ, Matasci N, Ayyampalayam S, Wu S, Sun J, Yu J, Jimenez Vieira FR, Bowler C, Dorrell RG, Gitzendanner MA, Li L, Du W, K Ullrich K, Wickett NJ, Barkmann TJ, Barker MS, Leebens‑Mack JH, Wong GK
Gigascience. 2019 Oct 1. 8(10).

Active Fluctuations of the Nuclear Envelope Shape the Transcriptional Dynamics in Oocytes.
Almonacid M, Al Jord A, El‑Hayek S, Othmani A, Coulpier F, Lemoine S, Miyamoto K, Grosse R, Klein C, Piolot T, Mailly P, Voituriez R, Genovesio A, Verlhac MH
Dev Cell. 2019 Oct 21. 51(2):145-157.e10.

Control of aversion by glycine-gated GluN1/GluN3A NMDA receptors in the adult medial habenula.
Otsu Y, Darcq E, Pietrajtis K, Mátyás F, Schwartz E, Bessaih T, Abi Gerges S, Rousseau CV, Grand T, Dieudonné S, Paoletti P, Acsády L, Agulhon C, Kieffer BL, Diana MA
Science. 2019 Oct 11. 366(6462):250-254.

The unstructured linker arms of MutL enable GATC site incision beyond roadblocks during initiation of DNA mismatch repair.
Mardenborough YSN, Nitsenko K, Laffeber C, Duboc C, Sahin E, Quessada‑Vial A, Winterwerp HHK, Sixma TK, Kanaar R, Friedhoff P, Strick TR, Lebbink JHG
Nucleic Acids Res. 2019 Dec 16. 47(22):11667-11680.

HEXIM1 Diffusion in the Nucleus Is Regulated by Its Interactions with Both 7SK and P-TEFb.
Furlan A, Gonzalez‑Pisfil M, Leray A, Champelovier D, Henry M, Le Nézet C, Bensaude O, Lefranc M, Wohland T, Vandenbunder B, Bidaux G, Héliot L
Biophys J. 2019 Nov 5. 117(9):1615-1625.

A Quantitative Multivariate Model of Human Dendritic Cell-T Helper Cell Communication.
Grandclaudon M, Perrot‑Dockès M, Trichot C, Karpf L, Abouzid O, Chauvin C, Sirven P, Abou‑Jaoudé W, Berger F, Hupé P, Thieffry D, Sansonnet L, Chiquet J, Lévy‑Leduc C, Soumelis V
Cell. 2019 Oct 3. 179(2):432-447.e21.

Does toe clipping for genotyping interfere with later-in-life nociception in mice ?
Frezel N, Kratzer G, Verzar P, Bürki J, Weber FA, Zeilhofer HU
Pain Rep. 2019 May-Jun. 4(3):e740.

Taste bud formation depends on taste nerves.
Fan D, Chettouh Z, Consalez GG, Brunet JF
Elife. 2019 Oct 1. 8.

A modular DNA scaffold to study protein-protein interactions at single-molecule resolution.
Kostrz D, Wayment‑Steele HK, Wang JL, Follenfant M, Pande VS, Strick TR, Gosse C
Nat Nanotechnol. 2019 Oct. 14(10):988-993.

Selection and gene flow shape niche-associated variation in pheromone response.
Lee D, Zdraljevic S, Cook DE, Frézal L, Hsu JC, Sterken MG, Riksen JAG, Wang J, Kammenga JE, Braendle C, Félix MA, Schroeder FC, Andersen EC
Nat Ecol Evol. 2019 Oct. 3(10):1455-1463.

Intrinsic and extrinsic drivers of transmission dynamics of hemorrhagic fever with renal syndrome caused by Seoul hantavirus.
Li Y, Cazelles B, Yang G, Laine M, Huang ZXY, Cai J, Tan H, Stenseth NC, Tian H
PLoS Negl Trop Dis. 2019 Sep. 13(9):e0007757.

The Tara Pacific expedition-A pan-ecosystemic approach of the "-omics" complexity of coral reef holobionts across the Pacific Ocean.
Planes S, Allemand D, Agostini S, Banaigs B, Boissin E, Boss E, Bourdin G, Bowler C, Douville E, Flores JM, Forcioli D, Furla P, Galand PE, Ghiglione JF, Gilson E, Lombard F, Moulin C, Pesant S, Poulain J, Reynaud S, Romac S, Sullivan MB, Sunagawa S, Thomas OP, Troublé R, de Vargas C, Vega Thurber R, Voolstra CR, Wincker P, Zoccola D
PLoS Biol. 2019 Sep. 17(9):e3000483.

Molecular characterisation of a cellular conveyor belt in Clytia medusae.
Condamine T, Jager M, Leclère L, Blugeon C, Lemoine S, Copley RR, Manuel M
Dev Biol. 2019 Dec 15. 456(2):212-225.

Alpha rhythm collapse predicts iso-electric suppressions during anesthesia.
Cartailler J, Parutto P, Touchard C, Vallée F, Holcman D
Commun Biol. 2019. 2:327.

Understanding the effect of competition during evolutionary radiations : an integrated model of phenotypic and species diversification.
Aristide L, Morlon H
Ecol Lett. 2019 Dec. 22(12):2006-2017.

Dynamics of centriole amplification in centrosome-depleted brain multiciliated progenitors.
Mercey O, Al Jord A, Rostaing P, Mahuzier A, Fortoul A, Boudjema AR, Faucourt M, Spassky N, Meunier A
Sci Rep. 2019 Sep 10. 9(1):13060.

Independent Component Analysis for Unraveling the Complexity of Cancer Omics Datasets.
Sompairac N, Nazarov PV, Czerwinska U, Cantini L, Biton A, Molkenov A, Zhumadilov Z, Barillot E, Radvanyi F, Gorban A, Kairov U, Zinovyev A
Int J Mol Sci. 2019 Sep 7. 20(18).

Competition for resources may reinforce the evolution of altruism in spatially structured populations.
Baalen MV, Yamauchi A
Math Biosci Eng. 2019 Apr 26. 16(5):3694-3717.

Assessing the causes of diversification slowdowns : temperature-dependent and diversity-dependent models receive equivalent support.
Condamine FL, Rolland J, Morlon H
Ecol Lett. 2019 Nov. 22(11):1900-1912.

Network Reconstruction and Significant Pathway Extraction Using Phosphoproteomic Data from Cancer Cells.
Buffard M, Naldi A, Radulescu O, Coopman PJ, Larive RM, Freiss G
Proteomics. 2019 Nov. 19(21-22):e1800450.

How differing modes of non-genetic inheritance affect population viability in fluctuating environments.
Proulx SR, Dey S, Guzella T, Teotónio H
Ecol Lett. 2019 Nov. 22(11):1767-1775.

Noda-Like RNA Viruses Infecting Caenorhabditis Nematodes : Sympatry, Diversity, and Reassortment.
Frézal L, Jung H, Tahan S, Wang D, Félix MA
J Virol. 2019 Nov 1. 93(21).

Natural Viruses of Caenorhabditis Nematodes.
Félix MA, Wang D
Annu Rev Genet. 2019 Dec 3. 53:313-326.

Unravelling the genes forming the wing pattern supergene in the polymorphic butterfly Heliconius numata.
Saenko SV, Chouteau M, Piron‑Prunier F, Blugeon C, Joron M, Llaurens V
Evodevo. 2019. 10:16.

MicroRNA gene regulation in extremely young and parallel adaptive radiations of crater lake cichlid fish.
Franchini P, Xiong P, Fruciano C, Schneider RF, Woltering JM, Hulsey CD, Meyer A
Mol Biol Evol. 2019 Aug 9.

Linker histones are fine-scale chromatin architects modulating developmental decisions in Arabidopsis.
Rutowicz K, Lirski M, Mermaz B, Teano G, Schubert J, Mestiri I, Kroteń MA, Fabrice TN, Fritz S, Grob S, Ringli C, Cherkezyan L, Barneche F, Jerzmanowski A, Baroux C
Genome Biol. 2019 Aug 7. 20(1):157.

Optical control of protein activity and gene expression by photoactivation of caged cyclofen.
Hamouri F, Zhang W, Aujard I, Le Saux T, Ducos B, Vriz S, Jullien L, Bensimon D
Methods Enzymol. 2019. 624:1-23.

Transposition favors the generation of large effect mutations that may facilitate rapid adaption.
Quadrana L, Etcheverry M, Gilly A, Caillieux E, Madoui MA, Guy J, Bortolini Silveira A, Engelen S, Baillet V, Wincker P, Aury JM, Colot V
Nat Commun. 2019 Jul 31. 10(1):3421.

Metabolic Innovations Underpinning the Origin and Diversification of the Diatom Chloroplast.
Nonoyama T, Kazamia E, Nawaly H, Gao X, Tsuji Y, Matsuda Y, Bowler C, Tanaka T, Dorrell RG
Biomolecules. 2019 Jul 30. 9(8).

Biphasic Impact of Prenatal Inflammation and Macrophage Depletion on the Wiring of Neocortical Inhibitory Circuits.
Thion MS, Mosser CA, Férézou I, Grisel P, Baptista S, Low D, Ginhoux F, Garel S, Audinat E
Cell Rep. 2019 Jul 30. 28(5):1119-1126.e4.

The relative importance of ecological drivers of arbuscular mycorrhizal fungal distribution varies with taxon phylogenetic resolution.
Roy J, Mazel F, Sosa‑Hernández MA, Dueñas JF, Hempel S, Zinger L, Rillig MC
New Phytol. 2019 Oct. 224(2):936-948.

GemC1 is a critical switch for neural stem cell generation in the postnatal brain.
Lalioti ME, Kaplani K, Lokka G, Georgomanolis T, Kyrousi C, Dong W, Dunbar A, Parlapani E, Damianidou E, Spassky N, Kahle KT, Papantonis A, Lygerou Z, Taraviras S
Glia. 2019 Dec. 67(12):2360-2373.

m5C Methylation Guides Systemic Transport of Messenger RNA over Graft Junctions in Plants.
Yang L, Perrera V, Saplaoura E, Apelt F, Bahin M, Kramdi A, Olas J, Mueller‑Roeber B, Sokolowska E, Zhang W, Li R, Pitzalis N, Heinlein M, Zhang S, Genovesio A, Colot V, Kragler F
Curr Biol. 2019 Aug 5. 29(15):2465-2476.e5.

Characterizing symbiont inheritance during host-microbiota evolution : Application to the great apes gut microbiota.
Perez‑Lamarque B, Morlon H
Mol Ecol Resour. 2019 Nov. 19(6):1659-1671.

Phaeodactylum tricornutum.
Bowler C, Falciatore A
Trends Genet. 2019 Sep. 35(9):706-707.

Subsynaptic Domains in Super-Resolution Microscopy : The Treachery of Images.
Yang X, Specht CG
Front Mol Neurosci. 2019. 12:161.

Neural signatures of sleep in zebrafish.
Leung LC, Wang GX, Madelaine R, Skariah G, Kawakami K, Deisseroth K, Urban AE, Mourrain P
Nature. 2019 Jul. 571(7764):198-204.

Optical control of neuronal ion channels and receptors.
Paoletti P, Ellis‑Davies GCR, Mourot A
Nat Rev Neurosci. 2019 Sep. 20(9):514-532.

Loss of a Fragile Chromosome Region leads to the Screwy Phenotype in Paramecium tetraurelia.
Nekrasova I, Nikitashina V, Bhullar S, Arnaiz O, Singh DP, Meyer E, Potekhin A
Genes (Basel). 2019 Jul 6. 10(7).

Partial Selfing Can Reduce Genetic Loads While Maintaining Diversity During Experimental Evolution.
Chelo IM, Afonso B, Carvalho S, Theologidis I, Goy C, Pino‑Querido A, Proulx SR, Teotónio H
G3 (Bethesda). 2019 Sep 4. 9(9):2811-2821.

Meta-omics reveals genetic flexibility of diatom nitrogen transporters in response to environmental changes.
Busseni G, Vieira FRJ, Amato A, Pelletier E, Pierella Karlusich JJ, Ferrante MI, Wincker P, Rogato A, Bowler C, Sanges R, Maiorano L, Chiurazzi M, d’Alcalà MR, Caputi L, Iudicone D
Mol Biol Evol. 2019 Jul 1.

Molecular Inverse Comorbidity between Alzheimer’s Disease and Lung Cancer : New Insights from Matrix Factorization.
Greco A, Sanchez Valle J, Pancaldi V, Baudot A, Barillot E, Caselle M, Valencia A, Zinovyev A, Cantini L
Int J Mol Sci. 2019 Jun 26. 20(13).

Where and what ? Frugivory is associated with more efficient foraging in three semi-free ranging primate species.
Trapanese C, Robira B, Tonachella G, di Gristina S, Meunier H, Masi S
R Soc Open Sci. 2019 May. 6(5):181722.

Sleep : DNA Repair Function for Better Neuronal Aging ?
Mourrain P, Wang GX
Curr Biol. 2019 Jun 17. 29(12):R585-R588.

Poultry population dynamics and mortality risks in smallholder farms of the Mekong river delta region.
Delabouglise A, Nguyen‑Van‑Yen B, Thanh NTL, Xuyen HTA, Tuyet PN, Lam HM, Boni MF
BMC Vet Res. 2019 Jun 17. 15(1):205.

EEG power spectral density under Propofol and its association with burst suppression, a marker of cerebral fragility.
Touchard C, Cartailler J, Levé C, Parutto P, Buxin C, Garnot L, Matéo J, Kubis N, Mebazaa A, Gayat E, Vallée F
Clin Neurophysiol. 2019 Aug. 130(8):1311-1319.

Spatiotemporal structure of cell fate decisions in murine neural crest.
Soldatov R, Kaucka M, Kastriti ME, Petersen J, Chontorotzea T, Englmaier L, Akkuratova N, Yang Y, Häring M, Dyachuk V, Bock C, Farlik M, Piacentino ML, Boismoreau F, Hilscher MM, Yokota C, Qian X, Nilsson M, Bronner ME, Croci L, Hsiao WY, Guertin DA, Brunet JF, Consalez GG, Ernfors P, Fried K, Kharchenko PV, Adameyko I
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Fast calcium transients in dendritic spines driven by extreme statistics.
Basnayake K, Mazaud D, Bemelmans A, Rouach N, Korkotian E, Holcman D
PLoS Biol. 2019 Jun. 17(6):e2006202.

A model with many small shifts for estimating species-specific diversification rates.
Maliet O, Hartig F, Morlon H
Nat Ecol Evol. 2019 Jul. 3(7):1086-1092.

Accounting for ocean connectivity and hydroclimate in fish recruitment fluctuations within transboundary metapopulations.
Hidalgo M, Rossi V, Monroy P, Ser‑Giacomi E, Hernández‑García E, Guijarro B, Massutí E, Alemany F, Jadaud A, Perez JL, Reglero P
Ecol Appl. 2019 Jul. 29(5):e01913.

Divergent Allometric Trajectories in Gene Expression and Coexpression Produce Species Differences in Sympatrically Speciating Midas Cichlid Fish.
Fruciano C, Meyer A, Franchini P
Genome Biol Evol. 2019 Jun 1. 11(6):1644-1657.

Author Correction : The new nanophysiology : regulation of ionic flow in neuronal subcompartments.
Holcman D, Yuste R
Nat Rev Neurosci. 2019 Aug. 20(8):509.

Publisher Correction : The new nanophysiology : regulation of ionic flow in neuronal subcompartments.
Holcman D, Yuste R
Nat Rev Neurosci. 2019 Aug. 20(8):510.

Arabidopsis S2Lb links AtCOMPASS-like and SDG2 activity in H3K4me3 independently from histone H2B monoubiquitination.
Fiorucci AS, Bourbousse C, Concia L, Rougée M, Deton‑Cabanillas AF, Zabulon G, Layat E, Latrasse D, Kim SK, Chaumont N, Lombard B, Stroebel D, Lemoine S, Mohammad A, Blugeon C, Loew D, Bailly C, Bowler C, Benhamed M, Barneche F
Genome Biol. 2019 May 21. 20(1):100.

Transient Confinement of CaV2.1 Ca2+-Channel Splice Variants Shapes Synaptic Short-Term Plasticity.
Heck J, Parutto P, Ciuraszkiewicz A, Bikbaev A, Freund R, Mitlöhner J, Andres‑Alonso M, Fejtova A, Holcman D, Heine M
Neuron. 2019 Jul 3. 103(1):66-79.e12.

Mitigating Anticipated Effects of Systematic Errors Supports Sister-Group Relationship between Xenacoelomorpha and Ambulacraria.
Philippe H, Poustka AJ, Chiodin M, Hoff KJ, Dessimoz C, Tomiczek B, Schiffer PH, Müller S, Domman D, Horn M, Kuhl H, Timmermann B, Satoh N, Hikosaka‑Katayama T, Nakano H, Rowe ML, Elphick MR, Thomas‑Chollier M, Hankeln T, Mertes F, Wallberg A, Rast JP, Copley RR, Martinez P, Telford MJ
Curr Biol. 2019 Jun 3. 29(11):1818-1826.e6.

Proteomic Bioprofiles and Mechanistic Pathways of Progression to Heart Failure.
Ferreira JP, Verdonschot J, Collier T, Wang P, Pizard A, Bär C, Björkman J, Boccanelli A, Butler J, Clark A, Cleland JG, Delles C, Diez J, Girerd N, González A, Hazebroek M, Huby AC, Jukema W, Latini R, Leenders J, Levy D, Mebazaa A, Mischak H, Pinet F, Rossignol P, Sattar N, Sever P, Staessen JA, Thum T, Vodovar N, Zhang ZY, Heymans S, Zannad F
Circ Heart Fail. 2019 May. 12(5):e005897.

Detecting dynamic spatial correlation patterns with generalized wavelet coherence and non-stationary surrogate data.
Chavez M, Cazelles B
Sci Rep. 2019 May 14. 9(1):7389.

Tridimensional mapping of Phox2b expressing neurons in the brainstem of adult Macaca fascicularis and identification of the retrotrapezoid nucleus.
Levy J, Facchinetti P, Jan C, Achour M, Bouvier C, Brunet JF, Delzescaux T, Giuliano F
J Comp Neurol. 2019 Dec 1. 527(17):2875-2884.

Functional Integration of Newborn Neurons in the Zebrafish Optic Tectum.
Boulanger‑Weill J, Sumbre G
Front Cell Dev Biol. 2019. 7:57.

Barhl2 maintains T cell factors as repressors and thereby switches off the Wnt/β-Catenin response driving Spemann organizer formation.
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Development. 2019 May 22. 146(10).

DNA metabarcoding-Need for robust experimental designs to draw sound ecological conclusions.
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Mol Ecol. 2019 Apr. 28(8):1857-1862.

One-locus-several-primers : A strategy to improve the taxonomic and haplotypic coverage in diet metabarcoding studies.
Corse E, Tougard C, Archambaud‑Suard G, Agnèse JF, Messu Mandeng FD, Bilong Bilong CF, Duneau D, Zinger L, Chappaz R, Xu CCY, Meglécz E, Dubut V
Ecol Evol. 2019 Apr. 9(8):4603-4620.

Marine DNA Viral Macro- and Microdiversity from Pole to Pole.
Gregory AC, Zayed AA, Conceição‑Neto N, Temperton B, Bolduc B, Alberti A, Ardyna M, Arkhipova K, Carmichael M, Cruaud C, Dimier C, Domínguez‑Huerta G, Ferland J, Kandels S, Liu Y, Marec C, Pesant S, Picheral M, Pisarev S, Poulain J, Tremblay JÉ, Vik D, Babin M, Bowler C, Culley AI, de Vargas C, Dutilh BE, Iudicone D, Karp‑Boss L, Roux S, Sunagawa S, Wincker P, Sullivan MB
Cell. 2019 May 16. 177(5):1109-1123.e14.

Neuronal Dynamics Regulating Brain and Behavioral State Transitions.
Andalman AS, Burns VM, Lovett‑Barron M, Broxton M, Poole B, Yang SJ, Grosenick L, Lerner TN, Chen R, Benster T, Mourrain P, Levoy M, Rajan K, Deisseroth K
Cell. 2019 May 2. 177(4):970-985.e20.

Prologue to the special issue of JTB dedicated to the memory of René Thomas (1928-2017) : A journey through biological circuits, logical puzzles and complex dynamics.
Thieffry D, Kaufman M
J Theor Biol. 2019 Aug 7. 474:42-47.

Blood vessels guide Schwann cell migration in the adult demyelinated CNS through Eph/ephrin signaling.
Garcia‑Diaz B, Bachelin C, Coulpier F, Gerschenfeld G, Deboux C, Zujovic V, Charnay P, Topilko P, Baron‑Van Evercooren A
Acta Neuropathol. 2019 Sep. 138(3):457-476.

Comparative genomics of 10 new Caenorhabditis species.
Stevens L, Félix MA, Beltran T, Braendle C, Caurcel C, Fausett S, Fitch D, Frézal L, Gosse C, Kaur T, Kiontke K, Newton MD, Noble LM, Richaud A, Rockman MV, Sudhaus W, Blaxter M
Evol Lett. 2019 Apr. 3(2):217-236.

Opposite T3 Response of ACTG1-FOS Subnetwork Differentiate Tailfin Fate in Xenopus Tadpole and Post-hatching Axolotl.
Kerdivel G, Blugeon C, Fund C, Rigolet M, Sachs LM, Buisine N
Front Endocrinol (Lausanne). 2019. 10:194.

Mechanistic characterization of the DEAD-box RNA helicase Ded1 from yeast as revealed by a novel technique using single-molecule magnetic tweezers.
Raj S, Bagchi D, Orero JV, Banroques J, Tanner NK, Croquette V
Nucleic Acids Res. 2019 Apr 23. 47(7):3699-3710.

Cooperation between T cell receptor and Toll-like receptor 5 signaling for CD4+ T cell activation.
Rodríguez‑Jorge O, Kempis‑Calanis LA, Abou‑Jaoudé W, Gutiérrez‑Reyna DY, Hernandez C, Ramirez‑Pliego O, Thomas‑Chollier M, Spicuglia S, Santana MA, Thieffry D
Sci Signal. 2019 Apr 16. 12(577).

Cranial and endocranial diversity in extant and fossil atelids (Platyrrhini : Atelidae) : A geometric morphometric study.
Aristide L, Strauss A, Halenar‑Price LB, Gilissen E, Cruz FW, Cartelle C, Rosenberger AL, Lopes RT, Dos Reis SF, Perez SI
Am J Phys Anthropol. 2019 Jun. 169(2):322-331.

Dissection of Local Ca2+ Signals in Cultured Cells by Membrane-targeted Ca2+ Indicators.
Bannai H, Hirose M, Niwa F, Mikoshiba K
J Vis Exp. 2019 Mar 22. (145).

Asymmetric ephaptic inhibition between compartmentalized olfactory receptor neurons.
Zhang Y, Tsang TK, Bushong EA, Chu LA, Chiang AS, Ellisman MH, Reingruber J, Su CY
Nat Commun. 2019 Apr 5. 10(1):1560.

Single-molecule characterization of extrinsic transcription termination by Sen1 helicase.
Wang S, Han Z, Libri D, Porrua O, Strick TR
Nat Commun. 2019 Apr 4. 10(1):1545.

Zinc Uptake and Storage During the Formation of the Cerebral Cortex in Mice.
Hasna J, Bohic S, Lemoine S, Blugeon C, Bouron A
Mol Neurobiol. 2019 Oct. 56(10):6928-6940.

Assessing reproducibility of matrix factorization methods in independent transcriptomes.
Cantini L, Kairov U, de Reyniès A, Barillot E, Radvanyi F, Zinovyev A
Bioinformatics. 2019 Nov 1. 35(21):4307-4313.

PICH and TOP3A cooperate to induce positive DNA supercoiling.
Bizard AH, Allemand JF, Hassenkam T, Paramasivam M, Sarlós K, Singh MI, Hickson ID
Nat Struct Mol Biol. 2019 Apr. 26(4):267-274.

Mapping and characterization of G-quadruplexes in the genome of the social amoeba Dictyostelium discoideum.
Saad M, Guédin A, Amor S, Bedrat A, Tourasse NJ, Fayyad‑Kazan H, Pratviel G, Lacroix L, Mergny JL
Nucleic Acids Res. 2019 May 21. 47(9):4363-4374.

ALFA : annotation landscape for aligned reads.
Bahin M, Noël BF, Murigneux V, Bernard C, Bastianelli L, Le Hir H, Lebreton A, Genovesio A
BMC Genomics. 2019 Mar 29. 20(1):250.

Motile ciliogenesis and the mitotic prism.
Al Jord A, Spassky N, Meunier A
Biol Cell. 2019 Aug. 111(8):199-212.

Aedes mosquitoes acquire and transmit Zika virus by breeding in contaminated aquatic environments.
Du S, Liu Y, Liu J, Zhao J, Champagne C, Tong L, Zhang R, Zhang F, Qin CF, Ma P, Chen CH, Liang G, Liu Q, Shi PY, Cazelles B, Wang P, Tian H, Cheng G
Nat Commun. 2019 Mar 22. 10(1):1324.

Local adaptation, dispersal evolution, and the spatial eco-evolutionary dynamics of invasion.
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Ecol Lett. 2019 May. 22(5):767-777.

Males as somatic investment in a parthenogenetic nematode.
Grosmaire M, Launay C, Siegwald M, Brugière T, Estrada‑Virrueta L, Berger D, Burny C, Modolo L, Blaxter M, Meister P, Félix MA, Gouyon PH, Delattre M
Science. 2019 Mar 15. 363(6432):1210-1213.

Principles of plastid reductive evolution illuminated by nonphotosynthetic chrysophytes.
Dorrell RG, Azuma T, Nomura M, Audren de Kerdrel G, Paoli L, Yang S, Bowler C, Ishii KI, Miyashita H, Gile GH, Kamikawa R
Proc Natl Acad Sci U S A. 2019 Apr 2. 116(14):6914-6923.

Ribosome Provisioning Activates a Bistable Switch Coupled to Fast Exit from Stationary Phase.
Remigi P, Ferguson GC, McConnell E, De Monte S, Rogers DW, Rainey PB
Mol Biol Evol. 2019 May 1. 36(5):1056-1070.

Adult Neural Stem Cells and Multiciliated Ependymal Cells Share a Common Lineage Regulated by the Geminin Family Members.
Ortiz‑Álvarez G, Daclin M, Shihavuddin A, Lansade P, Fortoul A, Faucourt M, Clavreul S, Lalioti ME, Taraviras S, Hippenmeyer S, Livet J, Meunier A, Genovesio A, Spassky N
Neuron. 2019 Apr 3. 102(1):159-172.e7.

The golden death bacillus Chryseobacterium nematophagum is a novel matrix digesting pathogen of nematodes.
Page AP, Roberts M, Félix MA, Pickard D, Page A, Weir W
BMC Biol. 2019 Feb 28. 17(1):10.

Teleconnection between phytoplankton dynamics in north temperate lakes and global climatic oscillation by time-frequency analysis.
Xiao X, He J, Yu Y, Cazelles B, Li M, Jiang Q, Xu C
Water Res. 2019 May 1. 154:267-276.

Corrigendum : A Potential Role for Epigenetic Processes in the Acclimation Response to Elevated pCO2 in the Model Diatom Phaeodactylum tricornutum.
Huang R, Ding J, Gao K, Cruz de Carvalho MH, Tirichine L, Bowler C, Lin X
Front Microbiol. 2019. 10:158.

Lipid markers and related transcripts during excitotoxic neurodegeneration in kainate-treated mice.
Chali F, Milior G, Marty S, Morin‑Brureau M, Le Duigou C, Savary E, Blugeon C, Jourdren L, Miles R
Eur J Neurosci. 2019 Jul. 50(1):1759-1778.

A Dynamic Signaling Path to Chromatin-Level Control of Plant Drought Response.
Bourbousse C, Barneche F
Mol Plant. 2019 Mar 4. 12(3):292-294.

Comparison of stochastic and deterministic frameworks in dengue modelling.
Champagne C, Cazelles B
Math Biosci. 2019 Apr. 310:1-12.

Functional Alteration of Cerebello-Cerebral Coupling in an Experimental Mouse Model of Parkinson’s Disease.
Menardy F, Varani AP, Combes A, Léna C, Popa D
Cereb Cortex. 2019 Apr 1. 29(4):1752-1766.

Necessity and Contingency in Developmental Genetic Screens : EGF, Wnt, and Semaphorin Pathways in Vulval Induction of the Nematode Oscheius tipulae.
Vargas‑Velazquez AM, Besnard F, Félix MA
Genetics. 2019 Apr. 211(4):1315-1330.

Exon junction complex components Y14 and Mago still play a role in budding yeast.
Boisramé A, Devillers H, Onésime D, Brunel F, Pouch J, Piot M, Neuvéglise C
Sci Rep. 2019 Jan 29. 9(1):849.

Atoh1 Controls Primary Cilia Formation to Allow for SHH-Triggered Granule Neuron Progenitor Proliferation.
Chang CH, Zanini M, Shirvani H, Cheng JS, Yu H, Feng CH, Mercier AL, Hung SY, Forget A, Wang CH, Cigna SM, Lu IL, Chen WY, Leboucher S, Wang WJ, Ruat M, Spassky N, Tsai JW, Ayrault O
Dev Cell. 2019 Jan 28. 48(2):184-199.e5.

Evolution of the Drosophila melanogaster Chromatin Landscape and Its Associated Proteins.
Parey E, Crombach A
Genome Biol Evol. 2019 Mar 1. 11(3):660-677.

Hope4Genes : a Hopfield-like class prediction algorithm for transcriptomic data.
Cantini L, Caselle M
Sci Rep. 2019 Jan 23. 9(1):337.

Proteo-Transcriptomic Dynamics of Cellular Response to HIV-1 Infection.
Golumbeanu M, Desfarges S, Hernandez C, Quadroni M, Rato S, Mohammadi P, Telenti A, Beerenwinkel N, Ciuffi A
Sci Rep. 2019 Jan 18. 9(1):213.

On logical bifurcation diagrams.
Abou‑Jaoudé W, Monteiro PT
J Theor Biol. 2019 Apr 7. 466:39-63.

Identification of microRNA clusters cooperatively acting on epithelial to mesenchymal transition in triple negative breast cancer.
Cantini L, Bertoli G, Cava C, Dubois T, Zinovyev A, Caselle M, Castiglioni I, Barillot E, Martignetti L
Nucleic Acids Res. 2019 Mar 18. 47(5):2205-2215.

Genome sequencing of strains of the most prevalent clonal group of O1:K1:H7 Escherichia coli that causes neonatal meningitis in France.
Geslain G, Birgy A, Adiba S, Magnan M, Courroux C, Levy C, Cohen R, Bidet P, Bonacorsi S
BMC Microbiol. 2019 Jan 17. 19(1):17.

Guidelines for DNA recombination and repair studies : Mechanistic assays of DNA repair processes.
Klein HL, Ang KKH, Arkin MR, Beckwitt EC, Chang YH, Fan J, Kwon Y, Morten MJ, Mukherjee S, Pambos OJ, El Sayyed H, Thrall ES, Vieira‑da‑Rocha JP, Wang Q, Wang S, Yeh HY, Biteen JS, Chi P, Heyer WD, Kapanidis AN, Loparo JJ, Strick TR, Sung P, Van Houten B, Niu H, Rothenberg E
Microb Cell. 2019 Jan 7. 6(1):65-101.

Clustering of Tau fibrils impairs the synaptic composition of α3-Na+/K+-ATPase and AMPA receptors.
Shrivastava AN, Redeker V, Pieri L, Bousset L, Renner M, Madiona K, Mailhes‑Hamon C, Coens A, Buée L, Hantraye P, Triller A, Melki R
EMBO J. 2019 Feb 1. 38(3).

Identification and characterisation of hypomethylated DNA loci controlling quantitative resistance in Arabidopsis.
Furci L, Jain R, Stassen J, Berkowitz O, Whelan J, Roquis D, Baillet V, Colot V, Johannes F, Ton J
Elife. 2019 Jan 4. 8.

Transcription-dependent regulation of replication dynamics modulates genome stability.
Blin M, Le Tallec B, Nähse V, Schmidt M, Brossas C, Millot GA, Prioleau MN, Debatisse M
Nat Struct Mol Biol. 2019 Jan. 26(1):58-66.

Ca2+-activated Cl- current ensures robust and reliable signal amplification in vertebrate olfactory receptor neurons.
Reisert J, Reingruber J
Proc Natl Acad Sci U S A. 2019 Jan 15. 116(3):1053-1058.

The Latitudinal Diversity Gradient : Novel Understanding through Mechanistic Eco-evolutionary Models.
Pontarp M, Bunnefeld L, Cabral JS, Etienne RS, Fritz SA, Gillespie R, Graham CH, Hagen O, Hartig F, Huang S, Jansson R, Maliet O, Münkemüller T, Pellissier L, Rangel TF, Storch D, Wiegand T, Hurlbert AH
Trends Ecol Evol. 2019 Mar. 34(3):211-223.

The Species Problem from the Modeler’s Point of View.
Manceau M, Lambert A
Bull Math Biol. 2019 Mar. 81(3):878-898.

Adaptation of Proteins to the Cold in Antarctic Fish : A Role for Methionine ?
Berthelot C, Clarke J, Desvignes T, William Detrich H ?III, Flicek P, Peck LS, Peters M, Postlethwait JH, Clark MS
Genome Biol Evol. 2019 Jan 1. 11(1):220-231.

G4HunterApps.
Lacroix L
Bioinformatics. 2019 Jul 1. 35(13):2311-2312.

An inter-dimer allosteric switch controls NMDA receptor activity.
Esmenjaud JB, Stroebel D, Chan K, Grand T, David M, Wollmuth LP, Taly A, Paoletti P
EMBO J. 2019 Jan 15. 38(2).

Quantitative resistance to clubroot infection mediated by transgenerational epigenetic variation in Arabidopsis.
Liégard B, Baillet V, Etcheverry M, Joseph E, Lariagon C, Lemoine J, Evrard A, Colot V, Gravot A, Manzanares‑Dauleux MJ, Jubault M
New Phytol. 2019 Apr. 222(1):468-479.

MethMotif : an integrative cell specific database of transcription factor binding motifs coupled with DNA methylation profiles.
Xuan Lin QX, Sian S, An O, Thieffry D, Jha S, Benoukraf T
Nucleic Acids Res. 2019 Jan 8. 47(D1):D145-D154.

Cellular Origin, Tumor Progression, and Pathogenic Mechanisms of Cutaneous Neurofibromas Revealed by Mice with Nf1 Knockout in Boundary Cap Cells.
Radomska KJ, Coulpier F, Gresset A, Schmitt A, Debbiche A, Lemoine S, Wolkenstein P, Vallat JM, Charnay P, Topilko P
Cancer Discov. 2019 Jan. 9(1):130-147.

Comparative characterization of putative chitin deacetylases from Phaeodactylum tricornutum and Thalassiosira pseudonana highlights the potential for distinct chitin-based metabolic processes in diatoms.
Shao Z, Thomas Y, Hembach L, Xing X, Duan D, Moerschbacher BM, Bulone V, Tirichine L, Bowler C
New Phytol. 2019 Mar. 221(4):1890-1905.

Cross-exchange of B-vitamins underpins a mutualistic interaction between Ostreococcus tauri and Dinoroseobacter shibae.
Cooper MB, Kazamia E, Helliwell KE, Kudahl UJ, Sayer A, Wheeler GL, Smith AG
ISME J. 2019 Feb. 13(2):334-345.

Downregulation of mitochondrial alternative oxidase affects chloroplast function, redox status and stress response in a marine diatom.
Murik O, Tirichine L, Prihoda J, Thomas Y, Araújo WL, Allen AE, Fernie AR, Bowler C
New Phytol. 2019 Feb. 221(3):1303-1316.

Dengue modeling in rural Cambodia : Statistical performance versus epidemiological relevance.
Champagne C, Paul R, Ly S, Duong V, Leang R, Cazelles B
Epidemics. 2019 Mar. 26:43-57.

A Penalized Likelihood Framework for High-Dimensional Phylogenetic Comparative Methods and an Application to New-World Monkeys Brain Evolution.
Clavel J, Aristide L, Morlon H
Syst Biol. 2019 Jan 1. 68(1):93-116.

Non-cell Autonomous OTX2 Homeoprotein Regulates Visual Cortex Plasticity Through Gadd45b/g.
Apulei J, Kim N, Testa D, Ribot J, Morizet D, Bernard C, Jourdren L, Blugeon C, Di Nardo AA, Prochiantz A
Cereb Cortex. 2019 Jun 1. 29(6):2384-2395.



2018


2018

A Potential Role for Epigenetic Processes in the Acclimation Response to Elevated pCO2 in the Model Diatom Phaeodactylum tricornutum.
Huang R, Ding J, Gao K, Cruz de Carvalho MH, Tirichine L, Bowler C, Lin X
Front Microbiol. 2018. 9:3342.

Photolysis of a Caged, Fast-Equilibrating Glutamate Receptor Antagonist, MNI-Caged γ-D-Glutamyl-Glycine, to Investigate Transmitter Dynamics and Receptor Properties at Glutamatergic Synapses.
Palma‑Cerda F, Papageorgiou G, Barbour B, Auger C, Ogden D
Front Cell Neurosci. 2018. 12:465.

Cell biology and dynamics of Neuronal Na+/K+-ATPase in health and diseases.
Shrivastava AN, Triller A, Melki R
Neuropharmacology. 2018 Dec 11.

Heterogeneous Signaling at GABA and Glycine Co-releasing Terminals.
Aubrey KR, Supplisson S
Front Synaptic Neurosci. 2018. 10:40.

Transmission dynamics of re-emerging rabies in domestic dogs of rural China.
Tian H, Feng Y, Vrancken B, Cazelles B, Tan H, Gill MS, Yang Q, Li Y, Yang W, Zhang Y, Zhang Y, Lemey P, Pybus OG, Stenseth NC, Zhang H, Dellicour S
PLoS Pathog. 2018 Dec. 14(12):e1007392.

Comparative Transcriptomics Highlights New Features of the Iron Starvation Response in the Human Pathogen Candida glabrata.
Benchouaia M, Ripoche H, Sissoko M, Thiébaut A, Merhej J, Delaveau T, Fasseu L, Benaissa S, Lorieux G, Jourdren L, Le Crom S, Lelandais G, Corel E, Devaux F
Front Microbiol. 2018. 9:2689.

Macroscale fluorescence imaging against autofluorescence under ambient light.
Zhang R, Chouket R, Plamont MA, Kelemen Z, Espagne A, Tebo AG, Gautier A, Gissot L, Faure JD, Jullien L, Croquette V, Le Saux T
Light Sci Appl. 2018. 7:97.

BioLQM : A Java Toolkit for the Manipulation and Conversion of Logical Qualitative Models of Biological Networks.
Naldi A
Front Physiol. 2018. 9:1605.

Genome-wide identification of RETINOBLASTOMA RELATED 1 binding sites in Arabidopsis reveals novel DNA damage regulators.
Bouyer D, Heese M, Chen P, Harashima H, Roudier F, Grüttner C, Schnittger A
PLoS Genet. 2018 Nov. 14(11):e1007797.

Reconstruction of directed neuronal networks in a microfluidic device with asymmetric microchannels.
Courte J, Renault R, Jan A, Viovy JL, Peyrin JM, Villard C
Methods Cell Biol. 2018. 148:71-95.

Amphioxus functional genomics and the origins of vertebrate gene regulation.
Marlétaz F, Firbas PN, Maeso I, Tena JJ, Bogdanovic O, Perry M, Wyatt CDR, de la Calle‑Mustienes E, Bertrand S, Burguera D, Acemel RD, van Heeringen SJ, Naranjo S, Herrera‑Ubeda C, Skvortsova K, Jimenez‑Gancedo S, Aldea D, Marquez Y, Buono L, Kozmikova I, Permanyer J, Louis A, Albuixech‑Crespo B, Le Petillon Y, Leon A, Subirana L, Balwierz PJ, Duckett PE, Farahani E, Aury JM, Mangenot S, Wincker P, Albalat R, Benito‑Gutiérrez È, Cañestro C, Castro F, D’Aniello S, Ferrier DEK, Huang S, Laudet V, Marais GAB, Pontarotti P, Schubert M, Seitz H, Somorjai I, Takahashi T, Mirabeau O, Xu A, Yu JK, Carninci P, Martinez‑Morales JR, Crollius HR, Kozmik Z, Weirauch MT, Garcia‑Fernàndez J, Lister R, Lenhard B, Holland PWH, Escriva H, Gómez‑Skarmeta JL, Irimia M
Nature. 2018 Dec. 564(7734):64-70.

Microglial phenotypes in the human epileptic temporal lobe.
Morin‑Brureau M, Milior G, Royer J, Chali F, LeDuigou C, Savary E, Blugeon C, Jourdren L, Akbar D, Dupont S, Navarro V, Baulac M, Bielle F, Mathon B, Clemenceau S, Miles R
Brain. 2018 Dec 1. 141(12):3343-3360.

Oscillatory Cortical Activity in an Animal Model of Dystonia Caused by Cerebellar Dysfunction.
Georgescu EL, Georgescu IA, Zahiu CDM, Şteopoaie AR, Morozan VP, Pană AŞ, Zăgrean AM, Popa D
Front Cell Neurosci. 2018. 12:390.

Whole-Brain Neuronal Activity Displays Crackling Noise Dynamics.
Ponce‑Alvarez A, Jouary A, Privat M, Deco G, Sumbre G
Neuron. 2018 Dec 19. 100(6):1446-1459.e6.

Author Correction : Higher ambient synaptic glutamate at inhibitory versus excitatory neurons differentially impacts NMDA receptor activity.
Yao L, Grand T, Hanson JE, Paoletti P, Zhou Q
Nat Commun. 2018 Nov 15. 9(1):4887.

Adaptation of a Fungal Pathogen to Host Quantitative Resistance.
Frézal L, Jacqua G, Neema C
Front Plant Sci. 2018. 9:1554.

Synthetic STARR-seq reveals how DNA shape and sequence modulate transcriptional output and noise.
Schöne S, Bothe M, Einfeldt E, Borschiwer M, Benner P, Vingron M, Thomas‑Chollier M, Meijsing SH
PLoS Genet. 2018 Nov. 14(11):e1007793.

Author Correction : Clade-specific diversification dynamics of marine diatoms since the Jurassic.
Lewitus E, Bittner L, Malviya S, Bowler C, Morlon H
Nat Ecol Evol. 2018 Dec. 2(12):1993.

Unmasking GluN1/GluN3A excitatory glycine NMDA receptors.
Grand T, Abi Gerges S, David M, Diana MA, Paoletti P
Nat Commun. 2018 Nov 13. 9(1):4769.

Cerebellar learning using perturbations.
Bouvier G, Aljadeff J, Clopath C, Bimbard C, Ranft J, Blot A, Nadal JP, Brunel N, Hakim V, Barbour B
Elife. 2018 Nov 12. 7.

Active intermixing of indirect and direct neurons builds the striatal mosaic.
Tinterri A, Menardy F, Diana MA, Lokmane L, Keita M, Coulpier F, Lemoine S, Mailhes C, Mathieu B, Merchan‑Sala P, Campbell K, Gyory I, Grosschedl R, Popa D, Garel S
Nat Commun. 2018 Nov 9. 9(1):4725.

DNA methylation and gene expression alterations in zebrafish early-life stages exposed to the antibacterial agent triclosan.
Falisse E, Ducos B, Stockwell PA, Morison IM, Chatterjee A, Silvestre F
Environ Pollut. 2018 Dec. 243(Pt B):1867-1877.

Fast confocal fluorescence imaging in freely behaving mice.
Dussaux C, Szabo V, Chastagnier Y, Fodor J, Léger JF, Bourdieu L, Perroy J, Ventalon C
Sci Rep. 2018 Nov 2. 8(1):16262.

Slower environmental change hinders adaptation from standing genetic variation.
Guzella TS, Dey S, Chelo IM, Pino‑Querido A, Pereira VF, Proulx SR, Teotónio H
PLoS Genet. 2018 Nov. 14(11):e1007731.

Clade-specific diversification dynamics of marine diatoms since the Jurassic.
Lewitus E, Bittner L, Malviya S, Bowler C, Morlon H
Nat Ecol Evol. 2018 Nov. 2(11):1715-1723.

Chromosome evolution at the origin of the ancestral vertebrate genome.
Sacerdot C, Louis A, Bon C, Berthelot C, Roest Crollius H
Genome Biol. 2018 Oct 17. 19(1):166.

Microglia and early brain development : An intimate journey.
Thion MS, Ginhoux F, Garel S
Science. 2018 Oct 12. 362(6411):185-189.

Higher ambient synaptic glutamate at inhibitory versus excitatory neurons differentially impacts NMDA receptor activity.
Yao L, Grand T, Hanson JE, Paoletti P, Zhou Q
Nat Commun. 2018 Oct 1. 9(1):4000.

Nonsense-mediated mRNA decay involves two distinct Upf1-bound complexes.
Dehecq M, Decourty L, Namane A, Proux C, Kanaan J, Le Hir H, Jacquier A, Saveanu C
EMBO J. 2018 Nov 2. 37(21).

Compartmental models for seasonal hyperendemic bacterial meningitis in the African meningitis belt.
Koutangni T, Crépey P, Woringer M, Porgho S, Bicaba BW, Tall H, Mueller JE
Epidemiol Infect. 2018 Sep 28:1-11.

Monitored eCLIP : high accuracy mapping of RNA-protein interactions.
Hocq R, Paternina J, Alasseur Q, Genovesio A, Le Hir H
Nucleic Acids Res. 2018 Nov 30. 46(21):11553-11565.

Multiple factors behind early diversification of skull morphology in the continental radiation of New World monkeys.
Aristide L, Bastide P, Dos Reis SF, Pires Dos Santos TM, Lopes RT, Perez SI
Evolution. 2018 Dec. 72(12):2697-2711.

Single particle trajectories reveal active endoplasmic reticulum luminal flow.
Holcman D, Parutto P, Chambers JE, Fantham M, Young LJ, Marciniak SJ, Kaminski CF, Ron D, Avezov E
Nat Cell Biol. 2018 Oct. 20(10):1118-1125.

Six domesticated PiggyBac transposases together carry out programmed DNA elimination in Paramecium.
Bischerour J, Bhullar S, Denby Wilkes C, Régnier V, Mathy N, Dubois E, Singh A, Swart E, Arnaiz O, Sperling L, Nowacki M, Bétermier M
Elife. 2018 Sep 18. 7.

Transcription Factors Drive Tet2-Mediated Enhancer Demethylation to Reprogram Cell Fate.
Sardina JL, Collombet S, Tian TV, Gómez A, Di Stefano B, Berenguer C, Brumbaugh J, Stadhouders R, Segura‑Morales C, Gut M, Gut IG, Heath S, Aranda S, Di Croce L, Hochedlinger K, Thieffry D, Graf T
Cell Stem Cell. 2018 Nov 1. 23(5):727-741.e9.

UPF1-like helicase grip on nucleic acids dictates processivity.
Kanaan J, Raj S, Decourty L, Saveanu C, Croquette V, Le Hir H
Nat Commun. 2018 Sep 14. 9(1):3752.

Dual-layer transposon repression in heads of Drosophila melanogaster.
van den Beek M, da Silva B, Pouch J, Ali Chaouche MEA, Carré C, Antoniewski C
RNA. 2018 Dec. 24(12):1749-1760.

Optogenetic stimulation of complex spatio-temporal activity patterns by acousto-optic light steering probes cerebellar granular layer integrative properties.
Hernandez O, Pietrajtis K, Mathieu B, Dieudonné S
Sci Rep. 2018 Sep 13. 8(1):13768.

Developmental and cancer-associated plasticity of DNA replication preferentially targets GC-poor, lowly expressed and late-replicating regions.
Wu X, Kabalane H, Kahli M, Petryk N, Laperrousaz B, Jaszczyszyn Y, Drillon G, Nicolini FE, Perot G, Robert A, Fund C, Chibon F, Xia R, Wiels J, Argoul F, Maguer‑Satta V, Arneodo A, Audit B, Hyrien O
Nucleic Acids Res. 2018 Nov 2. 46(19):10532.

DET1-mediated degradation of a SAGA-like deubiquitination module controls H2Bub homeostasis.
Nassrallah A, Rougée M, Bourbousse C, Drevensek S, Fonseca S, Iniesto E, Ait‑Mohamed O, Deton‑Cabanillas AF, Zabulon G, Ahmed I, Stroebel D, Masson V, Lombard B, Eeckhout D, Gevaert K, Loew D, Genovesio A, Breyton C, De Jaeger G, Bowler C, Rubio V, Barneche F
Elife. 2018 Sep 7. 7.

Developmental and cancer-associated plasticity of DNA replication preferentially targets GC-poor, lowly expressed and late-replicating regions.
Wu X, Kabalane H, Kahli M, Petryk N, Laperrousaz B, Jaszczyszyn Y, Drillon G, Nicolini FE, Perot G, Robert A, Fund C, Chibon F, Xia R, Wiels J, Argoul F, Maguer‑Satta V, Arneodo A, Audit B, Hyrien O
Nucleic Acids Res. 2018 Nov 2. 46(19):10157-10172.

Trio GEF mediates RhoA activation downstream of Slit2 and coordinates telencephalic wiring.
Backer S, Lokmane L, Landragin C, Deck M, Garel S, Bloch‑Gallego E
Development. 2018 Oct 2. 145(19).

Cracking the Code of Biodiversity Responses to Past Climate Change.
Nogués‑Bravo D, Rodríguez‑Sánchez F, Orsini L, de Boer E, Jansson R, Morlon H, Fordham DA, Jackson ST
Trends Ecol Evol. 2018 Oct. 33(10):765-776.

A mating-type mutagenesis screen identifies a zinc-finger protein required for specific DNA excision events in Paramecium.
Bhullar S, Denby Wilkes C, Arnaiz O, Nowacki M, Sperling L, Meyer E
Nucleic Acids Res. 2018 Oct 12. 46(18):9550-9562.

Mapping the imprint of biotic interactions on β-diversity.
Ohlmann M, Mazel F, Chalmandrier L, Bec S, Coissac E, Gielly L, Pansu J, Schilling V, Taberlet P, Zinger L, Chave J, Thuiller W
Ecol Lett. 2018 Nov. 21(11):1660-1669.

Isolation and differential transcriptome of vascular smooth muscle cells and mid-capillary pericytes from the rat brain.
Chasseigneaux S, Moraca Y, Cochois‑Guégan V, Boulay AC, Gilbert A, Le Crom S, Blugeon C, Firmo C, Cisternino S, Laplanche JL, Curis E, Declèves X, Saubaméa B
Sci Rep. 2018 Aug 16. 8(1):12272.

Accounting for non-stationarity in epidemiology by embedding time-varying parameters in stochastic models.
Cazelles B, Champagne C, Dureau J
PLoS Comput Biol. 2018 Aug. 14(8):e1006211.

Inferring Evolutionary Process From Neuroanatomical Data.
Lewitus E
Front Neuroanat. 2018. 12:54.

The gut microbiome is associated with behavioural task in honey bees.
Jones JC, Fruciano C, Marchant J, Hildebrand F, Forslund S, Bork P, Engel P, Hughes WOH
Insectes Soc. 2018. 65(3):419-429.

Voltage- and Branch-Specific Climbing Fiber Responses in Purkinje Cells.
Zang Y, Dieudonné S, De Schutter E
Cell Rep. 2018 Aug 7. 24(6):1536-1549.

The First 100 nm Inside the Pre-synaptic Terminal Where Calcium Diffusion Triggers Vesicular Release.
Guerrier C, Holcman D
Front Synaptic Neurosci. 2018. 10:23.

Cooperation, cis-interactions, versatility and evolutionary plasticity of multiple cis-acting elements underlie krox20 hindbrain regulation.
Torbey P, Thierion E, Collombet S, de Cian A, Desmarquet‑Trin‑Dinh C, Dura M, Concordet JP, Charnay P, Gilardi‑Hebenstreit P
PLoS Genet. 2018 Aug. 14(8):e1007581.

Dual Roles of Poly(dA:dT) Tracts in Replication Initiation and Fork Collapse.
Tubbs A, Sridharan S, van Wietmarschen N, Maman Y, Callen E, Stanlie A, Wu W, Wu X, Day A, Wong N, Yin M, Canela A, Fu H, Redon C, Pruitt SC, Jaszczyszyn Y, Aladjem MI, Aplan PD, Hyrien O, Nussenzweig A
Cell. 2018 Aug 23. 174(5):1127-1142.e19.

Natural Genetic Variation in a Multigenerational Phenotype in C. elegans.
Frézal L, Demoinet E, Braendle C, Miska E, Félix MA
Curr Biol. 2018 Aug 20. 28(16):2588-2596.e8.

Pristionchus nematodes occur frequently in diverse rotting vegetal substrates and are not exclusively necromenic, while Panagrellus redivivoides is found specifically in rotting fruits.
Félix MA, Ailion M, Hsu JC, Richaud A, Wang J
PLoS One. 2018. 13(8):e0200851.

Clade diversification dynamics and the biotic and abiotic controls of speciation and extinction rates.
Aguilée R, Gascuel F, Lambert A, Ferriere R
Nat Commun. 2018 Aug 1. 9(1):3013.

Microbiote et microglie : des interactions prénatales et postnatales distinctes selon l’identité sexuelle.
Thion MS, Garel S
Med Sci (Paris). 2018 Jun-Jul. 34(6-7):527-529.

Single molecule kinetics uncover roles for E. coli RecQ DNA helicase domains and interaction with SSB.
Bagchi D, Manosas M, Zhang W, Manthei KA, Hodeib S, Ducos B, Keck JL, Croquette V
Nucleic Acids Res. 2018 Sep 19. 46(16):8500-8515.

Rapid Voltage Sensing with Single Nanorods via the Quantum Confined Stark Effect.
Bar‑Elli O, Steinitz D, Yang G, Tenne R, Ludwig A, Kuo Y, Triller A, Weiss S, Oron D
ACS Photonics. 2018 Jul 18. 5(7):2860-2867.

Physiological Starvation Promotes Caenorhabditis elegans Vulval Induction.
Grimbert S, Vargas Velazquez AM, Braendle C
G3 (Bethesda). 2018 Aug 30. 8(9):3069-3081.

Prediction of Mutations to Control Pathways Enabling Tumor Cell Invasion with the CoLoMoTo Interactive Notebook (Tutorial).
Levy N, Naldi A, Hernandez C, Stoll G, Thieffry D, Zinovyev A, Calzone L, Paulevé L
Front Physiol. 2018. 9:787.

Cyclin G and the Polycomb Repressive complexes PRC1 and PR-DUB cooperate for developmental stability.
Dardalhon‑Cuménal D, Deraze J, Dupont CA, Ribeiro V, Coléno‑Costes A, Pouch J, Le Crom S, Thomassin H, Debat V, Randsholt NB, Peronnet F
PLoS Genet. 2018 Jul. 14(7):e1007498.

Principles of Functional Circuit Connectivity : Insights From Spontaneous Activity in the Zebrafish Optic Tectum.
Marachlian E, Avitan L, Goodhill GJ, Sumbre G
Front Neural Circuits. 2018. 12:46.

The CoLoMoTo Interactive Notebook : Accessible and Reproducible Computational Analyses for Qualitative Biological Networks.
Naldi A, Hernandez C, Levy N, Stoll G, Monteiro PT, Chaouiya C, Helikar T, Zinovyev A, Calzone L, Cohen‑Boulakia S, Thieffry D, Paulevé L
Front Physiol. 2018. 9:680.

Logical Modeling and Analysis of Cellular Regulatory Networks With GINsim 3.0.
Naldi A, Hernandez C, Abou‑Jaoudé W, Monteiro PT, Chaouiya C, Thieffry D
Front Physiol. 2018. 9:646.

Low resolution scans can provide a sufficiently accurate, cost- and time-effective alternative to high resolution scans for 3D shape analyses.
Marcy AE, Fruciano C, Phillips MJ, Mardon K, Weisbecker V
PeerJ. 2018. 6:e5032.

The mysterious origins of microglia.
Ginhoux F, Garel S
Nat Neurosci. 2018 Jul. 21(7):897-899.

Gene(s) and individual feeding behavior : Exploring eco-evolutionary dynamics underlying left-right asymmetry in the scale-eating cichlid fish Perissodus microlepis.
Raffini F, Fruciano C, Meyer A
Ecol Evol. 2018 Jun. 8(11):5495-5507.

Exon Junction Complexes can have distinct functional flavours to regulate specific splicing events.
Wang Z, Ballut L, Barbosa I, Le Hir H
Sci Rep. 2018 Jun 22. 8(1):9509.

Ubiquitous abundance distribution of non-dominant plankton across the global ocean.
Ser‑Giacomi E, Zinger L, Malviya S, De Vargas C, Karsenti E, Bowler C, De Monte S
Nat Ecol Evol. 2018 Aug. 2(8):1243-1249.

In need of signalling pathway data.
Pizard A
Eur J Heart Fail. 2018 Aug. 20(8):1202-1204.

Ependymal cilia beating induces an actin network to protect centrioles against shear stress.
Mahuzier A, Shihavuddin A, Fournier C, Lansade P, Faucourt M, Menezes N, Meunier A, Garfa‑Traoré M, Carlier MF, Voituriez R, Genovesio A, Spassky N, Delgehyr N
Nat Commun. 2018 Jun 11. 9(1):2279.

Cancer : From Wild-Type to Mutant Huntingtin.
Thion MS, Humbert S
J Huntingtons Dis. 2018. 7(3):201-208.

Spatiotemporal variation of the association between climate dynamics and HFRS outbreaks in Eastern China during 2005-2016 and its geographic determinants.
He J, Christakos G, Wu J, Cazelles B, Qian Q, Mu D, Wang Y, Yin W, Zhang W
PLoS Negl Trop Dis. 2018 Jun. 12(6):e0006554.

Transcriptional control and exploitation of an immune-responsive family of plant retrotransposons.
Zervudacki J, Yu A, Amesefe D, Wang J, Drouaud J, Navarro L, Deleris A
EMBO J. 2018 Jul 13. 37(14).

The eukaryotic bell-shaped temporal rate of DNA replication origin firing emanates from a balance between origin activation and passivation.
Arbona JM, Goldar A, Hyrien O, Arneodo A, Audit B
Elife. 2018 Jun 1. 7.

Supergene Evolution Triggered by the Introgression of a Chromosomal Inversion.
Jay P, Whibley A, Frézal L, Rodríguez de Cara MÁ, Nowell RW, Mallet J, Dasmahapatra KK, Joron M
Curr Biol. 2018 Jun 4. 28(11):1839-1845.e3.

Microglia Under the Spotlight : Activity and Complement-Dependent Engulfment of Synapses.
Thion MS, Garel S
Trends Neurosci. 2018 Jun. 41(6):332-334.

Molecular and epigenetic regulations and functions of the LAFL transcriptional regulators that control seed development.
Lepiniec L, Devic M, Roscoe TJ, Bouyer D, Zhou DX, Boulard C, Baud S, Dubreucq B
Plant Reprod. 2018 Sep. 31(3):291-307.

Dissection of DNA double-strand-break repair using novel single-molecule forceps.
Wang JL, Duboc C, Wu Q, Ochi T, Liang S, Tsutakawa SE, Lees‑Miller SP, Nadal M, Tainer JA, Blundell TL, Strick TR
Nat Struct Mol Biol. 2018 Jun. 25(6):482-487.

Polycomb Repressive Complex 2 attenuates the very high expression of the Arabidopsis gene NRT2.1.
Bellegarde F, Herbert L, Séré D, Caillieux E, Boucherez J, Fizames C, Roudier F, Gojon A, Martin A
Sci Rep. 2018 May 21. 8(1):7905.

Endocytosis-mediated siderophore uptake as a strategy for Fe acquisition in diatoms.
Kazamia E, Sutak R, Paz‑Yepes J, Dorrell RG, Vieira FRJ, Mach J, Morrissey J, Leon S, Lam F, Pelletier E, Camadro JM, Bowler C, Lesuisse E
Sci Adv. 2018 May. 4(5):eaar4536.

Transcription-Coupled Repair and Complex Biology.
Portman JR, Strick TR
J Mol Biol. 2018 Oct 26. 430(22):4496-4512.

Homoeolog expression bias in allopolyploid oleaginous marine diatom Fistulifera solaris.
Nomaguchi T, Maeda Y, Yoshino T, Asahi T, Tirichine L, Bowler C, Tanaka T
BMC Genomics. 2018 May 4. 19(1):330.

A cautionary TALE : how plant breeding may have favoured expanded TALE repertoires in Xanthomonas.
Schandry N, Jacobs JM, Szurek B, Perez‑Quintero AL
Mol Plant Pathol. 2018 Jun. 19(6):1297-1301.

RSAT 2018 : regulatory sequence analysis tools 20th anniversary.
Nguyen NTT, Contreras‑Moreira B, Castro‑Mondragon JA, Santana‑Garcia W, Ossio R, Robles‑Espinoza CD, Bahin M, Collombet S, Vincens P, Thieffry D, van Helden J, Medina‑Rivera A, Thomas‑Chollier M
Nucleic Acids Res. 2018 Jul 2. 46(W1):W209-W214.

Quadruplexes in ’Dicty’ : crystal structure of a four-quartet G-quadruplex formed by G-rich motif found in the Dictyostelium discoideum genome.
Guédin A, Lin LY, Armane S, Lacroix L, Mergny JL, Thore S, Yatsunyk LA
Nucleic Acids Res. 2018 Jun 1. 46(10):5297-5307.

Mib1 prevents Notch Cis-inhibition to defer differentiation and preserve neuroepithelial integrity during neural delamination.
Baek C, Freem L, Goïame R, Sang H, Morin X, Tozer S
PLoS Biol. 2018 Apr. 16(4):e2004162.

Evidence for altered dendritic spine compartmentalization in Alzheimer’s disease and functional effects in a mouse model.
Androuin A, Potier B, Nägerl UV, Cattaert D, Danglot L, Thierry M, Youssef I, Triller A, Duyckaerts C, El Hachimi KH, Dutar P, Delatour B, Marty S
Acta Neuropathol. 2018 Jun. 135(6):839-854.

Triheteromeric NMDA receptors : from structure to synaptic physiology.
Stroebel D, Casado M, Paoletti P
Curr Opin Physiol. 2018 Apr. 2:1-12.

Ranked Tree Shapes, Nonrandom Extinctions, and the Loss of Phylogenetic Diversity.
Maliet O, Gascuel F, Lambert A
Syst Biol. 2018 Nov 1. 67(6):1025-1040.

Urbanization prolongs hantavirus epidemics in cities.
Tian H, Hu S, Cazelles B, Chowell G, Gao L, Laine M, Li Y, Yang H, Li Y, Yang Q, Tong X, Huang R, Bjornstad ON, Xiao H, Stenseth NC
Proc Natl Acad Sci U S A. 2018 May 1. 115(18):4707-4712.

Probing Ion Channel Structure and Function Using Light-Sensitive Amino Acids.
Klippenstein V, Mony L, Paoletti P
Trends Biochem Sci. 2018 Jun. 43(6):436-451.

Plastid Transcript Editing across Dinoflagellate Lineages Shows Lineage-Specific Application but Conserved Trends.
Klinger CM, Paoli L, Newby RJ, Wang MY, Carroll HD, Leblond JD, Howe CJ, Dacks JB, Bowler C, Cahoon AB, Dorrell RG, Richardson E
Genome Biol Evol. 2018 Apr 1. 10(4):1019-1038.

Connexin 43 Controls the Astrocyte Immunoregulatory Phenotype.
Boulay AC, Gilbert A, Oliveira Moreira V, Blugeon C, Perrin S, Pouch J, Le Crom S, Ducos B, Cohen‑Salmon M
Brain Sci. 2018 Mar 22. 8(4).

Integrative analysis of large scale transcriptome data draws a comprehensive landscape of Phaeodactylum tricornutum genome and evolutionary origin of diatoms.
Rastogi A, Maheswari U, Dorrell RG, Vieira FRJ, Maumus F, Kustka A, McCarthy J, Allen AE, Kersey P, Bowler C, Tirichine L
Sci Rep. 2018 Mar 19. 8(1):4834.

Asymmetric adhesion of rod-shaped bacteria controls microcolony morphogenesis.
Duvernoy MC, Mora T, Ardré M, Croquette V, Bensimon D, Quilliet C, Ghigo JM, Balland M, Beloin C, Lecuyer S, Desprat N
Nat Commun. 2018 Mar 16. 9(1):1120.

High-throughput fecundity measurements in Drosophila.
Nouhaud P, Mallard F, Poupardin R, Barghi N, Schlötterer C
Sci Rep. 2018 Mar 13. 8(1):4469.

Chemical regulation of body feather microbiota in a wild bird.
Jacob S, Sallé L, Zinger L, Chaine AS, Ducamp C, Boutault L, Russell AF, Heeb P
Mol Ecol. 2018 Apr. 27(7):1727-1738.

Müller glia-derived PRSS56 is required to sustain ocular axial growth and prevent refractive error.
Paylakhi S, Labelle‑Dumais C, Tolman NG, Sellarole MA, Seymens Y, Saunders J, Lakosha H, deVries WN, Orr AC, Topilko P, John SW, Nair KS
PLoS Genet. 2018 Mar. 14(3):e1007244.

A screen for deeply conserved non-coding GWAS SNPs uncovers a MIR-9-2 functional mutation associated to retinal vasculature defects in human.
Madelaine R, Notwell JH, Skariah G, Halluin C, Chen CC, Bejerano G, Mourrain P
Nucleic Acids Res. 2018 Apr 20. 46(7):3517-3531.

Nanoplanktonic diatoms are globally overlooked but play a role in spring blooms and carbon export.
Leblanc K, Quéguiner B, Diaz F, Cornet V, Michel‑Rodriguez M, Durrieu de Madron X, Bowler C, Malviya S, Thyssen M, Grégori G, Rembauville M, Grosso O, Poulain J, de Vargas C, Pujo‑Pay M, Conan P
Nat Commun. 2018 Mar 5. 9(1):953.

Sequences Flanking the Gephyrin-Binding Site of GlyRβ Tune Receptor Stabilization at Synapses.
Grünewald N, Jan A, Salvatico C, Kress V, Renner M, Triller A, Specht CG, Schwarz G
eNeuro. 2018 Jan-Feb. 5(1).

Optogenetic Tractography for anatomo-functional characterization of cortico-subcortical neural circuits in non-human primates.
Senova S, Poupon C, Dauguet J, Stewart HJ, Dugué GP, Jan C, Hosomi K, Ralph GS, Barnes L, Drouot X, Pouzat C, Mangin JF, Pain F, Doignon I, Aron‑Badin R, Brouillet E, Boyden ES, Mitrophanous KA, Hantraye P, Palfi S
Sci Rep. 2018 Feb 20. 8(1):3362.

Deconvolution of Voltage Sensor Time Series and Electro-diffusion Modeling Reveal the Role of Spine Geometry in Controlling Synaptic Strength.
Cartailler J, Kwon T, Yuste R, Holcman D
Neuron. 2018 Mar 7. 97(5):1126-1136.e10.

Handedness in gestural and manipulative actions in male hunter-gatherer Aka pygmies from Central African Republic.
Robira B, Pouydebat E, San‑Galli A, Meulman EJM, Aubaile F, Breuer T, Masi S
Am J Phys Anthropol. 2018 Jun. 166(2):481-491.

FRET Image Correlation Spectroscopy Reveals RNAPII-Independent P-TEFb Recruitment on Chromatin.
Bidaux G, Le Nézet C, Pisfil MG, Henry M, Furlan A, Bensaude O, Vandenbunder B, Héliot L
Biophys J. 2018 Feb 6. 114(3):522-533.

Differential influences of allometry, phylogeny and environment on the rostral shape diversity of extinct South American notoungulates.
Gomes Rodrigues H, Cornette R, Clavel J, Cassini G, Bhullar BS, Fernández‑Monescillo M, Moreno K, Herrel A, Billet G
R Soc Open Sci. 2018 Jan. 5(1):171816.

Natural Infection of C. elegans by an Oomycete Reveals a New Pathogen-Specific Immune Response.
Osman GA, Fasseas MK, Koneru SL, Essmann CL, Kyrou K, Srinivasan MA, Zhang G, Sarkies P, Félix MA, Barkoulas M
Curr Biol. 2018 Feb 19. 28(4):640-648.e5.

Increased Potency and Selectivity for Group III Metabotropic Glutamate Receptor Agonists Binding at Dual sites.
Selvam C, Lemasson IA, Brabet I, Oueslati N, Karaman B, Cabaye A, Tora AS, Commare B, Courtiol T, Cesarini S, McCort‑Tranchepain I, Rigault D, Mony L, Bessiron T, McLean H, Leroux FR, Colobert F, Daniel H, Goupil‑Lamy A, Bertrand HO, Goudet C, Pin JP, Acher FC
J Med Chem. 2018 Mar 8. 61(5):1969-1989.

Contrasting impacts of competition on ecological and social trait evolution in songbirds.
Drury JP, Tobias JA, Burns KJ, Mason NA, Shultz AJ, Morlon H
PLoS Biol. 2018 Jan. 16(1):e2003563.

HTLV-1 Tax plugs and freezes UPF1 helicase leading to nonsense-mediated mRNA decay inhibition.
Fiorini F, Robin JP, Kanaan J, Borowiak M, Croquette V, Le Hir H, Jalinot P, Mocquet V
Nat Commun. 2018 Jan 30. 9(1):431.

A conserved structural element in the RNA helicase UPF1 regulates its catalytic activity in an isoform-specific manner.
Gowravaram M, Bonneau F, Kanaan J, Maciej VD, Fiorini F, Raj S, Croquette V, Le Hir H, Chakrabarti S
Nucleic Acids Res. 2018 Mar 16. 46(5):2648-2659.

A global ocean atlas of eukaryotic genes.
Carradec Q, Pelletier E, Da Silva C, Alberti A, Seeleuthner Y, Blanc‑Mathieu R, Lima‑Mendez G, Rocha F, Tirichine L, Labadie K, Kirilovsky A, Bertrand A, Engelen S, Madoui MA, Méheust R, Poulain J, Romac S, Richter DJ, Yoshikawa G, Dimier C, Kandels‑Lewis S, Picheral M, Searson S, Jaillon O, Aury JM, Karsenti E, Sullivan MB, Sunagawa S, Bork P, Not F, Hingamp P, Raes J, Guidi L, Ogata H, de Vargas C, Iudicone D, Bowler C, Wincker P
Nat Commun. 2018 Jan 25. 9(1):373.

Single-cell genomics of multiple uncultured stramenopiles reveals underestimated functional diversity across oceans.
Seeleuthner Y, Mondy S, Lombard V, Carradec Q, Pelletier E, Wessner M, Leconte J, Mangot JF, Poulain J, Labadie K, Logares R, Sunagawa S, de Berardinis V, Salanoubat M, Dimier C, Kandels‑Lewis S, Picheral M, Searson S, Pesant S, Poulton N, Stepanauskas R, Bork P, Bowler C, Hingamp P, Sullivan MB, Iudicone D, Massana R, Aury JM, Henrissat B, Karsenti E, Jaillon O, Sieracki M, de Vargas C, Wincker P
Nat Commun. 2018 Jan 22. 9(1):310.

The epibiotic life of the cosmopolitan diatom Fragilariopsis doliolus on heterotrophic ciliates in the open ocean.
Vincent FJ, Colin S, Romac S, Scalco E, Bittner L, Garcia Y, Lopes RM, Dolan JR, Zingone A, de Vargas C, Bowler C
ISME J. 2018 Apr. 12(4):1094-1108.

Functional Principles of Posterior Septal Inputs to the Medial Habenula.
Otsu Y, Lecca S, Pietrajtis K, Rousseau CV, Marcaggi P, Dugué GP, Mailhes‑Hamon C, Mameli M, Diana MA
Cell Rep. 2018 Jan 16. 22(3):693-705.

Hexim1, an RNA-controlled protein hub.
Michels AA, Bensaude O
Transcription. 2018. 9(4):262-271.

Control of Protein Activity and Gene Expression by Cyclofen-OH Uncaging.
Zhang W, Hamouri F, Feng Z, Aujard I, Ducos B, Ye S, Weiss S, Volovitch M, Vriz S, Jullien L, Bensimon D
Chembiochem. 2018 Jun 18. 19(12):1232-1238.

Transcription factors orchestrate dynamic interplay between genome topology and gene regulation during cell reprogramming.
Stadhouders R, Vidal E, Serra F, Di Stefano B, Le Dily F, Quilez J, Gomez A, Collombet S, Berenguer C, Cuartero Y, Hecht J, Filion GJ, Beato M, Marti‑Renom MA, Graf T
Nat Genet. 2018 Feb. 50(2):238-249.

Modelling interaction dynamics between two foliar pathogens in wheat : a multi-scale approach.
Garin G, Pradal C, Fournier C, Claessen D, Houlès V, Robert C
Ann Bot. 2018 Apr 18. 121(5):927-940.

Spatial patterns generated by simultaneous cooperation and exploitation favour the evolution of altruism.
Yamauchi A, van Baalen M, Sabelis MW
J Theor Biol. 2018 Mar 14. 441:58-67.

Microbiome Influences Prenatal and Adult Microglia in a Sex-Specific Manner.
Thion MS, Low D, Silvin A, Chen J, Grisel P, Schulte‑Schrepping J, Blecher R, Ulas T, Squarzoni P, Hoeffel G, Coulpier F, Siopi E, David FS, Scholz C, Shihui F, Lum J, Amoyo AA, Larbi A, Poidinger M, Buttgereit A, Lledo PM, Greter M, Chan JKY, Amit I, Beyer M, Schultze JL, Schlitzer A, Pettersson S, Ginhoux F, Garel S
Cell. 2018 Jan 25. 172(3):500-516.e16.

Detecting Environment-Dependent Diversification From Phylogenies : A Simulation Study and Some Empirical Illustrations.
Lewitus E, Morlon H
Syst Biol. 2018 Jul 1. 67(4):576-593.

Neobodonids are dominant kinetoplastids in the global ocean.
Flegontova O, Flegontov P, Malviya S, Poulain J, de Vargas C, Bowler C, Lukeš J, Horák A
Environ Microbiol. 2018 Feb. 20(2):878-889.

FANCD2 binding identifies conserved fragile sites at large transcribed genes in avian cells.
Pentzold C, Shah SA, Hansen NR, Le Tallec B, Seguin‑Orlando A, Debatisse M, Lisby M, Oestergaard VH
Nucleic Acids Res. 2018 Feb 16. 46(3):1280-1294.

TopA, the Sulfolobus solfataricus topoisomerase III, is a decatenase.
Bizard AH, Yang X, Débat H, Fogg JM, Zechiedrich L, Strick TR, Garnier F, Nadal M
Nucleic Acids Res. 2018 Jan 25. 46(2):861-872.

The Local Coexistence Pattern of Selfing Genotypes in Caenorhabditis elegans Natural Metapopulations.
Richaud A, Zhang G, Lee D, Lee J, Félix MA
Genetics. 2018 Feb. 208(2):807-821.

Greater pollination generalization is not associated with reduced constraints on corolla shape in Antillean plants.
Joly S, Lambert F, Alexandre H, Clavel J, Léveillé‑Bourret É, Clark JL
Evolution. 2018 Feb. 72(2):244-260.

The SlCBL10 Calcineurin B-Like Protein Ensures Plant Growth under Salt Stress by Regulating Na+ and Ca2+ Homeostasis.
Egea I, Pineda B, Ortíz‑Atienza A, Plasencia FA, Drevensek S, García‑Sogo B, Yuste‑Lisbona FJ, Barrero‑Gil J, Atarés A, Flores FB, Barneche F, Angosto T, Capel C, Salinas J, Vriezen W, Esch E, Bowler C, Bolarín MC, Moreno V, Lozano R
Plant Physiol. 2018 Feb. 176(2):1676-1693.

Pan-arthropod analysis reveals somatic piRNAs as an ancestral defence against transposable elements.
Lewis SH, Quarles KA, Yang Y, Tanguy M, Frézal L, Smith SA, Sharma PP, Cordaux R, Gilbert C, Giraud I, Collins DH, Zamore PD, Miska EA, Sarkies P, Jiggins FM
Nat Ecol Evol. 2018 Jan. 2(1):174-181.

Complexity and conservation of regulatory landscapes underlie evolutionary resilience of mammalian gene expression.
Berthelot C, Villar D, Horvath JE, Odom DT, Flicek P
Nat Ecol Evol. 2018 Jan. 2(1):152-163.

Transcriptome profiling of sorted endoreduplicated nuclei from tomato fruits : how the global shift in expression ascribed to DNA ploidy influences RNA-Seq data normalization and interpretation.
Pirrello J, Deluche C, Frangne N, Gévaudant F, Maza E, Djari A, Bourge M, Renaudin JP, Brown S, Bowler C, Zouine M, Chevalier C, Gonzalez N
Plant J. 2018 Jan. 93(2):387-398.

Krox20 defines a subpopulation of cardiac neural crest cells contributing to arterial valves and bicuspid aortic valve.
Odelin G, Faure E, Coulpier F, Di Bonito M, Bajolle F, Studer M, Avierinos JF, Charnay P, Topilko P, Zaffran S
Development. 2018 Jan 3. 145(1).

ANISEED 2017 : extending the integrated ascidian database to the exploration and evolutionary comparison of genome-scale datasets.
Brozovic M, Dantec C, Dardaillon J, Dauga D, Faure E, Gineste M, Louis A, Naville M, Nitta KR, Piette J, Reeves W, Scornavacca C, Simion P, Vincentelli R, Bellec M, Aicha SB, Fagotto M, Guéroult‑Bellone M, Haeussler M, Jacox E, Lowe EK, Mendez M, Roberge A, Stolfi A, Yokomori R, Brown CT, Cambillau C, Christiaen L, Delsuc F, Douzery E, Dumollard R, Kusakabe T, Nakai K, Nishida H, Satou Y, Swalla B, Veeman M, Volff JN, Lemaire P
Nucleic Acids Res. 2018 Jan 4. 46(D1):D718-D725.

The "sacral parasympathetic" : ontogeny and anatomy of a myth.
Espinosa‑Medina I, Saha O, Boismoreau F, Brunet JF
Clin Auton Res. 2018 Feb. 28(1):13-21.

Compound Functional Prediction Using Multiple Unrelated Morphological Profiling Assays.
Rose F, Basu S, Rexhepaj E, Chauchereau A, Del Nery E, Genovesio A
SLAS Technol. 2018 Jun. 23(3):243-251.

Genomicus 2018 : karyotype evolutionary trees and on-the-fly synteny computing.
Nguyen NTT, Vincens P, Roest Crollius H, Louis A
Nucleic Acids Res. 2018 Jan 4. 46(D1):D816-D822.

Cell Type-Specific Profiling of Chromatin Modifications and Associated Proteins.
Morao AK, Caillieux E, Colot V, Roudier F
Methods Mol Biol. 2018. 1675:111-130.

Profiling Developmentally and Environmentally Controlled Chromatin Reprogramming.
Bourbousse C, Benhamed M, Barneche F
Methods Mol Biol. 2018. 1675:3-30.

An Assessment of Phylogenetic Tools for Analyzing the Interplay Between Interspecific Interactions and Phenotypic Evolution.
Drury JP, Grether GF, Garland T Jr, Morlon H
Syst Biol. 2018 May 1. 67(3):413-427.

Laser microdissection : A powerful tool for genomics at cell level.
Bevilacqua C, Ducos B
Mol Aspects Med. 2018 Feb. 59:5-27.

Tangential migration of corridor guidepost neurons contributes to anxiety circuits.
Tinterri A, Deck M, Keita M, Mailhes C, Rubin AN, Kessaris N, Lokmane L, Bielle F, Garel S
J Comp Neurol. 2018 Feb 15. 526(3):397-411.

Nerves, H2O2 and Shh : Three players in the game of regeneration.
Meda F, Rampon C, Dupont E, Gauron C, Mourton A, Queguiner I, Thauvin M, Volovitch M, Joliot A, Vriz S
Semin Cell Dev Biol. 2018 Aug. 80:65-73.

Neurons derived from patients with bipolar disorder divide into intrinsically different sub-populations of neurons, predicting the patients’ responsiveness to lithium.
Stern S, Santos R, Marchetto MC, Mendes APD, Rouleau GA, Biesmans S, Wang QW, Yao J, Charnay P, Bang AG, Alda M, Gage FH
Mol Psychiatry. 2018 Jun. 23(6):1453-1465.



2017


2017

Statistics of randomly cross-linked polymer models to interpret chromatin conformation capture data.
Shukron O, Holcman D
Phys Rev E. 2017 Jul. 96(1-1):012503.

Modelling interaction dynamics between two foliar pathogens in wheat : a multi-scale approach.
Garin G, Pradal C, Fournier C, Claessen D, Houlès V, Robert C
Ann Bot. 2017 Dec 29.

Detecting environment-dependent diversi_cation from phylogenies : a simulation study and some empirical illustrations.
Lewitus E, Morlon H
Syst Biol. 2017 Dec 20.

Trouble bipolaire : nouvelles pistes diagnostiques et thérapeutiques fondées sur la reprogrammation cellulaire.
Santos R, Charnay P
Med Sci (Paris). 2017 Dec. 33(12):1048-1050.

Automatized image processing of bovine blastocysts produced in vitro for quantitative variable determination.
Rocha JC, Passalia FJ, Matos FD, Takahashi MB, Maserati MP Jr, Alves MF, de Almeida TG, Cardoso BL, Basso AC, Nogueira MFG
Sci Data. 2017 Dec 19. 4:170192.

Author Correction : Resonant out-of-phase fluorescence microscopy and remote imaging overcome spectral limitations.
Quérard J, Zhang R, Kelemen Z, Plamont MA, Xie X, Chouket R, Roemgens I, Korepina Y, Albright S, Ipendey E, Volovitch M, Sladitschek HL, Neveu P, Gissot L, Gautier A, Faure JD, Croquette V, Le Saux T, Jullien L
Nat Commun. 2017 Dec 14. 8(1):2173.

A Simple and Powerful Analysis of Lateral Subdiffusion Using Single Particle Tracking.
Renner M, Wang L, Levi S, Hennekinne L, Triller A
Biophys J. 2017 Dec 5. 113(11):2452-2463.

Inhibition of group-I metabotropic glutamate receptors protects against prion toxicity.
Goniotaki D, Lakkaraju AKK, Shrivastava AN, Bakirci P, Sorce S, Senatore A, Marpakwar R, Hornemann S, Gasparini F, Triller A, Aguzzi A
PLoS Pathog. 2017 Nov. 13(11):e1006733.

Boundary cap cells in development and disease.
Radomska KJ, Topilko P
Curr Opin Neurobiol. 2017 Dec. 47:209-215.

Constitutively Active SMAD2/3 Are Broad-Scope Potentiators of Transcription-Factor-Mediated Cellular Reprogramming.
Ruetz T, Pfisterer U, Di Stefano B, Ashmore J, Beniazza M, Tian TV, Kaemena DF, Tosti L, Tan W, Manning JR, Chantzoura E, Ottosson DR, Collombet S, Johnsson A, Cohen E, Yusa K, Linnarsson S, Graf T, Parmar M, Kaji K
Cell Stem Cell. 2017 Dec 7. 21(6):791-805.e9.

Egr1 deficiency induces browning of inguinal subcutaneous white adipose tissue in mice.
Milet C, Bléher M, Allbright K, Orgeur M, Coulpier F, Duprez D, Havis E
Sci Rep. 2017 Nov 23. 7(1):16153.

The mechanism of variability in transcription start site selection.
Yu L, Winkelman JT, Pukhrambam C, Strick TR, Nickels BE, Ebright RH
Elife. 2017 Nov 23. 6.

Emerging Mechanisms Underlying Dynamics of GABAergic Synapses.
Maffei A, Charrier C, Caiati MD, Barberis A, Mahadevan V, Woodin MA, Tyagarajan SK
J Neurosci. 2017 Nov 8. 37(45):10792-10799.

Compound Functional Prediction Using Multiple Unrelated Morphological Profiling Assays.
Rose F, Basu S, Rexhepaj E, Chauchereau A, Del Nery E, Genovesio A
SLAS Technol. 2017 Nov 1:2472630317740831.

Quantitative 3D-imaging for cell biology and ecology of environmental microbial eukaryotes.
Colin S, Coelho LP, Sunagawa S, Bowler C, Karsenti E, Bork P, Pepperkok R, de Vargas C
Elife. 2017 Oct 31. 6.

Comparative epigenomics in the Brassicaceae reveals two evolutionarily conserved modes of PRC2-mediated gene regulation.
Chica C, Louis A, Roest Crollius H, Colot V, Roudier F
Genome Biol. 2017 Oct 31. 18(1):207.

The fitness cost of mis-splicing is the main determinant of alternative splicing patterns.
Saudemont B, Popa A, Parmley JL, Rocher V, Blugeon C, Necsulea A, Meyer E, Duret L
Genome Biol. 2017 Oct 30. 18(1):208.

On place and time : microglia in embryonic and perinatal brain development.
Thion MS, Garel S
Curr Opin Neurobiol. 2017 Dec. 47:121-130.

Dual origin of enteric neurons in vagal Schwann cell precursors and the sympathetic neural crest.
Espinosa‑Medina I, Jevans B, Boismoreau F, Chettouh Z, Enomoto H, Müller T, Birchmeier C, Burns AJ, Brunet JF
Proc Natl Acad Sci U S A. 2017 Nov 7. 114(45):11980-11985.

Estradiol modulates the efficacy of synaptic inhibition by decreasing the dwell time of GABAA receptors at inhibitory synapses.
Mukherjee J, Cardarelli RA, Cantaut‑Belarif Y, Deeb TZ, Srivastava DP, Tyagarajan SK, Pangalos MN, Triller A, Maguire J, Brandon NJ, Moss SJ
Proc Natl Acad Sci U S A. 2017 Oct 31. 114(44):11763-11768.

René Thomas (1928-2017) : From DNA denaturation to positive gene regulation, kinetic logic and complex dynamical systems.
Thieffry D, Toussaint A
Bioessays. 2017 Dec. 39(12).

Polygenicity and Epistasis Underlie Fitness-Proximal Traits in the Caenorhabditis elegans Multiparental Experimental Evolution (CeMEE) Panel.
Noble LM, Chelo I, Guzella T, Afonso B, Riccardi DD, Ammerman P, Dayarian A, Carvalho S, Crist A, Pino‑Querido A, Shraiman B, Rockman MV, Teotónio H
Genetics. 2017 Dec. 207(4):1663-1685.

Resonant out-of-phase fluorescence microscopy and remote imaging overcome spectral limitations.
Quérard J, Zhang R, Kelemen Z, Plamont MA, Xie X, Chouket R, Roemgens I, Korepina Y, Albright S, Ipendey E, Volovitch M, Sladitschek HL, Neveu P, Gissot L, Gautier A, Faure JD, Croquette V, Le Saux T, Jullien L
Nat Commun. 2017 Oct 17. 8(1):969.

Design of Light-Sensitive NMDARs by Genetically Encoded Photo-Cross-Linkers.
Tian M, Ye S
Methods Mol Biol. 2017. 1677:185-197.

Calibrated mitotic oscillator drives motile ciliogenesis.
Al Jord A, Shihavuddin A, Servignat d’Aout R, Faucourt M, Genovesio A, Karaiskou A, Sobczak‑Thépot J, Spassky N, Meunier A
Science. 2017 Nov 10. 358(6364):803-806.

Analysis of Claims that the Brain Extracellular Impedance Is High and Non-resistive.
Barbour B
Biophys J. 2017 Oct 3. 113(7):1636-1638.

P-Body Purification Reveals the Condensation of Repressed mRNA Regulons.
Hubstenberger A, Courel M, Bénard M, Souquere S, Ernoult‑Lange M, Chouaib R, Yi Z, Morlot JB, Munier A, Fradet M, Daunesse M, Bertrand E, Pierron G, Mozziconacci J, Kress M, Weil D
Mol Cell. 2017 Oct 5. 68(1):144-157.e5.

Evolution of gene expression after whole-genome duplication : New insights from the spotted gar genome.
Pasquier J, Braasch I, Batzel P, Cabau C, Montfort J, Nguyen T, Jouanno E, Berthelot C, Klopp C, Journot L, Postlethwait JH, Guiguen Y, Bobe J
J Exp Zool B Mol Dev Evol. 2017 Nov. 328(7):709-721.

DNA methylation dynamics during early plant life.
Bouyer D, Kramdi A, Kassam M, Heese M, Schnittger A, Roudier F, Colot V
Genome Biol. 2017 Sep 25. 18(1):179.

Genome sequencing and transcriptome analysis of Trichoderma reesei QM9978 strain reveals a distal chromosome translocation to be responsible for loss of vib1 expression and loss of cellulase induction.
Ivanova C, Ramoni J, Aouam T, Frischmann A, Seiboth B, Baker SE, Le Crom S, Lemoine S, Margeot A, Bidard F
Biotechnol Biofuels. 2017. 10:209.

Differential cellular responses associated with oxidative stress and cell fate decision under nitrate and phosphate limitations in Thalassiosira pseudonana : Comparative proteomics.
Lin Q, Liang JR, Huang QQ, Luo CS, Anderson DM, Bowler C, Chen CP, Li XS, Gao YH
PLoS One. 2017. 12(9):e0184849.

Electrostatics of non-neutral biological microdomains.
Cartailler J, Schuss Z, Holcman D
Sci Rep. 2017 Sep 12. 7(1):11269.

Alpha subunit-dependent glycine receptor clustering and regulation of synaptic receptor numbers.
Patrizio A, Renner M, Pizzarelli R, Triller A, Specht CG
Sci Rep. 2017 Sep 7. 7(1):10899.

Endodermal germ-layer formation through active actin-driven migration triggered by N-cadherin.
Giger FA, David NB
Proc Natl Acad Sci U S A. 2017 Sep 19. 114(38):10143-10148.

Two loci single particle trajectories analysis : constructing a first passage time statistics of local chromatin exploration.
Shukron O, Hauer M, Holcman D
Sci Rep. 2017 Sep 4. 7(1):10346.

Mutations in ACTRT1 and its enhancer RNA elements lead to aberrant activation of Hedgehog signaling in inherited and sporadic basal cell carcinomas.
Bal E, Park HS, Belaid‑Choucair Z, Kayserili H, Naville M, Madrange M, Chiticariu E, Hadj‑Rabia S, Cagnard N, Kuonen F, Bachmann D, Huber M, Le Gall C, Côté F, Hanein S, Rosti RÖ, Aslanger AD, Waisfisz Q, Bodemer C, Hermine O, Morice‑Picard F, Labeille B, Caux F, Mazereeuw‑Hautier J, Philip N, Levy N, Taieb A, Avril MF, Headon DJ, Gyapay G, Magnaldo T, Fraitag S, Crollius HR, Vabres P, Hohl D, Munnich A, Smahi A
Nat Med. 2017 Oct. 23(10):1226-1233.

Quaking RNA-Binding Proteins Control Early Myofibril Formation by Modulating Tropomyosin.
Bonnet A, Lambert G, Ernest S, Dutrieux FX, Coulpier F, Lemoine S, Lobbardi R, Rosa FM
Dev Cell. 2017 Sep 11. 42(5):527-541.e4.

Optical Control of Tumor Induction in the Zebrafish.
Feng Z, Nam S, Hamouri F, Aujard I, Ducos B, Vriz S, Volovitch M, Jullien L, Lin S, Weiss S, Bensimon D
Sci Rep. 2017 Aug 23. 7(1):9195.

Single molecule high-throughput footprinting of small and large DNA ligands.
Manosas M, Camunas‑Soler J, Croquette V, Ritort F
Nat Commun. 2017 Aug 21. 8(1):304.

Climate warming reduces gut microbiota diversity in a vertebrate ectotherm.
Bestion E, Jacob S, Zinger L, Di Gesu L, Richard M, White J, Cote J
Nat Ecol Evol. 2017 May 8. 1(6):161.

An RNAi Screen in a Novel Model of Oriented Divisions Identifies the Actin-Capping Protein Z β as an Essential Regulator of Spindle Orientation.
di Pietro F, Valon L, Li Y, Goïame R, Genovesio A, Morin X
Curr Biol. 2017 Aug 21. 27(16):2452-2464.e8.

Nerves, H2O2 and Shh : Three players in the game of regeneration.
Meda F, Rampon C, Dupont E, Gauron C, Mourton A, Queguiner I, Thauvin M, Volovitch M, Joliot A, Vriz S
Semin Cell Dev Biol. 2017 Aug 8.

A Method Based on Artificial Intelligence To Fully Automatize The Evaluation of Bovine Blastocyst Images.
Rocha JC, Passalia FJ, Matos FD, Takahashi MB, Ciniciato DS, Maserati MP, Alves MF, de Almeida TG, Cardoso BL, Basso AC, Nogueira MFG
Sci Rep. 2017 Aug 9. 7(1):7659.

Multi-scale tracking reveals scale-dependent chromatin dynamics after DNA damage.
Miné‑Hattab J, Recamier V, Izeddin I, Rothstein R, Darzacq X
Mol Biol Cell. 2017 Aug 9.

HEXIM1 Has Different Functions within Different RNA-Protein Complexes.
Bensaude O
Mol Cell. 2017 Aug 3. 67(3):357-359.

Nitrate Reductase Knockout Uncouples Nitrate Transport from Nitrate Assimilation and Drives Repartitioning of Carbon Flux in a Model Pennate Diatom.
McCarthy JK, Smith SR, McCrow JP, Tan M, Zheng H, Beeri K, Roth R, Lichtle C, Goodenough U, Bowler CP, Dupont CL, Allen AE
Plant Cell. 2017 Aug. 29(8):2047-2070.

Viral to metazoan marine plankton nucleotide sequences from the Tara Oceans expedition.
Alberti A, Poulain J, Engelen S, Labadie K, Romac S, Ferrera I, Albini G, Aury JM, Belser C, Bertrand A, Cruaud C, Da Silva C, Dossat C, Gavory F, Gas S, Guy J, Haquelle M, Jacoby E, Jaillon O, Lemainque A, Pelletier E, Samson G, Wessner M, Acinas SG, Royo‑Llonch M, Cornejo‑Castillo FM, Logares R, Fernández‑Gómez B, Bowler C, Cochrane G, Amid C, Hoopen PT, De Vargas C, Grimsley N, Desgranges E, Kandels‑Lewis S, Ogata H, Poulton N, Sieracki ME, Stepanauskas R, Sullivan MB, Brum JR, Duhaime MB, Poulos BT, Hurwitz BL, Pesant S, Karsenti E, Wincker P
Sci Data. 2017 Aug 1. 4:170093.

Krox20 hindbrain regulation incorporates multiple modes of cooperation between cis-acting elements.
Thierion E, Le Men J, Collombet S, Hernandez C, Coulpier F, Torbey P, Thomas‑Chollier M, Noordermeer D, Charnay P, Gilardi‑Hebenstreit P
PLoS Genet. 2017 Jul. 13(7):e1006903.

Heterogeneity of neuroblastoma cell identity defined by transcriptional circuitries.
Boeva V, Louis‑Brennetot C, Peltier A, Durand S, Pierre‑Eugène C, Raynal V, Etchevers HC, Thomas S, Lermine A, Daudigeos‑Dubus E, Geoerger B, Orth MF, Grünewald TGP, Diaz E, Ducos B, Surdez D, Carcaboso AM, Medvedeva I, Deller T, Combaret V, Lapouble E, Pierron G, Grossetête‑Lalami S, Baulande S, Schleiermacher G, Barillot E, Rohrer H, Delattre O, Janoueix‑Lerosey I
Nat Genet. 2017 Sep. 49(9):1408-1413.

An ecological and digital epidemiology analysis on the role of human behavior on the 2014 Chikungunya outbreak in Martinique.
Roche B, Gaillard B, Léger L, Pélagie‑Moutenda R, Sochacki T, Cazelles B, Ledrans M, Blateau A, Fontenille D, Etienne M, Simard F, Salathé M, Yébakima A
Sci Rep. 2017 Jul 20. 7(1):5967.

Induced-Pluripotent-Stem-Cell-Derived Primitive Macrophages Provide a Platform for Modeling Tissue-Resident Macrophage Differentiation and Function.
Takata K, Kozaki T, Lee CZW, Thion MS, Otsuka M, Lim S, Utami KH, Fidan K, Park DS, Malleret B, Chakarov S, See P, Low D, Low G, Garcia‑Miralles M, Zeng R, Zhang J, Goh CC, Gul A, Hubert S, Lee B, Chen J, Low I, Shadan NB, Lum J, Wei TS, Mok E, Kawanishi S, Kitamura Y, Larbi A, Poidinger M, Renia L, Ng LG, Wolf Y, Jung S, Önder T, Newell E, Huber T, Ashihara E, Garel S, Pouladi MA, Ginhoux F
Immunity. 2017 Jul 18. 47(1):183-198.e6.

The evolution of diatoms and their biogeochemical functions.
Benoiston AS, Ibarbalz FM, Bittner L, Guidi L, Jahn O, Dutkiewicz S, Bowler C
Philos Trans R Soc Lond B Biol Sci. 2017 Sep 5. 372(1728).

Genetics and Epigenetics of Mating Type Determination in Paramecium and Tetrahymena.
Orias E, Singh DP, Meyer E
Annu Rev Microbiol. 2017 Sep 8. 71:133-156.

Climate warming : a loss of variation in populations can accompany reproductive shifts.
Massot M, Legendre S, Fédérici P, Clobert J
Ecol Lett. 2017 Sep. 20(9):1140-1147.

Genetic identification of a hindbrain nucleus essential for innate vocalization.
Hernandez‑Miranda LR, Ruffault PL, Bouvier JC, Murray AJ, Morin‑Surun MP, Zampieri N, Cholewa‑Waclaw JB, Ey E, Brunet JF, Champagnat J, Fortin G, Birchmeier C
Proc Natl Acad Sci U S A. 2017 Jul 25. 114(30):8095-8100.

Interannual cycles of Hantaan virus outbreaks at the human-animal interface in Central China are controlled by temperature and rainfall.
Tian H, Yu P, Cazelles B, Xu L, Tan H, Yang J, Huang S, Xu B, Cai J, Ma C, Wei J, Li S, Qu J, Laine M, Wang J, Tong S, Stenseth NC, Xu B
Proc Natl Acad Sci U S A. 2017 Jul 25. 114(30):8041-8046.

Multipotent peripheral glial cells generate neuroendocrine cells of the adrenal medulla.
Furlan A, Dyachuk V, Kastriti ME, Calvo‑Enrique L, Abdo H, Hadjab S, Chontorotzea T, Akkuratova N, Usoskin D, Kamenev D, Petersen J, Sunadome K, Memic F, Marklund U, Fried K, Topilko P, Lallemend F, Kharchenko PV, Ernfors P, Adameyko I
Science. 2017 Jul 7. 357(6346).

Loss of the canonical spindle orientation function in the Pins/LGN homolog AGS3.
Saadaoui M, Konno D, Loulier K, Goiame R, Jadhav V, Mapelli M, Matsuzaki F, Morin X
EMBO Rep. 2017 Sep. 18(9):1509-1520.

Physico-Pathologic Mechanisms Involved in Neurodegeneration : Misfolded Protein-Plasma Membrane Interactions.
Shrivastava AN, Aperia A, Melki R, Triller A
Neuron. 2017 Jul 5. 95(1):33-50.

High precision detection of conserved segments from synteny blocks.
Lucas JM, Roest Crollius H
PLoS One. 2017. 12(7):e0180198.

Myosin 7 and its adaptors link cadherins to actin.
Yu IM, Planelles‑Herrero VJ, Sourigues Y, Moussaoui D, Sirkia H, Kikuti C, Stroebel D, Titus MA, Houdusse A
Nat Commun. 2017 Jun 29. 8:15864.

Toward Universal Forward Genetics : Using a Draft Genome Sequence of the Nematode Oscheius tipulae To Identify Mutations Affecting Vulva Development.
Besnard F, Koutsovoulos G, Dieudonné S, Blaxter M, Félix MA
Genetics. 2017 Aug. 206(4):1747-1761.

The Arabidopsis SWI/SNF protein BAF60 mediates seedling growth control by modulating DNA accessibility.
Jégu T, Veluchamy A, Ramirez‑Prado JS, Rizzi‑Paillet C, Perez M, Lhomme A, Latrasse D, Coleno E, Vicaire S, Legras S, Jost B, Rougée M, Barneche F, Bergounioux C, Crespi M, Mahfouz MM, Hirt H, Raynaud C, Benhamed M
Genome Biol. 2017 Jun 15. 18(1):114.

Cerebellar re-encoding of self-generated head movements.
Dugué GP, Tihy M, Gourévitch B, Léna C
Elife. 2017 Jun 13. 6.

Co-agonists differentially tune GluN2B-NMDA receptor trafficking at hippocampal synapses.
Ferreira JS, Papouin T, Ladépêche L, Yao A, Langlais VC, Bouchet D, Dulong J, Mothet JP, Sacchi S, Pollegioni L, Paoletti P, Oliet SHR, Groc L
Elife. 2017 Jun 9. 6.

Genetic Dissection of Morphometric Traits Reveals That Phytochrome B Affects Nucleus Size and Heterochromatin Organization in Arabidopsis thaliana.
Snoek BL, Pavlova P, Tessadori F, Peeters AJM, Bourbousse C, Barneche F, de Jong H, Fransz PF, van Zanten M
G3 (Bethesda). 2017 Aug 7. 7(8):2519-2531.

Experimental Evolution with Caenorhabditis Nematodes.
Teotónio H, Estes S, Phillips PC, Baer CF
Genetics. 2017 Jun. 206(2):691-716.

RSAT matrix-clustering : dynamic exploration and redundancy reduction of transcription factor binding motif collections.
Castro‑Mondragon JA, Jaeger S, Thieffry D, Thomas‑Chollier M, van Helden J
Nucleic Acids Res. 2017 Jul 27. 45(13):e119.

Differentiation of Inflammation-Responsive Astrocytes from Glial Progenitors Generated from Human Induced Pluripotent Stem Cells.
Santos R, Vadodaria KC, Jaeger BN, Mei A, Lefcochilos‑Fogelquist S, Mendes APD, Erikson G, Shokhirev M, Randolph‑Moore L, Fredlender C, Dave S, Oefner R, Fitzpatrick C, Pena M, Barron JJ, Ku M, Denli AM, Kerman BE, Charnay P, Kelsoe JR, Marchetto MC, Gage FH
Stem Cell Reports. 2017 Jun 6. 8(6):1757-1769.

An integrated calcium imaging processing toolbox for the analysis of neuronal population dynamics.
Romano SA, Pérez‑Schuster V, Jouary A, Boulanger‑Weill J, Candeo A, Pietri T, Sumbre G
PLoS Comput Biol. 2017 Jun. 13(6):e1005526.

Logical modeling of lymphoid and myeloid cell specification and transdifferentiation.
Collombet S, van Oevelen C, Sardina Ortega JL, Abou‑Jaoudé W, Di Stefano B, Thomas‑Chollier M, Graf T, Thieffry D
Proc Natl Acad Sci U S A. 2017 Jun 6. 114(23):5792-5799.

Functional Interactions between Newborn and Mature Neurons Leading to Integration into Established Neuronal Circuits.
Boulanger‑Weill J, Candat V, Jouary A, Romano SA, Pérez‑Schuster V, Sumbre G
Curr Biol. 2017 Jun 19. 27(12):1707-1720.e5.

Smooth 2D manifold extraction from 3D image stack.
Shihavuddin A, Basu S, Rexhepaj E, Delestro F, Menezes N, Sigoillot SM, Del Nery E, Selimi F, Spassky N, Genovesio A
Nat Commun. 2017 May 31. 8:15554.

Epithelial cell behaviours during neurosensory organ formation.
Kapsimali M
Development. 2017 Jun 1. 144(11):1926-1936.

Heterozygous Gnal Mice Are a Novel Animal Model with Which to Study Dystonia Pathophysiology.
Pelosi A, Menardy F, Popa D, Girault JA, Hervé D
J Neurosci. 2017 Jun 28. 37(26):6253-6267.

Neuroglobin Can Prevent or Reverse Glaucomatous Progression in DBA/2J Mice.
Cwerman‑Thibault H, Lechauve C, Augustin S, Roussel D, Reboussin É, Mohammad A, Degardin‑Chicaud J, Simonutti M, Liang H, Brignole‑Baudouin F, Maron A, Debeir T, Corral‑Debrinski M
Mol Ther Methods Clin Dev. 2017 Jun 16. 5:200-220.

Unreeling the chromatin thread : a genomic perspective on organization around the periphery of the Arabidopsis nucleus.
Barneche F, Baroux C
Genome Biol. 2017 May 23. 18(1):97.

Optocontrol of glutamate receptor activity by single side-chain photoisomerization.
Klippenstein V, Hoppmann C, Ye S, Wang L, Paoletti P
Elife. 2017 May 23. 6.

Evolutionary forces affecting synonymous variations in plant genomes.
Clément Y, Sarah G, Holtz Y, Homa F, Pointet S, Contreras S, Nabholz B, Sabot F, Sauné L, Ardisson M, Bacilieri R, Besnard G, Berger A, Cardi C, De Bellis F, Fouet O, Jourda C, Khadari B, Lanaud C, Leroy T, Pot D, Sauvage C, Scarcelli N, Tregear J, Vigouroux Y, Yahiaoui N, Ruiz M, Santoni S, Labouisse JP, Pham JL, David J, Glémin S
PLoS Genet. 2017 May. 13(5):e1006799.

Chimeric origins of ochrophytes and haptophytes revealed through an ancient plastid proteome.
Dorrell RG, Gile G, McCallum G, Méheust R, Bapteste EP, Klinger CM, Brillet‑Guéguen L, Freeman KD, Richter DJ, Bowler C
Elife. 2017 May 12. 6.

vConTACT : an iVirus tool to classify double-stranded DNA viruses that infect Archaea and Bacteria.
Bolduc B, Jang HB, Doulcier G, You ZQ, Roux S, Sullivan MB
PeerJ. 2017. 5:e3243.

The Natural Biotic Environment of Caenorhabditis elegans.
Schulenburg H, Félix MA
Genetics. 2017 May. 206(1):55-86.

The genealogical decomposition of a matrix population model with applications to the aggregation of stages.
Bienvenu F, Akçay E, Legendre S, McCandlish DM
Theor Popul Biol. 2017 Jun. 115:69-80.

A mechanistic study of helicases with magnetic traps.
Hodeib S, Raj S, Manosas M, Zhang W, Bagchi D, Ducos B, Fiorini F, Kanaan J, Le Hir H, Allemand JF, Bensimon D, Croquette V
Protein Sci. 2017 Jul. 26(7):1314-1336.

The Emergence of the Spatial Structure of Tectal Spontaneous Activity Is Independent of Visual Inputs.
Pietri T, Romano SA, Pérez‑Schuster V, Boulanger‑Weill J, Candat V, Sumbre G
Cell Rep. 2017 May 2. 19(5):939-948.

High-Resolution RNA Maps Suggest Common Principles of Splicing and Polyadenylation Regulation by TDP-43.
Rot G, Wang Z, Huppertz I, Modic M, Lenče T, Hallegger M, Haberman N, Curk T, von Mering C, Ule J
Cell Rep. 2017 May 2. 19(5):1056-1067.

Crop Fertilization Impacts Epidemics and Optimal Latent Period of Biotrophic Fungal Pathogens.
Précigout PA, Claessen D, Robert C
Phytopathology. 2017 Oct. 107(10):1256-1267.

Flow cytometry sorting of nuclei enables the first global characterization of Paramecium germline DNA and transposable elements.
Guérin F, Arnaiz O, Boggetto N, Denby Wilkes C, Meyer E, Sperling L, Duharcourt S
BMC Genomics. 2017 Apr 26. 18(1):327.

An aggregation-removal model for the formation and size determination of post-synaptic scaffold domains.
Ranft J, Almeida LG, Rodriguez PC, Triller A, Hakim V
PLoS Comput Biol. 2017 Apr. 13(4):e1005516.

Study of gene expression alteration in male androgenetic alopecia : evidence of predominant molecular signalling pathways.
Michel L, Reygagne P, Benech P, Jean‑Louis F, Scalvino S, Ly Ka So S, Hamidou Z, Bianovici S, Pouch J, Ducos B, Bonnet M, Bensussan A, Patatian A, Lati E, Wdzieczak‑Bakala J, Choulot JC, Loing E, Hocquaux M
Br J Dermatol. 2017 Nov. 177(5):1322-1336.

The development and functions of multiciliated epithelia.
Spassky N, Meunier A
Nat Rev Mol Cell Biol. 2017 Jul. 18(7):423-436.

Caenorhabditis elegans as a Model for Microbiome Research.
Zhang F, Berg M, Dierking K, Félix MA, Shapira M, Samuel BS, Schulenburg H
Front Microbiol. 2017. 8:485.

Translation in astrocyte distal processes sets molecular heterogeneity at the gliovascular interface.
Boulay AC, Saubaméa B, Adam N, Chasseigneaux S, Mazaré N, Gilbert A, Bahin M, Bastianelli L, Blugeon C, Perrin S, Pouch J, Ducos B, Le Crom S, Genovesio A, Chrétien F, Declèves X, Laplanche JL, Cohen‑Salmon M
Cell Discov. 2017. 3:17005.

Accelerated body size evolution during cold climatic periods in the Cenozoic.
Clavel J, Morlon H
Proc Natl Acad Sci U S A. 2017 Apr 18. 114(16):4183-4188.

Aozan : an automated post-sequencing data-processing pipeline.
Perrin S, Firmo C, Lemoine S, Le Crom S, Jourdren L
Bioinformatics. 2017 Jul 15. 33(14):2212-2213.

Clustering coefficient and periodic orbits in flow networks.
Rodríguez‑Méndez V, Ser‑Giacomi E, Hernández‑García E
Chaos. 2017 Mar. 27(3):035803.

Introduction to Focus Issue : Complex network perspectives on flow systems.
Donner RV, Hernández‑García E, Ser‑Giacomi E
Chaos. 2017 Mar. 27(3):035601.

On the evolutionary origins of equity.
Debove S, Baumard N, André JB
PLoS One. 2017. 12(3):e0173636.

Activity patterns of serotonin neurons underlying cognitive flexibility.
Matias S, Lottem E, Dugué GP, Mainen ZF
Elife. 2017 Mar 21. 6.

The retinoblastoma homolog RBR1 mediates localization of the repair protein RAD51 to DNA lesions in Arabidopsis.
Biedermann S, Harashima H, Chen P, Heese M, Bouyer D, Sofroni K, Schnittger A
EMBO J. 2017 May 2. 36(9):1279-1297.

Epigenetic memory and cell fate reprogramming in plants.
Birnbaum KD, Roudier F
Regeneration (Oxf). 2017 Feb. 4(1):15-20.

Mutations in the Spliceosome Component CWC27 Cause Retinal Degeneration with or without Additional Developmental Anomalies.
Xu M, Xie YA, Abouzeid H, Gordon CT, Fiorentino A, Sun Z, Lehman A, Osman IS, Dharmat R, Riveiro‑Alvarez R, Bapst‑Wicht L, Babino D, Arno G, Busetto V, Zhao L, Li H, Lopez‑Martinez MA, Azevedo LF, Hubert L, Pontikos N, Eblimit A, Lorda‑Sanchez I, Kheir V, Plagnol V, Oufadem M, Soens ZT, Yang L, Bole‑Feysot C, Pfundt R, Allaman‑Pillet N, Nitschké P, Cheetham ME, Lyonnet S, Agrawal SA, Li H, Pinton G, Michaelides M, Besmond C, Li Y, Yuan Z, von Lintig J, Webster AR, Le Hir H, Stoilov P, Amiel J, Hardcastle AJ, Ayuso C, Sui R, Chen R, Allikmets R, Schorderet DF
Am J Hum Genet. 2017 Apr 6. 100(4):592-604.

Modelling plankton ecosystems in the meta-omics era. Are we ready ?
Stec KF, Caputi L, Buttigieg PL, D’Alelio D, Ibarbalz FM, Sullivan MB, Chaffron S, Bowler C, Ribera d’Alcalà M, Iudicone D
Mar Genomics. 2017 Apr. 32:1-17.

Understanding bias in DNA repair.
Strick TR, Savery NJ
Proc Natl Acad Sci U S A. 2017 Mar 14. 114(11):2791-2793.

Structural Alteration of OmpR as a Source of Ertapenem Resistance in a CTX-M-15-Producing Escherichia coli O25b:H4 Sequence Type 131 Clinical Isolate.
Dupont H, Choinier P, Roche D, Adiba S, Sookdeb M, Branger C, Denamur E, Mammeri H
Antimicrob Agents Chemother. 2017 May. 61(5).

Utilization of interferometric light microscopy for the rapid analysis of virus abundance in a river.
Roose‑Amsaleg C, Fedala Y, Vénien‑Bryan C, Garnier J, Boccara AC, Boccara M
Res Microbiol. 2017 Jun. 168(5):413-418.

Molecular Mechanisms of Bipolar Disorder : Progress Made and Future Challenges.
Kim Y, Santos R, Gage FH, Marchetto MC
Front Cell Neurosci. 2017. 11:30.

Neurons derived from patients with bipolar disorder divide into intrinsically different sub-populations of neurons, predicting the patients’ responsiveness to lithium.
Stern S, Santos R, Marchetto MC, Mendes AP, Rouleau GA, Biesmans S, Wang QW, Yao J, Charnay P, Bang AG, Alda M, Gage FH
Mol Psychiatry. 2017 Feb 28.

Oxidation of F-actin controls the terminal steps of cytokinesis.
Frémont S, Hammich H, Bai J, Wioland H, Klinkert K, Rocancourt M, Kikuti C, Stroebel D, Romet‑Lemonne G, Pylypenko O, Houdusse A, Echard A
Nat Commun. 2017 Feb 23. 8:14528.

Recent progress in diatom genomics and epigenomics.
Tirichine L, Rastogi A, Bowler C
Curr Opin Plant Biol. 2017 Apr. 36:46-55.

Direct conversion of root primordium into shoot meristem relies on timing of stem cell niche development.
Rosspopoff O, Chelysheva L, Saffar J, Lecorgne L, Gey D, Caillieux E, Colot V, Roudier F, Hilson P, Berthomé R, Da Costa M, Rech P
Development. 2017 Apr 1. 144(7):1187-1200.

Visualization of Chromatin Decompaction and Break Site Extrusion as Predicted by Statistical Polymer Modeling of Single-Locus Trajectories.
Amitai A, Seeber A, Gasser SM, Holcman D
Cell Rep. 2017 Jan 31. 18(5):1200-1214.

A noninvasive optical approach for assessing chloride extrusion activity of the K-Cl cotransporter KCC2 in neuronal cells.
Ludwig A, Rivera C, Uvarov P
BMC Neurosci. 2017 Jan 31. 18(1):23.

The hypothalamic NPVF circuit modulates ventral raphe activity during nociception.
Madelaine R, Lovett‑Barron M, Halluin C, Andalman AS, Liang J, Skariah GM, Leung LC, Burns VM, Mourrain P
Sci Rep. 2017 Jan 31. 7:41528.

Differential Routing of Mindbomb1 via Centriolar Satellites Regulates Asymmetric Divisions of Neural Progenitors.
Tozer S, Baek C, Fischer E, Goiame R, Morin X
Neuron. 2017 Feb 8. 93(3):542-551.e4.

Insights into the design and interpretation of iCLIP experiments.
Haberman N, Huppertz I, Attig J, König J, Wang Z, Hauer C, Hentze MW, Kulozik AE, Le Hir H, Curk T, Sibley CR, Zarnack K, Ule J
Genome Biol. 2017 Jan 16. 18(1):7.

Evolutionary genomics of the cold-adapted diatom Fragilariopsis cylindrus.
Mock T, Otillar RP, Strauss J, McMullan M, Paajanen P, Schmutz J, Salamov A, Sanges R, Toseland A, Ward BJ, Allen AE, Dupont CL, Frickenhaus S, Maumus F, Veluchamy A, Wu T, Barry KW, Falciatore A, Ferrante MI, Fortunato AE, Glöckner G, Gruber A, Hipkin R, Janech MG, Kroth PG, Leese F, Lindquist EA, Lyon BR, Martin J, Mayer C, Parker M, Quesneville H, Raymond JA, Uhlig C, Valas RE, Valentin KU, Worden AZ, Armbrust EV, Clark MD, Bowler C, Green BR, Moulton V, van Oosterhout C, Grigoriev IV
Nature. 2017 Jan 26. 541(7638):536-540.

The crystal structure of the 5΄ functional domain of the transcription riboregulator 7SK.
Martinez‑Zapien D, Legrand P, McEwen AG, Proux F, Cragnolini T, Pasquali S, Dock‑Bregeon AC
Nucleic Acids Res. 2017 Apr 7. 45(6):3568-3579.

IGF-1 Induces GHRH Neuronal Axon Elongation during Early Postnatal Life in Mice.
Decourtye L, Mire E, Clemessy M, Heurtier V, Ledent T, Robinson IC, Mollard P, Epelbaum J, Meaney MJ, Garel S, Le Bouc Y, Kappeler L
PLoS One. 2017. 12(1):e0170083.

Histone degradation in response to DNA damage enhances chromatin dynamics and recombination rates.
Hauer MH, Seeber A, Singh V, Thierry R, Sack R, Amitai A, Kryzhanovska M, Eglinger J, Holcman D, Owen‑Hughes T, Gasser SM
Nat Struct Mol Biol. 2017 Feb. 24(2):99-107.

Early Commissural Diencephalic Neurons Control Habenular Axon Extension and Targeting.
Beretta CA, Dross N, Guglielmi L, Bankhead P, Soulika M, Gutierrez‑Triana JA, Paolini A, Poggi L, Falk J, Ryu S, Kapsimali M, Engel U, Carl M
Curr Biol. 2017 Jan 23. 27(2):270-278.

Proteomic analysis of the Rett syndrome experimental model mecp2Q63X mutant zebrafish.
Cortelazzo A, Pietri T, De Felice C, Leoncini S, Guerranti R, Signorini C, Timperio AM, Zolla L, Ciccoli L, Hayek J
J Proteomics. 2017 Feb 10. 154:128-133.

Preparation of DNA Substrates and Functionalized Glass Surfaces for Correlative Nanomanipulation and Colocalization (NanoCOSM) of Single Molecules.
Duboc C, Fan J, Graves ET, Strick TR
Methods Enzymol. 2017. 582:275-296.

Early born neurons are abnormally positioned in the doublecortin knockout hippocampus.
Khalaf‑Nazzal R, Stouffer MA, Olaso R, Muresan L, Roumegous A, Lavilla V, Carpentier W, Moutkine I, Dumont S, Albaud B, Cagnard N, Roest Crollius H, Francis F
Hum Mol Genet. 2017 Jan 1. 26(1):90-108.

A Unifying Comparative Phylogenetic Framework Including Traits Coevolving Across Interacting Lineages.
Manceau M, Lambert A, Morlon H
Syst Biol. 2017 Jul 1. 66(4):551-568.

Uncovering Higher-Taxon Diversification Dynamics from Clade Age and Species-Richness Data.
Sánchez‑Reyes LL, Morlon H, Magallón S
Syst Biol. 2017 May 1. 66(3):367-378.

Whole-GUV patch-clamping.
Garten M, Mosgaard LD, Bornschlögl T, Dieudonné S, Bassereau P, Toombes GE
Proc Natl Acad Sci U S A. 2017 Jan 10. 114(2):328-333.

Physiology : Mechanosensor of lung inflation identified.
Goridis C
Nature. 2017 Jan 12. 541(7636):165-166.

mTORC1 signaling and primary cilia are required for brain ventricle morphogenesis.
Foerster P, Daclin M, Asm S, Faucourt M, Boletta A, Genovesio A, Spassky N
Development. 2017 Jan 15. 144(2):201-210.

Heritable expansion of the genetic code in mouse and zebrafish.
Chen Y, Ma J, Lu W, Tian M, Thauvin M, Yuan C, Volovitch M, Wang Q, Holst J, Liu M, Vriz S, Ye S, Wang L, Li D
Cell Res. 2017 Feb. 27(2):294-297.

Strain-specific impact of the high-pathogenicity island on virulence in extra-intestinal pathogenic Escherichia coli.
Smati M, Magistro G, Adiba S, Wieser A, Picard B, Schubert S, Denamur E
Int J Med Microbiol. 2017 Jan. 307(1):44-56.

A Transcription Factor Pulse Can Prime Chromatin for Heritable Transcriptional Memory.
Iberg‑Badeaux A, Collombet S, Laurent B, van Oevelen C, Chin KK, Thieffry D, Graf T, Shi Y
Mol Cell Biol. 2017 Feb 15. 37(4).

Role of the chromatin landscape and sequence in determining cell type-specific genomic glucocorticoid receptor binding and gene regulation.
Love MI, Huska MR, Jurk M, Schöpflin R, Starick SR, Schwahn K, Cooper SB, Yamamoto KR, Thomas‑Chollier M, Vingron M, Meijsing SH
Nucleic Acids Res. 2017 Feb 28. 45(4):1805-1819.

Whole genome DNA methylation : beyond genes silencing.
Tirado‑Magallanes R, Rebbani K, Lim R, Pradhan S, Benoukraf T
Oncotarget. 2017 Jan 17. 8(3):5629-5637.

A new sequence data set of SSU rRNA gene for Scleractinia and its phylogenetic and ecological applications.
Arrigoni R, Vacherie B, Benzoni F, Stefani F, Karsenti E, Jaillon O, Not F, Nunes F, Payri C, Wincker P, Barbe V
Mol Ecol Resour. 2017 Sep. 17(5):1054-1071.

Decreased Anxiety-Related Behaviour but Apparently Unperturbed NUMB Function in Ligand of NUMB Protein-X (LNX) 1/2 Double Knockout Mice.
Lenihan JA, Saha O, Heimer‑McGinn V, Cryan JF, Feng G, Young PW
Mol Neurobiol. 2017 Dec. 54(10):8090-8109.

Progressive and Biased Divergent Evolution Underpins the Origin and Diversification of Peridinin Dinoflagellate Plastids.
Dorrell RG, Klinger CM, Newby RJ, Butterfield ER, Richardson E, Dacks JB, Howe CJ, Nisbet ER, Bowler C
Mol Biol Evol. 2017 Feb 1. 34(2):361-379.

Analysis of Small RNA Populations Using Hybridization to DNA Tiling Arrays.
Boccara M, Sarazin A, Billoud B, Bulski A, Chapell L, Baulcombe D, Colot V
Methods Mol Biol. 2017. 1456:127-139.

Sleep-Dependent Structural Synaptic Plasticity of Inhibitory Synapses in the Dendrites of Hypocretin/Orexin Neurons.
Elbaz I, Zada D, Tovin A, Braun T, Lerer‑Goldshtein T, Wang G, Mourrain P, Appelbaum L
Mol Neurobiol. 2017 Oct. 54(8):6581-6597.

BRD4 localization to lineage-specific enhancers is associated with a distinct transcription factor repertoire.
Najafova Z, Tirado‑Magallanes R, Subramaniam M, Hossan T, Schmidt G, Nagarajan S, Baumgart SJ, Mishra VK, Bedi U, Hesse E, Knapp S, Hawse JR, Johnsen SA
Nucleic Acids Res. 2017 Jan 9. 45(1):127-141.

GABAergic Microcircuits in Alzheimer’s Disease Models.
Villette V, Dutar P
Curr Alzheimer Res. 2017. 14(1):30-39.

Mammalian microRNAs and long noncoding RNAs in the host-bacterial pathogen crosstalk.
Duval M, Cossart P, Lebreton A
Semin Cell Dev Biol. 2017 May. 65:11-19.

Physiological adjustments and transcriptome reprogramming are involved in the acclimation to salinity gradients in diatoms.
Bussard A, Corre E, Hubas C, Duvernois‑Berthet E, Le Corguillé G, Jourdren L, Coulpier F, Claquin P, Lopez PJ
Environ Microbiol. 2017 Mar. 19(3):909-925.

RNA- and protein-mediated control of Listeria monocytogenes virulence gene expression.
Lebreton A, Cossart P
RNA Biol. 2017 May 4. 14(5):460-470.

Microglia control the glycinergic but not the GABAergic synapses via prostaglandin E2 in the spinal cord.
Cantaut‑Belarif Y, Antri M, Pizzarelli R, Colasse S, Vaccari I, Soares S, Renner M, Dallel R, Triller A, Bessis A
J Cell Biol. 2017 Sep 4. 216(9):2979-2989.

History of research on C. elegans and other free-living nematodes as model organisms.
Nigon VM, Félix MA
WormBook. 2017 Sep 7:1-84.



2016


2016

IRF5 governs liver macrophage activation that promotes hepatic fibrosis in mice and humans.
Alzaid F, Lagadec F, Albuquerque M, Ballaire R, Orliaguet L, Hainault I, Blugeon C, Lemoine S, Lehuen A, Saliba DG, Udalova IA, Paradis V, Foufelle F, Venteclef N
JCI Insight. 2016 Dec 8. 1(20):e88689.

A Large Collection of Novel Nematode-Infecting Microsporidia and Their Diverse Interactions with Caenorhabditis elegans and Other Related Nematodes.
Zhang G, Sachse M, Prevost MC, Luallen RJ, Troemel ER, Félix MA
PLoS Pathog. 2016 Dec. 12(12):e1006093.

Structure in the variability of the basic reproductive number (R0) for Zika epidemics in the Pacific islands.
Champagne C, Salthouse DG, Paul R, Cao‑Lormeau VM, Roche B, Cazelles B
Elife. 2016 Nov 29. 5.

1926-2016 : 90 Years of listeriology.
Lebreton A, Stavru F, Brisse S, Cossart P
Microbes Infect. 2016 Dec. 18(12):711-723.

Extreme Diversity of Diplonemid Eukaryotes in the Ocean.
Flegontova O, Flegontov P, Malviya S, Audic S, Wincker P, de Vargas C, Bowler C, Lukeš J, Horák A
Curr Biol. 2016 Nov 21. 26(22):3060-3065.

A radial map of multi-whisker correlation selectivity in the rat barrel cortex.
Estebanez L, Bertherat J, Shulz DE, Bourdieu L, Léger JF
Nat Commun. 2016 Nov 21. 7:13528.

Splicing repression allows the gradual emergence of new Alu-exons in primate evolution.
Attig J, Ruiz de Los Mozos I, Haberman N, Wang Z, Emmett W, Zarnack K, König J, Ule J
Elife. 2016 Nov 18. 5.

The sacral autonomic outflow is sympathetic.
Espinosa‑Medina I, Saha O, Boismoreau F, Chettouh Z, Rossi F, Richardson WD, Brunet JF
Science. 2016 Nov 18. 354(6314):893-897.

Solution structure of the 5’-terminal hairpin of the 7SK small nuclear RNA.
Bourbigot S, Dock‑Bregeon AC, Eberling P, Coutant J, Kieffer B, Lebars I
RNA. 2016 Dec. 22(12):1844-1858.

Actin Is Crucial for All Kinetically Distinguishable Forms of Endocytosis at Synapses.
Wu XS, Lee SH, Sheng J, Zhang Z, Zhao WD, Wang D, Jin Y, Charnay P, Ervasti JM, Wu LG
Neuron. 2016 Dec 7. 92(5):1020-1035.

Live Monitoring of Blastemal Cell Contributions during Appendage Regeneration.
Tornini VA, Puliafito A, Slota LA, Thompson JD, Nachtrab G, Kaushik AL, Kapsimali M, Primo L, Di Talia S, Poss KD
Curr Biol. 2016 Nov 21. 26(22):2981-2991.

The effects of archipelago spatial structure on island diversity and endemism : predictions from a spatially-structured neutral model.
Gascuel F, Laroche F, Bonnet‑Lebrun AS, Rodrigues AS
Evolution. 2016 Nov. 70(11):2657-2666.

An evolutionary conserved Hexim1 peptide binds to the Cdk9 catalytic site to inhibit P-TEFb.
Kobbi L, Demey‑Thomas E, Braye F, Proux F, Kolesnikova O, Vinh J, Poterszman A, Bensaude O
Proc Natl Acad Sci U S A. 2016 Oct 25.

Backtracked and paused transcription initiation intermediate of Escherichia coli RNA polymerase.
Lerner E, Chung S, Allen BL, Wang S, Lee J, Lu SW, Grimaud LW, Ingargiola A, Michalet X, Alhadid Y, Borukhov S, Strick TR, Taatjes DJ, Weiss S
Proc Natl Acad Sci U S A. 2016 Oct 25. 113(43):E6562-E6571.

Sub-synaptic, multiplexed analysis of proteins reveals Fragile X related protein 2 is mislocalized in Fmr1 KO synapses.
Wang GX, Smith SJ, Mourrain P
Elife. 2016 Oct 22. 5.

Wireless inertial measurement of head kinematics in freely-moving rats.
Pasquet MO, Tihy M, Gourgeon A, Pompili MN, Godsil BP, Léna C, Dugué GP
Sci Rep. 2016 Oct 21. 6:35689.

Mechanisms and functional roles of glutamatergic synapse diversity in a cerebellar circuit.
Zampini V, Liu JK, Diana MA, Maldonado PP, Brunel N, Dieudonné S
Elife. 2016 Sep 19. 5.

Sustained Rhythmic Brain Activity Underlies Visual Motion Perception in Zebrafish.
Pérez‑Schuster V, Kulkarni A, Nouvian M, Romano SA, Lygdas K, Jouary A, Dipoppa M, Pietri T, Haudrechy M, Candat V, Boulanger‑Weill J, Hakim V, Sumbre G
Cell Rep. 2016 Oct 18. 17(4):1098-1112.

Reallocation of Olfactory Cajal-Retzius Cells Shapes Neocortex Architecture.
de Frutos CA, Bouvier G, Arai Y, Thion MS, Lokmane L, Keita M, Garcia‑Dominguez M, Charnay P, Hirata T, Riethmacher D, Grove EA, Tissir F, Casado M, Pierani A, Garel S
Neuron. 2016 Oct 19. 92(2):435-448.

Single-molecule, antibody-free fluorescent visualisation of replication tracts along barcoded DNA molecules.
De Carli F, Gaggioli V, Millot GA, Hyrien O
Int J Dev Biol. 2016. 60(7-8-9):297-304.

Plant Transgenerational Epigenetics.
Quadrana L, Colot V
Annu Rev Genet. 2016 Nov 23. 50:467-491.

Into the Andes : multiple independent colonizations drive montane diversity in the Neotropical clearwing butterflies Godyridina.
Chazot N, Willmott KR, Condamine FL, De‑Silva DL, Freitas AV, Lamas G, Morlon H, Giraldo CE, Jiggins CD, Joron M, Mallet J, Uribe S, Elias M
Mol Ecol. 2016 Nov. 25(22):5765-5784.

Allosteric regulation in NMDA receptors revealed by the genetically encoded photo-cross-linkers.
Tian M, Ye S
Sci Rep. 2016 Oct 7. 6:34751.

Full-field interferometry for counting and differentiating aquatic biotic nanoparticles : from laboratory to Tara Oceans.
Boccara M, Fedala Y, Bryan CV, Bailly‑Bechet M, Bowler C, Boccara AC
Biomed Opt Express. 2016 Sep 1. 7(9):3736-3746.

A 2D virtual reality system for visual goal-driven navigation in zebrafish larvae.
Jouary A, Haudrechy M, Candelier R, Sumbre G
Sci Rep. 2016 Sep 23. 6:34015.

Ecogenomics and potential biogeochemical impacts of globally abundant ocean viruses.
Roux S, Brum JR, Dutilh BE, Sunagawa S, Duhaime MB, Loy A, Poulos BT, Solonenko N, Lara E, Poulain J, Pesant S, Kandels‑Lewis S, Dimier C, Picheral M, Searson S, Cruaud C, Alberti A, Duarte CM, Gasol JM, Vaqué D, Bork P, Acinas SG, Wincker P, Sullivan MB
Nature. 2016 Sep 29. 537(7622):689-693.

Transcriptional Regulation of Arabidopsis Polycomb Repressive Complex 2 Coordinates Cell-Type Proliferation and Differentiation.
de Lucas M, Pu L, Turco G, Gaudinier A, Morao AK, Harashima H, Kim D, Ron M, Sugimoto K, Roudier F, Brady SM
Plant Cell. 2016 Oct. 28(10):2616-2631.

How MCM loading and spreading specify eukaryotic DNA replication initiation sites.
Hyrien O
F1000Res. 2016. 5.

Early-life sexual segregation : ontogeny of isotopic niche differentiation in the Antarctic fur seal.
Kernaléguen L, Arnould JP, Guinet C, Cazelles B, Richard P, Cherel Y
Sci Rep. 2016 Sep 13. 6:33211.

Formal derivation of qualitative dynamical models from biochemical networks.
Abou‑Jaoudé W, Thieffry D, Feret J
Biosystems. 2016 Nov. 149:70-112.

Au-delà du cerveau - La huntingtine dans les cancers du sein.
Thion MS, Humbert S
Med Sci (Paris). 2016 8-9. 32(8-9):674-7.

Biased Allostery.
Edelstein SJ, Changeux JP
Biophys J. 2016 Sep 6. 111(5):902-8.

Qualitative Dynamical Modelling Can Formally Explain Mesoderm Specification and Predict Novel Developmental Phenotypes.
Mbodj A, Gustafson EH, Ciglar L, Junion G, Gonzalez A, Girardot C, Perrin L, Furlong EE, Thieffry D
PLoS Comput Biol. 2016 Sep. 12(9):e1005073.

Evolution of New cis-Regulatory Motifs Required for Cell-Specific Gene Expression in Caenorhabditis.
Barkoulas M, Vargas Velazquez AM, Peluffo AE, Félix MA
PLoS Genet. 2016 Sep. 12(9):e1006278.

Logical model specification aided by model-checking techniques : application to the mammalian cell cycle regulation.
Traynard P, Fauré A, Fages F, Thieffry D
Bioinformatics. 2016 Sep 1. 32(17):i772-i780.

Sequences flanking the core-binding site modulate glucocorticoid receptor structure and activity.
Schöne S, Jurk M, Helabad MB, Dror I, Lebars I, Kieffer B, Imhof P, Rohs R, Vingron M, Thomas‑Chollier M, Meijsing SH
Nat Commun. 2016 Sep 1. 7:12621.

Multiciliated Cells in Animals.
Meunier A, Azimzadeh J
Cold Spring Harb Perspect Biol. 2016 Dec 1. 8(12).

DNA DAMAGE BINDING PROTEIN 2 (DDB2) Shapes the DNA Methylation Landscape.
Schalk C, Drevensek S, Kramdi A, Kassam M, Ahmed I, Cognat V, Graindorge S, Bergdoll M, Baumberger N, Heintz D, Bowler C, Genschik P, Barneche F, Colot V, Molinier J
Plant Cell. 2016 Aug 16.

Emerging concepts in chromatin-level regulation of plant cell differentiation : timing, counting, sensing and maintaining.
Morao AK, Bouyer D, Roudier F
Curr Opin Plant Biol. 2016 Dec. 34:27-34.

Complex heterochrony underlies the evolution of Caenorhabditis elegans hermaphrodite sex allocation.
Poullet N, Vielle A, Gimond C, Carvalho S, Teotónio H, Braendle C
Evolution. 2016 Oct. 70(10):2357-2369.

Phospho-dependent Accumulation of GABABRs at Presynaptic Terminals after NMDAR Activation.
Hannan S, Gerrow K, Triller A, Smart TG
Cell Rep. 2016 Aug 16. 16(7):1962-73.

DNA Methylation and Demethylation in Plant Immunity.
Deleris A, Halter T, Navarro L
Annu Rev Phytopathol. 2016 Aug 4. 54:579-603.

A single-molecule view of transcription reveals convoys of RNA polymerases and multi-scale bursting.
Tantale K, Mueller F, Kozulic‑Pirher A, Lesne A, Victor JM, Robert MC, Capozi S, Chouaib R, Bäcker V, Mateos‑Langerak J, Darzacq X, Zimmer C, Basyuk E, Bertrand E
Nat Commun. 2016 Jul 27. 7:12248.

Deciphering and modifying LAFL transcriptional regulatory network in seed for improving yield and quality of storage compounds.
Fatihi A, Boulard C, Bouyer D, Baud S, Dubreucq B, Lepiniec L
Plant Sci. 2016 Sep. 250:198-204.

The Genetic Basis of Natural Variation in Caenorhabditis elegans Telomere Length.
Cook DE, Zdraljevic S, Tanny RE, Seo B, Riccardi DD, Noble LM, Rockman MV, Alkema MJ, Braendle C, Kammenga JE, Wang J, Kruglyak L, Félix MA, Lee J, Andersen EC
Genetics. 2016 Sep. 204(1):371-83.

Regulation of mitotic spindle orientation : an integrated view.
di Pietro F, Echard A, Morin X
EMBO Rep. 2016 Aug. 17(8):1106-30.

Molecular signatures of neural connectivity in the olfactory cortex.
Diodato A, Ruinart de Brimont M, Yim YS, Derian N, Perrin S, Pouch J, Klatzmann D, Garel S, Choi GB, Fleischmann A
Nat Commun. 2016 Jul 18. 7:12238.

SRGAP2 and Its Human-Specific Paralog Co-Regulate the Development of Excitatory and Inhibitory Synapses.
Fossati M, Pizzarelli R, Schmidt ER, Kupferman JV, Stroebel D, Polleux F, Charrier C
Neuron. 2016 Jul 20. 91(2):356-69.

PhytoCRISP-Ex : a web-based and stand-alone application to find specific target sequences for CRISPR/CAS editing.
Rastogi A, Murik O, Bowler C, Tirichine L
BMC Bioinformatics. 2016 Jul 1. 17(1):261.

Discovery of a Natural Microsporidian Pathogen with a Broad Tissue Tropism in Caenorhabditis elegans.
Luallen RJ, Reinke AW, Tong L, Botts MR, Félix MA, Troemel ER
PLoS Pathog. 2016 Jun. 12(6):e1005724.

Cyanobacterial ultrastructure in light of genomic sequence data.
Gonzalez‑Esquer CR, Smarda J, Rippka R, Axen SD, Guglielmi G, Gugger M, Kerfeld CA
Photosynth Res. 2016 Aug. 129(2):147-57.

Surface water areas significantly impacted 2014 dengue outbreaks in Guangzhou, China.
Tian H, Huang S, Zhou S, Bi P, Yang Z, Li X, Chen L, Cazelles B, Yang J, Luo L, Jing Q, Yuan W, Pei Y, Sun Z, Yue T, Kwan MP, Liu Q, Wang M, Tong S, Brownstein JS, Xu B
Environ Res. 2016 Oct. 150:299-305.

Counting numbers of synaptic proteins : absolute quantification and single molecule imaging techniques.
Patrizio A, Specht CG
Neurophotonics. 2016 Oct. 3(4):041805.

Caenorhabditis elegans responses to bacteria from its natural habitats.
Samuel BS, Rowedder H, Braendle C, Félix MA, Ruvkun G
Proc Natl Acad Sci U S A. 2016 Jul 5. 113(27):E3941-9.

Logical Modeling and Dynamical Analysis of Cellular Networks.
Abou‑Jaoudé W, Traynard P, Monteiro PT, Saez‑Rodriguez J, Helikar T, Thieffry D, Chaouiya C
Front Genet. 2016. 7:94.

Anchor cell signaling and vulval precursor cell positioning establish a reproducible spatial context during C. elegans vulval induction.
Grimbert S, Tietze K, Barkoulas M, Sternberg PW, Félix MA, Braendle C
Dev Biol. 2016 Aug 1. 416(1):123-135.

Altered zinc sensitivity of NMDA receptors harboring clinically-relevant mutations.
Serraz B, Grand T, Paoletti P
Neuropharmacology. 2016 Oct. 109:196-204.

The Arabidopsis thaliana mobilome and its impact at the species level.
Quadrana L, Bortolini Silveira A, Mayhew GF, LeBlanc C, Martienssen RA, Jeddeloh JA, Colot V
Elife. 2016 Jun 3. 5.

A Network of Paralogous Stress Response Transcription Factors in the Human Pathogen Candida glabrata.
Merhej J, Thiebaut A, Blugeon C, Pouch J, Ali Chaouche Mel A, Camadro JM, Le Crom S, Lelandais G, Devaux F
Front Microbiol. 2016. 7:645.

Estimating planktonic diversity through spatial dominance patterns in a model ocean.
Soccodato A, d’Ovidio F, Lévy M, Jahn O, Follows MJ, De Monte S
Mar Genomics. 2016 Oct. 29:9-17.

Analyzing In Vivo Cell Migration using Cell Transplantations and Time-lapse Imaging in Zebrafish Embryos.
Giger FA, Dumortier JG, David NB
J Vis Exp. 2016 Apr 29. (110).

The native microbiome of the nematode Caenorhabditis elegans : gateway to a new host-microbiome model.
Dirksen P, Marsh SA, Braker I, Heitland N, Wagner S, Nakad R, Mader S, Petersen C, Kowallik V, Rosenstiel P, Félix MA, Schulenburg H
BMC Biol. 2016 May 9. 14:38.

Hydrogen peroxide (H2O2) controls axon pathfinding during zebrafish development.
Gauron C, Meda F, Dupont E, Albadri S, Quenech’Du N, Ipendey E, Volovitch M, Del Bene F, Joliot A, Rampon C, Vriz S
Dev Biol. 2016 Jun 15. 414(2):133-41.

Histone Chaperone SSRP1 is Essential for Wnt Signaling Pathway Activity During Osteoblast Differentiation.
Hossan T, Nagarajan S, Baumgart SJ, Xie W, Magallanes RT, Hernandez C, Chiaroni PM, Indenbirken D, Spitzner M, Thomas‑Chollier M, Grade M, Thieffry D, Grundhoff A, Wegwitz F, Johnsen SA
Stem Cells. 2016 May. 34(5):1369-76.

Ostreococcus tauri is a new model green alga for studying iron metabolism in eukaryotic phytoplankton.
Lelandais G, Scheiber I, Paz‑Yepes J, Lozano JC, Botebol H, Pilátová J, Žárský V, Léger T, Blaiseau PL, Bowler C, Bouget FY, Camadro JM, Sutak R, Lesuisse E
BMC Genomics. 2016 May 3. 17:319.

Coopération entre mutation somatique et variant génétique de susceptibilité dans le sarcome d’Ewing.
Grünewald TG, Gilardi‑Hebenstreit P, Charnay P, Delattre O
Med Sci (Paris). 2016 Apr. 32(4):323-6.

Diversity in cell motility reveals the dynamic nature of the formation of zebrafish taste sensory organs.
Soulika M, Kaushik AL, Mathieu B, Lourenço R, Komisarczuk AZ, Romano SA, Jouary A, Lardennois A, Tissot N, Okada S, Abe K, Becker TS, Kapsimali M
Development. 2016 Jun 1. 143(11):2012-24.

Detection and tracking of overlapping cell nuclei for large scale mitosis analyses.
Li Y, Rose F, di Pietro F, Morin X, Genovesio A
BMC Bioinformatics. 2016 Apr 26. 17(1):183.

CDK1 Prevents Unscheduled PLK4-STIL Complex Assembly in Centriole Biogenesis.
Zitouni S, Francia ME, Leal F, Montenegro Gouveia S, Nabais C, Duarte P, Gilberto S, Brito D, Moyer T, Kandels‑Lewis S, Ohta M, Kitagawa D, Holland AJ, Karsenti E, Lorca T, Lince‑Faria M, Bettencourt‑Dias M
Curr Biol. 2016 May 9. 26(9):1127-37.

Burst-Dependent Bidirectional Plasticity in the Cerebellum Is Driven by Presynaptic NMDA Receptors.
Bouvier G, Higgins D, Spolidoro M, Carrel D, Mathieu B, Léna C, Dieudonné S, Barbour B, Brunel N, Casado M
Cell Rep. 2016 Apr 5. 15(1):104-16.

Erratum to : Understanding Brassicaceae evolution through ancestral genome reconstruction.
Murat F, Louis A, Maumus F, Armero A, Cook R, Quesneville H, Roest Crollius H, Salse J
Genome Biol. 2016 Apr 4. 17:64.

Simple calibration of TIR field depth using the supercoiling response of DNA.
Duboc C, Graves ET, Strick TR
Methods. 2016 Aug 1. 105:56-61.

Structural Fluctuations of the Chromatin Fiber within Topologically Associating Domains.
Tiana G, Amitai A, Pollex T, Piolot T, Holcman D, Heard E, Giorgetti L
Biophys J. 2016 Mar 29. 110(6):1234-45.

Identification and characterization of DNA sequences that prevent glucocorticoid receptor binding to nearby response elements.
Telorac J, Prykhozhij SV, Schöne S, Meierhofer D, Sauer S, Thomas‑Chollier M, Meijsing SH
Nucleic Acids Res. 2016 Jul 27. 44(13):6142-56.

Cyanobacterial symbionts diverged in the late Cretaceous towards lineage-specific nitrogen fixation factories in single-celled phytoplankton.
Cornejo‑Castillo FM, Cabello AM, Salazar G, Sánchez‑Baracaldo P, Lima‑Mendez G, Hingamp P, Alberti A, Sunagawa S, Bork P, de Vargas C, Raes J, Bowler C, Wincker P, Zehr JP, Gasol JM, Massana R, Acinas SG
Nat Commun. 2016 Mar 22. 7:11071.

C/EBPα creates elite cells for iPSC reprogramming by upregulating Klf4 and increasing the levels of Lsd1 and Brd4.
Di Stefano B, Collombet S, Jakobsen JS, Wierer M, Sardina JL, Lackner A, Stadhouders R, Segura‑Morales C, Francesconi M, Limone F, Mann M, Porse B, Thieffry D, Graf T
Nat Cell Biol. 2016 Apr. 18(4):371-81.

Estimating the Effect of Competition on Trait Evolution Using Maximum Likelihood Inference.
Drury J, Clavel J, Manceau M, Morlon H
Syst Biol. 2016 Jul. 65(4):700-10.

Data in support of the identification of neuronal and astrocyte proteins interacting with extracellularly applied oligomeric and fibrillar α-synuclein assemblies by mass spectrometry.
Shrivastava AN, Redeker V, Fritz N, Pieri L, Almeida LG, Spolidoro M, Liebmann T, Bousset L, Renner M, Léna C, Aperia A, Melki R, Triller A
Data Brief. 2016 Jun. 7:221-8.

Neurodegeneration, Neurogenesis, and Oxidative Stress 2015.
Santos R, Bulteau AL, Gomes CM
Oxid Med Cell Longev. 2016. 2016:7632025.

Diatom Phytochromes Reveal the Existence of Far-Red-Light-Based Sensing in the Ocean.
Fortunato AE, Jaubert M, Enomoto G, Bouly JP, Raniello R, Thaler M, Malviya S, Bernardes JS, Rappaport F, Gentili B, Huysman MJ, Carbone A, Bowler C, d’Alcalà MR, Ikeuchi M, Falciatore A
Plant Cell. 2016 Mar. 28(3):616-28.

Deciphering DNA replication dynamics in eukaryotic cell populations in relation with their averaged chromatin conformations.
Goldar A, Arneodo A, Audit B, Argoul F, Rappailles A, Guilbaud G, Petryk N, Kahli M, Hyrien O
Sci Rep. 2016 Mar 3. 6:22469.

Insights into global diatom distribution and diversity in the world’s ocean.
Malviya S, Scalco E, Audic S, Vincent F, Veluchamy A, Poulain J, Wincker P, Iudicone D, de Vargas C, Bittner L, Zingone A, Bowler C
Proc Natl Acad Sci U S A. 2016 Mar 15. 113(11):E1516-25.

Centriole continuity : out with the new, in with the old.
Meunier A, Spassky N
Curr Opin Cell Biol. 2016 Feb. 38:60-7.

Time-invariant feed-forward inhibition of Purkinje cells in the cerebellar cortex in vivo.
Blot A, de Solages C, Ostojic S, Szapiro G, Hakim V, Léna C
J Physiol. 2016 May 15. 594(10):2729-49.

A Novel Binding Mode Reveals Two Distinct Classes of NMDA Receptor GluN2B-selective Antagonists.
Stroebel D, Buhl DL, Knafels JD, Chanda PK, Green M, Sciabola S, Mony L, Paoletti P, Pandit J
Mol Pharmacol. 2016 May. 89(5):541-51.

Pathogens trigger top-down climate forcing on ecosystem dynamics.
Edeline E, Groth A, Cazelles B, Claessen D, Winfield IJ, Ohlberger J, Asbjørn Vøllestad L, Stenseth NC, Ghil M
Oecologia. 2016 Jun. 181(2):519-32.

Adaptation to Temporally Fluctuating Environments by the Evolution of Maternal Effects.
Dey S, Proulx SR, Teotónio H
PLoS Biol. 2016 Feb. 14(2):e1002388.

Metals and Neuronal Metal Binding Proteins Implicated in Alzheimer’s Disease.
Cristóvão JS, Santos R, Gomes CM
Oxid Med Cell Longev. 2016. 2016:9812178.

Positive Allosteric Modulators of GluN2A-Containing NMDARs with Distinct Modes of Action and Impacts on Circuit Function.
Hackos DH, Lupardus PJ, Grand T, Chen Y, Wang TM, Reynen P, Gustafson A, Wallweber HJ, Volgraf M, Sellers BD, Schwarz JB, Paoletti P, Sheng M, Zhou Q, Hanson JE
Neuron. 2016 Mar 2. 89(5):983-99.

Plankton networks driving carbon export in the oligotrophic ocean.
Guidi L, Chaffron S, Bittner L, Eveillard D, Larhlimi A, Roux S, Darzi Y, Audic S, Berline L, Brum J, Coelho LP, Espinoza JCI, Malviya S, Sunagawa S, Dimier C, Kandels‑Lewis S, Picheral M, Poulain J, Searson S, Stemmann L, Not F, Hingamp P, Speich S, Follows M, Karp‑Boss L, Boss E, Ogata H, Pesant S, Weissenbach J, Wincker P, Acinas SG, Bork P, de Vargas C, Iudicone D, Sullivan MB, Raes J, Karsenti E, Bowler C, Gorsky G
Nature. 2016 Apr 28. 532(7600):465-470.

A CURLY LEAF homologue controls both vegetative and reproductive development of tomato plants.
Boureau L, How‑Kit A, Teyssier E, Drevensek S, Rainieri M, Joubès J, Stammitti L, Pribat A, Bowler C, Hong Y, Gallusci P
Plant Mol Biol. 2016 Mar. 90(4-5):485-501.

The Role of Synaptopodin in Membrane Protein Diffusion in the Dendritic Spine Neck.
Wang L, Dumoulin A, Renner M, Triller A, Specht CG
PLoS One. 2016. 11(2):e0148310.

Replication landscape of the human genome.
Petryk N, Kahli M, d’Aubenton‑Carafa Y, Jaszczyszyn Y, Shen Y, Silvain M, Thermes C, Chen CL, Hyrien O
Nat Commun. 2016 Jan 11. 7:10208.

Small fluorescence-activating and absorption-shifting tag for tunable protein imaging in vivo.
Plamont MA, Billon‑Denis E, Maurin S, Gauron C, Pimenta FM, Specht CG, Shi J, Quérard J, Pan B, Rossignol J, Moncoq K, Morellet N, Volovitch M, Lescop E, Chen Y, Triller A, Vriz S, Le Saux T, Jullien L, Gautier A
Proc Natl Acad Sci U S A. 2016 Jan 19. 113(3):497-502.

Search for a small egg by spermatozoa in restricted geometries.
Yang J, Kupka I, Schuss Z, Holcman D
J Math Biol. 2016 Aug. 73(2):423-46.

Prss56, a novel marker of adult neurogenesis in the mouse brain.
Jourdon A, Gresset A, Spassky N, Charnay P, Topilko P, Santos R
Brain Struct Funct. 2016 Dec. 221(9):4411-4427.

Noncoding and coding transcriptome responses of a marine diatom to phosphate fluctuations.
Cruz de Carvalho MH, Sun HX, Bowler C, Chua NH
New Phytol. 2016 Apr. 210(2):497-510.

The exon junction complex as a node of post-transcriptional networks.
Le Hir H, Saulière J, Wang Z
Nat Rev Mol Cell Biol. 2016 Jan. 17(1):41-54.

Master regulators in primary skin fibroblast fate reprogramming in a human ex vivo model of chronic wounds.
Noizet M, Lagoutte E, Gratigny M, Bouschbacher M, Lazareth I, Roest Crollius H, Darzacq X, Dugast‑Darzacq C
Wound Repair Regen. 2016 Mar. 24(2):247-62.

A versatile Multisite Gateway-compatible promoter and transgenic line collection for cell type-specific functional genomics in Arabidopsis.
Marquès‑Bueno MDM, Morao AK, Cayrel A, Platre MP, Barberon M, Caillieux E, Colot V, Jaillais Y, Roudier F, Vert G
Plant J. 2016 Jan. 85(2):320-333.

Characterizing and Comparing Phylogenies from their Laplacian Spectrum.
Lewitus E, Morlon H
Syst Biol. 2016 May. 65(3):495-507.

Contribution of postsynaptic T-type calcium channels to parallel fibre-Purkinje cell synaptic responses.
Ly R, Bouvier G, Szapiro G, Prosser HM, Randall AD, Kano M, Sakimura K, Isope P, Barbour B, Feltz A
J Physiol. 2016 Feb 15. 594(4):915-36.

Computer-aided Therapeutics in Treating Autoimmune Encephalitis—Reply.
Joubert B, Paoletti P, Honnorat J
JAMA Neurol. 2016 Jan. 73(1):128.

Reverse transcriptase genes are highly abundant and transcriptionally active in marine plankton assemblages.
Lescot M, Hingamp P, Kojima KK, Villar E, Romac S, Veluchamy A, Boccara M, Jaillon O, Iudicone D, Bowler C, Wincker P, Claverie JM, Ogata H
ISME J. 2016 May. 10(5):1134-46.

Eco-evolutionary feedbacks between private and public goods : evidence from toxic algal blooms.
Driscoll WW, Hackett JD, Ferrière R
Ecol Lett. 2016 Jan. 19(1):81-97.

ChIPseq in Yeast Species : From Chromatin Immunoprecipitation to High-Throughput Sequencing and Bioinformatics Data Analyses.
Lelandais G, Blugeon C, Merhej J
Methods Mol Biol. 2016. 1361:185-202.

Siderophore production and the evolution of investment in a public good : An adaptive dynamics approach to kin selection.
Lee W, van Baalen M, Jansen VA
J Theor Biol. 2016 Jan 7. 388:61-71.

Nerves Control Redox Levels in Mature Tissues Through Schwann Cells and Hedgehog Signaling.
Meda F, Gauron C, Rampon C, Teillon J, Volovitch M, Vriz S
Antioxid Redox Signal. 2016 Feb 20. 24(6):299-311.

The Heterogeneity of Ly6Chi Monocytes Controls Their Differentiation into iNOS+ Macrophages or Monocyte-Derived Dendritic Cells.
Menezes S, Melandri D, Anselmi G, Perchet T, Loschko J, Dubrot J, Patel R, Gautier EL, Hugues S, Longhi MP, Henry JY, Quezada SA, Lauvau G, Lennon‑Duménil AM, Gutiérrez‑Martínez E, Bessis A, Gomez‑Perdiguero E, Jacome‑Galarza CE, Garner H, Geissmann F, Golub R, Nussenzweig MC, Guermonprez P
Immunity. 2016 Dec 20. 45(6):1205-1218.

Phenotypic Evolution With and Beyond Genome Evolution.
Félix MA
Curr Top Dev Biol. 2016. 119:291-347.

Up and down the slope : replication timing and fork directionality gradients in eukaryotic genomes
Hyrien O
The Initiation of DNA Replication in Eukaryotes, (Ed. D. Kaplan), Springer. 2016.



2015


2015

Methyl-CpG Binding Protein 2 (Mecp2) Regulates Sensory Function Through Sema5b and Robo2.
Leong WY, Lim ZH, Korzh V, Pietri T, Goh EL
Front Cell Neurosci. 2015. 9:481.

Bidirectional Control of Synaptic GABAAR Clustering by Glutamate and Calcium.
Bannai H, Niwa F, Sherwood MW, Shrivastava AN, Arizono M, Miyamoto A, Sugiura K, Lévi S, Triller A, Mikoshiba K
Cell Rep. 2015 Dec 29. 13(12):2768-80.

Quasi-planktonic behavior of foraging top marine predators.
Della Penna A, De Monte S, Kestenare E, Guinet C, d’Ovidio F
Sci Rep. 2015 Dec 15. 5:18063.

Impaired PRC2 activity promotes transcriptional instability and favors breast tumorigenesis.
Wassef M, Rodilla V, Teissandier A, Zeitouni B, Gruel N, Sadacca B, Irondelle M, Charruel M, Ducos B, Michaud A, Caron M, Marangoni E, Chavrier P, Le Tourneau C, Kamal M, Pasmant E, Vidaud M, Servant N, Reyal F, Meseure D, Vincent‑Salomon A, Fre S, Margueron R
Genes Dev. 2015 Dec 15. 29(24):2547-62.

The evolution of adhesiveness as a social adaptation.
Garcia T, Doulcier G, De Monte S
Elife. 2015 Nov 27. 4.

Presynaptic NMDA receptors : Roles and rules.
Bouvier G, Bidoret C, Casado M, Paoletti P
Neuroscience. 2015 Dec 17. 311:322-40.

Central role for ferritin in the day/night regulation of iron homeostasis in marine phytoplankton.
Botebol H, Lesuisse E, Šuták R, Six C, Lozano JC, Schatt P, Vergé V, Kirilovsky A, Morrissey J, Léger T, Camadro JM, Gueneugues A, Bowler C, Blain S, Bouget FY
Proc Natl Acad Sci U S A. 2015 Nov 24. 112(47):14652-7.

Predictive Spatiotemporal Manipulation of Signaling Perturbations Using Optogenetics.
Valon L, Etoc F, Remorino A, di Pietro F, Morin X, Dahan M, Coppey M
Biophys J. 2015 Nov 3. 109(9):1785-97.

Analysis and Interpretation of Superresolution Single-Particle Trajectories.
Holcman D, Hoze N, Schuss Z
Biophys J. 2015 Nov 3. 109(9):1761-71.

Plants Release Precursors of Histone Deacetylase Inhibitors to Suppress Growth of Competitors.
Venturelli S, Belz RG, Kämper A, Berger A, von Horn K, Wegner A, Böcker A, Zabulon G, Langenecker T, Kohlbacher O, Barneche F, Weigel D, Lauer UM, Bitzer M, Becker C
Plant Cell. 2015 Nov. 27(11):3175-89.

Why so many sperm cells ?
Reynaud K, Schuss Z, Rouach N, Holcman D
Commun Integr Biol. 2015 May-Jun. 8(3):e1017156.

Self-assembly and plasticity of synaptic domains through a reaction-diffusion mechanism.
Haselwandter CA, Kardar M, Triller A, da Silveira RA
Phys Rev E Stat Nonlin Soft Matter Phys. 2015 Sep. 92(3):032705.

The new nanophysiology : regulation of ionic flow in neuronal subcompartments.
Holcman D, Yuste R
Nat Rev Neurosci. 2015 Nov. 16(11):685-92.

Workshop report : Caenorhabditis nematodes as model organisms to study trait variation and its evolution.
Braendle C, Teotonio H
Worm. 2015 Apr-Jun. 4(2):e1021109.

FRET-Based Nanobiosensors for Imaging Intracellular Ca²⁺ and H⁺ Microdomains.
Zamaleeva AI, Despras G, Luccardini C, Collot M, de Waard M, Oheim M, Mallet JM, Feltz A
Sensors (Basel). 2015 Sep 23. 15(9):24662-80.

Ultrastructure and Membrane Traffic During Cell Division in the Marine Pennate Diatom Phaeodactylum tricornutum.
Tanaka A, De Martino A, Amato A, Montsant A, Mathieu B, Rostaing P, Tirichine L, Bowler C
Protist. 2015 Nov. 166(5):506-21.

How rods respond to single photons : Key adaptations of a G-protein cascade that enable vision at the physical limit of perception.
Reingruber J, Holcman D, Fain GL
Bioessays. 2015 Nov. 37(11):1243-52.

α-synuclein assemblies sequester neuronal α3-Na+/K+-ATPase and impair Na+ gradient.
Shrivastava AN, Redeker V, Fritz N, Pieri L, Almeida LG, Spolidoro M, Liebmann T, Bousset L, Renner M, Léna C, Aperia A, Melki R, Triller A
EMBO J. 2015 Oct 1. 34(19):2408-23.

Analysis of Single Locus Trajectories for Extracting In Vivo Chromatin Tethering Interactions.
Amitai A, Toulouze M, Dubrana K, Holcman D
PLoS Comput Biol. 2015 Aug. 11(8):e1004433.

Discovery of Drug Synergies in Gastric Cancer Cells Predicted by Logical Modeling.
Flobak Å, Baudot A, Remy E, Thommesen L, Thieffry D, Kuiper M, Lægreid A
PLoS Comput Biol. 2015 Aug. 11(8):e1004426.

Synaptic dynamics and neuronal network connectivity are reflected in the distribution of times in Up states.
Dao Duc K, Parutto P, Chen X, Epsztein J, Konnerth A, Holcman D
Front Comput Neurosci. 2015. 9:96.

Syncytial apoptosis signaling network induced by the HIV-1 envelope glycoprotein complex : an overview.
Nardacci R, Perfettini JL, Grieco L, Thieffry D, Kroemer G, Piacentini M
Cell Death Dis. 2015 Aug 6. 6:e1846.

Are the SSB-Interacting Proteins RecO, RecG, PriA and the DnaB-Interacting Protein Rep Bound to Progressing Replication Forks in Escherichia coli ?
Bentchikou E, Chagneau C, Long E, Matelot M, Allemand JF, Michel B
PLoS One. 2015. 10(8):e0134892.

Neuronal and microglial regulators of cortical wiring : usual and novel guideposts.
Squarzoni P, Thion MS, Garel S
Front Neurosci. 2015. 9:248.

C/EBPα Activates Pre-existing and De Novo Macrophage Enhancers during Induced Pre-B Cell Transdifferentiation and Myelopoiesis.
van Oevelen C, Collombet S, Vicent G, Hoogenkamp M, Lepoivre C, Badeaux A, Bussmann L, Sardina JL, Thieffry D, Beato M, Shi Y, Bonifer C, Graf T
Stem Cell Reports. 2015 Aug 11. 5(2):232-47.

Chimeric EWSR1-FLI1 regulates the Ewing sarcoma susceptibility gene EGR2 via a GGAA microsatellite.
Grünewald TG, Bernard V, Gilardi‑Hebenstreit P, Raynal V, Surdez D, Aynaud MM, Mirabeau O, Cidre‑Aranaz F, Tirode F, Zaidi S, Perot G, Jonker AH, Lucchesi C, Le Deley MC, Oberlin O, Marec‑Bérard P, Véron AS, Reynaud S, Lapouble E, Boeva V, Rio Frio T, Alonso J, Bhatia S, Pierron G, Cancel‑Tassin G, Cussenot O, Cox DG, Morton LM, Machiela MJ, Chanock SJ, Charnay P, Delattre O
Nat Genet. 2015 Sep. 47(9):1073-8.

Combined transcriptome studies identify AFF3 as a mediator of the oncogenic effects of β-catenin in adrenocortical carcinoma.
Lefèvre L, Omeiri H, Drougat L, Hantel C, Giraud M, Val P, Rodriguez S, Perlemoine K, Blugeon C, Beuschlein F, de Reyniès A, Rizk‑Rabin M, Bertherat J, Ragazzon B
Oncogenesis. 2015 Jul 27. 4:e161.

Boundary Caps Give Rise to Neurogenic Stem Cells and Terminal Glia in the Skin.
Gresset A, Coulpier F, Gerschenfeld G, Jourdon A, Matesic G, Richard L, Vallat JM, Charnay P, Topilko P
Stem Cell Reports. 2015 Aug 11. 5(2):278-90.

Marine microbial biodiversity, bioinformatics and biotechnology (M2B3) data reporting and service standards.
Ten Hoopen P, Pesant S, Kottmann R, Kopf A, Bicak M, Claus S, Deneudt K, Borremans C, Thijsse P, Dekeyzer S, Schaap DM, Bowler C, Glöckner FO, Cochrane G
Stand Genomic Sci. 2015. 10:20.

Multilayer and interconnected post-transcriptional and co-transcriptional control of plant NLRs.
Halter T, Navarro L
Curr Opin Plant Biol. 2015 Aug. 26:127-34.

Robust network oscillations during mammalian respiratory rhythm generation driven by synaptic dynamics.
Guerrier C, Hayes JA, Fortin G, Holcman D
Proc Natl Acad Sci U S A. 2015 Aug 4. 112(31):9728-33.

A microfluidic device to study neuronal and motor responses to acute chemical stimuli in zebrafish.
Candelier R, Murmu MS, Romano SA, Jouary A, Debrégeas G, Sumbre G
Sci Rep. 2015 Jul 21. 5:12196.

Atlas of Cancer Signalling Network : a systems biology resource for integrative analysis of cancer data with Google Maps.
Kuperstein I, Bonnet E, Nguyen HA, Cohen D, Viara E, Grieco L, Fourquet S, Calzone L, Russo C, Kondratova M, Dutreix M, Barillot E, Zinovyev A
Oncogenesis. 2015 Jul 20. 4:e160.

Pervasive robustness in biological systems.
Félix MA, Barkoulas M
Nat Rev Genet. 2015 Aug. 16(8):483-96.

Chromerid genomes reveal the evolutionary path from photosynthetic algae to obligate intracellular parasites.
Woo YH, Ansari H, Otto TD, Klinger CM, Kolisko M, Michálek J, Saxena A, Shanmugam D, Tayyrov A, Veluchamy A, Ali S, Bernal A, del Campo J, Cihlář J, Flegontov P, Gornik SG, Hajdušková E, Horák A, Janouškovec J, Katris NJ, Mast FD, Miranda‑Saavedra D, Mourier T, Naeem R, Nair M, Panigrahi AK, Rawlings ND, Padron‑Regalado E, Ramaprasad A, Samad N, Tomčala A, Wilkes J, Neafsey DE, Doerig C, Bowler C, Keeling PJ, Roos DS, Dacks JB, Templeton TJ, Waller RF, Lukeš J, Oborník M, Pain A
Elife. 2015 Jul 15. 4:e06974.

Energetic coupling between plastids and mitochondria drives CO2 assimilation in diatoms.
Bailleul B, Berne N, Murik O, Petroutsos D, Prihoda J, Tanaka A, Villanova V, Bligny R, Flori S, Falconet D, Krieger‑Liszkay A, Santabarbara S, Rappaport F, Joliot P, Tirichine L, Falkowski PG, Cardol P, Bowler C, Finazzi G
Nature. 2015 Aug 20. 524(7565):366-9.

Probing the target search of DNA-binding proteins in mammalian cells using TetR as model searcher.
Normanno D, Boudarène L, Dugast‑Darzacq C, Chen J, Richter C, Proux F, Bénichou O, Voituriez R, Darzacq X, Dahan M
Nat Commun. 2015 Jul 7. 6:7357.

Human Upf1 is a highly processive RNA helicase and translocase with RNP remodelling activities.
Fiorini F, Bagchi D, Le Hir H, Croquette V
Nat Commun. 2015 Jul 3. 6:7581.

Route to genetically targeted optical electrophysiology : development and applications of voltage-sensitive fluorescent proteins.
Akemann W, Song C, Mutoh H, Knöpfel T
Neurophotonics. 2015 Apr-Jun. 2(2).

Open science resources for the discovery and analysis of Tara Oceans data.
Pesant S, Not F, Picheral M, Kandels‑Lewis S, Le Bescot N, Gorsky G, Iudicone D, Karsenti E, Speich S, Troublé R, Dimier C, Searson S
Sci Data. 2015. 2:150023.

Bursting reverberation as a multiscale neuronal network process driven by synaptic depression-facilitation.
Dao Duc K, Lee CY, Parutto P, Cohen D, Segal M, Rouach N, Holcman D
PLoS One. 2015. 10(5):e0124694.

Ocean plankton. Determinants of community structure in the global plankton interactome.
Lima‑Mendez G, Faust K, Henry N, Decelle J, Colin S, Carcillo F, Chaffron S, Ignacio‑Espinosa JC, Roux S, Vincent F, Bittner L, Darzi Y, Wang J, Audic S, Berline L, Bontempi G, Cabello AM, Coppola L, Cornejo‑Castillo FM, d’Ovidio F, De Meester L, Ferrera I, Garet‑Delmas MJ, Guidi L, Lara E, Pesant S, Royo‑Llonch M, Salazar G, Sánchez P, Sebastian M, Souffreau C, Dimier C, Picheral M, Searson S, Kandels‑Lewis S, Gorsky G, Not F, Ogata H, Speich S, Stemmann L, Weissenbach J, Wincker P, Acinas SG, Sunagawa S, Bork P, Sullivan MB, Karsenti E, Bowler C, de Vargas C, Raes J
Science. 2015 May 22. 348(6237):1262073.

Ocean plankton. Eukaryotic plankton diversity in the sunlit ocean.
de Vargas C, Audic S, Henry N, Decelle J, Mahé F, Logares R, Lara E, Berney C, Le Bescot N, Probert I, Carmichael M, Poulain J, Romac S, Colin S, Aury JM, Bittner L, Chaffron S, Dunthorn M, Engelen S, Flegontova O, Guidi L, Horák A, Jaillon O, Lima‑Mendez G, Lukeš J, Malviya S, Morard R, Mulot M, Scalco E, Siano R, Vincent F, Zingone A, Dimier C, Picheral M, Searson S, Kandels‑Lewis S, Acinas SG, Bork P, Bowler C, Gorsky G, Grimsley N, Hingamp P, Iudicone D, Not F, Ogata H, Pesant S, Raes J, Sieracki ME, Speich S, Stemmann L, Sunagawa S, Weissenbach J, Wincker P, Karsenti E
Science. 2015 May 22. 348(6237):1261605.

Ocean plankton. Patterns and ecological drivers of ocean viral communities.
Brum JR, Ignacio‑Espinoza JC, Roux S, Doulcier G, Acinas SG, Alberti A, Chaffron S, Cruaud C, de Vargas C, Gasol JM, Gorsky G, Gregory AC, Guidi L, Hingamp P, Iudicone D, Not F, Ogata H, Pesant S, Poulos BT, Schwenck SM, Speich S, Dimier C, Kandels‑Lewis S, Picheral M, Searson S, Bork P, Bowler C, Sunagawa S, Wincker P, Karsenti E, Sullivan MB
Science. 2015 May 22. 348(6237):1261498.

Ocean plankton. Environmental characteristics of Agulhas rings affect interocean plankton transport.
Villar E, Farrant GK, Follows M, Garczarek L, Speich S, Audic S, Bittner L, Blanke B, Brum JR, Brunet C, Casotti R, Chase A, Dolan JR, d’Ortenzio F, Gattuso JP, Grima N, Guidi L, Hill CN, Jahn O, Jamet JL, Le Goff H, Lepoivre C, Malviya S, Pelletier E, Romagnan JB, Roux S, Santini S, Scalco E, Schwenck SM, Tanaka A, Testor P, Vannier T, Vincent F, Zingone A, Dimier C, Picheral M, Searson S, Kandels‑Lewis S, Acinas SG, Bork P, Boss E, de Vargas C, Gorsky G, Ogata H, Pesant S, Sullivan MB, Sunagawa S, Wincker P, Karsenti E, Bowler C, Not F, Hingamp P, Iudicone D
Science. 2015 May 22. 348(6237):1261447.

Ocean plankton. Structure and function of the global ocean microbiome.
Sunagawa S, Coelho LP, Chaffron S, Kultima JR, Labadie K, Salazar G, Djahanschiri B, Zeller G, Mende DR, Alberti A, Cornejo‑Castillo FM, Costea PI, Cruaud C, d’Ovidio F, Engelen S, Ferrera I, Gasol JM, Guidi L, Hildebrand F, Kokoszka F, Lepoivre C, Lima‑Mendez G, Poulain J, Poulos BT, Royo‑Llonch M, Sarmento H, Vieira‑Silva S, Dimier C, Picheral M, Searson S, Kandels‑Lewis S, Bowler C, de Vargas C, Gorsky G, Grimsley N, Hingamp P, Iudicone D, Jaillon O, Not F, Ogata H, Pesant S, Speich S, Stemmann L, Sullivan MB, Weissenbach J, Wincker P, Karsenti E, Raes J, Acinas SG, Bork P
Science. 2015 May 22. 348(6237):1261359.

Tara Oceans. Tara Oceans studies plankton at planetary scale. Introduction.
Bork P, Bowler C, de Vargas C, Gorsky G, Karsenti E, Wincker P
Science. 2015 May 22. 348(6237):873.

Computational eco-systems biology in Tara Oceans : translating data into knowledge.
Sunagawa S, Karsenti E, Bowler C, Bork P
Mol Syst Biol. 2015 May 21. 11(5):809.

A new approach to the generation time in matrix population models.
Bienvenu F, Legendre S
Am Nat. 2015 Jun. 185(6):834-43.

An integrative analysis of post-translational histone modifications in the marine diatom Phaeodactylum tricornutum.
Veluchamy A, Rastogi A, Lin X, Lombard B, Murik O, Thomas Y, Dingli F, Rivarola M, Ott S, Liu X, Sun Y, Rabinowicz PD, McCarthy J, Allen AE, Loew D, Bowler C, Tirichine L
Genome Biol. 2015 May 20. 16:102.

Partner choice creates fairness in humans.
Debove S, André JB, Baumard N
Proc Biol Sci. 2015 Jun 7. 282(1808):20150392.

A novel inhibitory nucleo-cortical circuit controls cerebellar Golgi cell activity.
Ankri L, Husson Z, Pietrajtis K, Proville R, Léna C, Yarom Y, Dieudonné S, Uusisaari MY
Elife. 2015 May 12. 4.

Light signaling controls nuclear architecture reorganization during seedling establishment.
Bourbousse C, Mestiri I, Zabulon G, Bourge M, Formiggini F, Koini MA, Brown SC, Fransz P, Bowler C, Barneche F
Proc Natl Acad Sci U S A. 2015 May 26. 112(21):E2836-44.

Potentiel thérapeutique de la neuromodulation optogénétique.
Vandecasteele M, Senova YS, Palfi S, Dugué GP
Med Sci (Paris). 2015 Apr. 31(4):404-16.

Les approches écologiques et évolutives incontournables pour mieux comprendre les épidémies de grippe aviaire.
Cazelles B, Tian H, Roche B
Med Sci (Paris). 2015 Apr. 31(4):372-3.

Neuronal morphology generates high-frequency firing resonance.
Ostojic S, Szapiro G, Schwartz E, Barbour B, Brunel N, Hakim V
J Neurosci. 2015 May 6. 35(18):7056-68.

Zeb family members and boundary cap cells underlie developmental plasticity of sensory nociceptive neurons.
Ohayon D, Ventéo S, Sonrier C, Lafon PA, Garcès A, Valmier J, Rivat C, Topilko P, Carroll P, Pattyn A
Dev Cell. 2015 May 4. 33(3):343-50.

Control of brain patterning by Engrailed paracrine transfer : a new function of the Pbx interaction domain.
Rampon C, Gauron C, Lin T, Meda F, Dupont E, Cosson A, Ipendey E, Frerot A, Aujard I, Le Saux T, Bensimon D, Jullien L, Volovitch M, Vriz S, Joliot A
Development. 2015 May 15. 142(10):1840-9.

Out-of-focus background subtraction for fast structured illumination super-resolution microscopy of optically thick samples.
Vermeulen P, Zhan H, Orieux F, Olivo‑Marin JC, Lenkei Z, Loriette V, Fragola A
J Microsc. 2015 Sep. 259(3):257-68.

Long-range evolutionary constraints reveal cis-regulatory interactions on the human X chromosome.
Naville M, Ishibashi M, Ferg M, Bengani H, Rinkwitz S, Krecsmarik M, Hawkins TA, Wilson SW, Manning E, Chilamakuri CS, Wilson DI, Louis A, Lucy Raymond F, Rastegar S, Strähle U, Lenhard B, Bally‑Cuif L, van Heyningen V, FitzPatrick DR, Becker TS, Roest Crollius H
Nat Commun. 2015 Apr 24. 6:6904.

RSAT 2015 : Regulatory Sequence Analysis Tools.
Medina‑Rivera A, Defrance M, Sand O, Herrmann C, Castro‑Mondragon JA, Delerce J, Jaeger S, Blanchet C, Vincens P, Caron C, Staines DM, Contreras‑Moreira B, Artufel M, Charbonnier‑Khamvongsa L, Hernandez C, Thieffry D, Thomas‑Chollier M, van Helden J
Nucleic Acids Res. 2015 Jul 1. 43(W1):W50-6.

Inferring epigenetic dynamics from kin correlations.
Hormoz S, Desprat N, Shraiman BI
Proc Natl Acad Sci U S A. 2015 May 5. 112(18):E2281-9.

Genome-wide negative feedback drives transgenerational DNA methylation dynamics in Arabidopsis.
Ito T, Tarutani Y, To TK, Kassam M, Duvernois‑Berthet E, Cortijo S, Takashima K, Saze H, Toyoda A, Fujiyama A, Colot V, Kakutani T
PLoS Genet. 2015 Apr. 11(4):e1005154.

Radixin regulates synaptic GABAA receptor density and is essential for reversal learning and short-term memory.
Hausrat TJ, Muhia M, Gerrow K, Thomas P, Hirdes W, Tsukita S, Heisler FF, Herich L, Dubroqua S, Breiden P, Feldon J, Schwarz JR, Yee BK, Smart TG, Triller A, Kneussel M
Nat Commun. 2015 Apr 20. 6:6872.

Subrepellent doses of Slit1 promote Netrin-1 chemotactic responses in subsets of axons.
Dupin I, Lokmane L, Dahan M, Garel S, Studer V
Neural Dev. 2015 Mar 20. 10:5.

Functional characterization of the diatom cyclin-dependent kinase A2 as a mitotic regulator reveals plant-like properties in a non-green lineage.
Huysman MJ, Tanaka A, Bowler C, Vyverman W, De Veylder L
BMC Plant Biol. 2015 Mar 14. 15:86.

Origin and diversification of living cycads : a cautionary tale on the impact of the branching process prior in Bayesian molecular dating.
Condamine FL, Nagalingum NS, Marshall CR, Morlon H
BMC Evol Biol. 2015 Apr 17. 15:65.

Trophic groups and modules : two levels of group detection in food webs.
Gauzens B, Thébault E, Lacroix G, Legendre S
J R Soc Interface. 2015 May 6. 12(106).

The retrotrapezoid nucleus neurons expressing Atoh1 and Phox2b are essential for the respiratory response to CO₂.
Ruffault PL, D’Autréaux F, Hayes JA, Nomaksteinsky M, Autran S, Fujiyama T, Hoshino M, Hägglund M, Kiehn O, Brunet JF, Fortin G, Goridis C
Elife. 2015 Apr 13. 4.

Intermolecular recognition of the non-coding RNA 7SK and HEXIM protein in perspective.
Martinez‑Zapien D, Saliou JM, Han X, Atmanene C, Proux F, Cianférani S, Dock‑Bregeon AC
Biochimie. 2015 Oct. 117:63-71.

Principes et applications de l’optogénétique en neuroscience.
Dugué GP, Tricoire L
Med Sci (Paris). 2015 Mar. 31(3):291-303.

Amplification des centrioles - Quand le centriole fils du centrosome prend le contrôle.
Al Jord A, Spassky N, Meunier A
Med Sci (Paris). 2015 Mar. 31(3):250-3.

When everything is not everywhere but species evolve : an alternative method to model adaptive properties of marine ecosystems.
Sauterey B, Ward BA, Follows MJ, Bowler C, Claessen D
J Plankton Res. 2015 Jan. 37(1):28-47.

Ependymal cell differentiation, from monociliated to multiciliated cells.
Delgehyr N, Meunier A, Faucourt M, Bosch Grau M, Strehl L, Janke C, Spassky N
Methods Cell Biol. 2015. 127:19-35.

The neuroglial potassium cycle during neurotransmission : role of Kir4.1 channels.
Sibille J, Dao Duc K, Holcman D, Rouach N
PLoS Comput Biol. 2015 Mar. 11(3):e1004137.

CaRuby-Nano : a novel high affinity calcium probe for dual color imaging.
Collot M, Wilms CD, Bentkhayet A, Marcaggi P, Couchman K, Charpak S, Dieudonné S, Häusser M, Feltz A, Mallet JM
Elife. 2015 Mar 31. 4.

Changes in rodent abundance and weather conditions potentially drive hemorrhagic fever with renal syndrome outbreaks in Xi’an, China, 2005-2012.
Tian HY, Yu PB, Luis AD, Bi P, Cazelles B, Laine M, Huang SQ, Ma CF, Zhou S, Wei J, Li S, Lu XL, Qu JH, Dong JH, Tong SL, Wang JJ, Grenfell B, Xu B
PLoS Negl Trop Dis. 2015 Mar. 9(3):e0003530.

CLIP-seq to discover transcriptome-wide imprinting of RNA binding proteins in living cells.
Saulière J, Le Hir H
Methods Mol Biol. 2015. 1296:151-60.

Effect of dopaminergic D1 receptors on plasticity is dependent of serotoninergic 5-HT1A receptors in L5-pyramidal neurons of the prefrontal cortex.
Meunier CN, Callebert J, Cancela JM, Fossier P
PLoS One. 2015. 10(3):e0120286.

How Ecology and Landscape Dynamics Shape Phylogenetic Trees.
Gascuel F, Ferrière R, Aguilée R, Lambert A
Syst Biol. 2015 Jul. 64(4):590-607.

How environmental conditions impact mosquito ecology and Japanese encephalitis : an eco-epidemiological approach.
Tian HY, Bi P, Cazelles B, Zhou S, Huang SQ, Yang J, Pei Y, Wu XX, Fu SH, Tong SL, Wang HY, Xu B
Environ Int. 2015 Jun. 79:17-24.

Bistability in a metabolic network underpins the de novo evolution of colony switching in Pseudomonas fluorescens.
Gallie J, Libby E, Bertels F, Remigi P, Jendresen CB, Ferguson GC, Desprat N, Buffing MF, Sauer U, Beaumont HJ, Martinussen J, Kilstrup M, Rainey PB
PLoS Biol. 2015 Mar. 13(3):e1002109.

Immune quiescence of the brain is set by astroglial connexin 43.
Boulay AC, Mazeraud A, Cisternino S, Saubaméa B, Mailly P, Jourdren L, Blugeon C, Mignon V, Smirnova M, Cavallo A, Ezan P, Avé P, Dingli F, Loew D, Vieira P, Chrétien F, Cohen‑Salmon M
J Neurosci. 2015 Mar 11. 35(10):4427-39.

Structural insight into the mechanism of stabilization of the 7SK small nuclear RNA by LARP7.
Uchikawa E, Natchiar KS, Han X, Proux F, Roblin P, Zhang E, Durand A, Klaholz BP, Dock‑Bregeon AC
Nucleic Acids Res. 2015 Mar 31. 43(6):3373-88.

Properties and molecular identity of NMDA receptors at synaptic and non-synaptic inputs in cerebellar molecular layer interneurons.
Bidoret C, Bouvier G, Ayon A, Szapiro G, Casado M
Front Synaptic Neurosci. 2015. 7:1.

Control of Plasma Membrane Permeability by ABC Transporters.
Khakhina S, Johnson SS, Manoharlal R, Russo SB, Blugeon C, Lemoine S, Sunshine AB, Dunham MJ, Cowart LA, Devaux F, Moye‑Rowley WS
Eukaryot Cell. 2015 May. 14(5):442-53.

The Susd2 protein regulates neurite growth and excitatory synaptic density in hippocampal cultures.
Nadjar Y, Triller A, Bessereau JL, Dumoulin A
Mol Cell Neurosci. 2015 Mar. 65:82-91.

ChIP-exo signal associated with DNA-binding motifs provides insight into the genomic binding of the glucocorticoid receptor and cooperating transcription factors.
Starick SR, Ibn‑Salem J, Jurk M, Hernandez C, Love MI, Chung HR, Vingron M, Thomas‑Chollier M, Meijsing SH
Genome Res. 2015 Jun. 25(6):825-35.

Phylogenies support out-of-equilibrium models of biodiversity.
Manceau M, Lambert A, Morlon H
Ecol Lett. 2015 Apr. 18(4):347-56.

The TORC2 component, Sin1, controls migration of anterior mesendoderm during zebrafish gastrulation.
Dumortier JG, David NB
PLoS One. 2015. 10(2):e0118474.

A subcortical inhibitory signal for behavioral arrest in the thalamus.
Giber K, Diana MA, Plattner V, Dugué GP, Bokor H, Rousseau CV, Maglóczky Z, Havas L, Hangya B, Wildner H, Zeilhofer HU, Dieudonné S, Acsády L
Nat Neurosci. 2015 Apr. 18(4):562-568.

Spontaneous neuronal network dynamics reveal circuit’s functional adaptations for behavior.
Romano SA, Pietri T, Pérez‑Schuster V, Jouary A, Haudrechy M, Sumbre G
Neuron. 2015 Mar 4. 85(5):1070-85.

The Sarcoglycan complex is expressed in the cerebrovascular system and is specifically regulated by astroglial Cx30 channels.
Boulay AC, Saubaméa B, Cisternino S, Mignon V, Mazeraud A, Jourdren L, Blugeon C, Cohen‑Salmon M
Front Cell Neurosci. 2015. 9:9.

The shortest path is not the one you know : application of biological network resources in precision oncology research.
Kuperstein I, Grieco L, Cohen DP, Thieffry D, Zinovyev A, Barillot E
Mutagenesis. 2015 Mar. 30(2):191-204.

Contingency in the evolutionary emergence of reciprocal cooperation.
André JB
Am Nat. 2015 Mar. 185(3):303-16.

Epigenetic basis of morphological variation and phenotypic plasticity in Arabidopsis thaliana.
Kooke R, Johannes F, Wardenaar R, Becker F, Etcheverry M, Colot V, Vreugdenhil D, Keurentjes JJ
Plant Cell. 2015 Feb. 27(2):337-48.

Oil accumulation by the oleaginous diatom Fistulifera solaris as revealed by the genome and transcriptome.
Tanaka T, Maeda Y, Veluchamy A, Tanaka M, Abida H, Maréchal E, Bowler C, Muto M, Sunaga Y, Tanaka M, Yoshino T, Taniguchi T, Fukuda Y, Nemoto M, Matsumoto M, Wong PS, Aburatani S, Fujibuchi W
Plant Cell. 2015 Jan. 27(1):162-76.

Cooperative development of logical modelling standards and tools with CoLoMoTo.
Naldi A, Monteiro PT, Müssel C, Kestler HA, Thieffry D, Xenarios I, Saez‑Rodriguez J, Helikar T, Chaouiya C
Bioinformatics. 2015 Apr 1. 31(7):1154-9.

Editorial overview : neurosciences : targeting glutamatergic signaling in CNS diseases : new hopes ?
Paoletti P, Pin JP
Curr Opin Pharmacol. 2015 Feb. 20:iv-vi.

Peaks cloaked in the mist : the landscape of mammalian replication origins.
Hyrien O
J Cell Biol. 2015 Jan 19. 208(2):147-60.

Primary and secondary siRNA synthesis triggered by RNAs from food bacteria in the ciliate Paramecium tetraurelia.
Carradec Q, Götz U, Arnaiz O, Pouch J, Simon M, Meyer E, Marker S
Nucleic Acids Res. 2015 Feb 18. 43(3):1818-33.

A novel protein, ubiquitous in marine phytoplankton, concentrates iron at the cell surface and facilitates uptake.
Morrissey J, Sutak R, Paz‑Yepes J, Tanaka A, Moustafa A, Veluchamy A, Thomas Y, Botebol H, Bouget FY, McQuaid JB, Tirichine L, Allen AE, Lesuisse E, Bowler C
Curr Biol. 2015 Feb 2. 25(3):364-71.

A genomic region encompassing a newly identified exon provides enhancing activity sufficient for normal myo7aa expression in zebrafish sensory hair cells.
Ernest S, Rosa FM
Dev Neurobiol. 2015 Sep. 75(9):961-83.

PRC2 represses dedifferentiation of mature somatic cells in Arabidopsis.
Ikeuchi M, Iwase A, Rymen B, Harashima H, Shibata M, Ohnuma M, Breuer C, Morao AK, de Lucas M, De Veylder L, Goodrich J, Brady SM, Roudier F, Sugimoto K
Nat Plants. 2015 Jun 29. 1:15089.

Genome expansion of Arabis alpina linked with retrotransposition and reduced symmetric DNA methylation.
Willing EM, Rawat V, Mandáková T, Maumus F, James GV, Nordström KJ, Becker C, Warthmann N, Chica C, Szarzynska B, Zytnicki M, Albani MC, Kiefer C, Bergonzi S, Castaings L, Mateos JL, Berns MC, Bujdoso N, Piofczyk T, de Lorenzo L, Barrero‑Sicilia C, Mateos I, Piednoël M, Hagmann J, Chen‑Min‑Tao R, Iglesias‑Fernández R, Schuster SC, Alonso‑Blanco C, Roudier F, Carbonero P, Paz‑Ares J, Davis SJ, Pecinka A, Quesneville H, Colot V, Lysak MA, Weigel D, Coupland G, Schneeberger K
Nat Plants. 2015 Feb 2. 1:14023.

Stochastic dynamics of adaptive trait and neutral marker driven by eco-evolutionary feedbacks.
Billiard S, Ferrière R, Méléard S, Tran VC
J Math Biol. 2015 Nov. 71(5):1211-42.

Presence in Mediterranean hotspots and floral symmetry affect speciation and extinction rates in Proteaceae.
Reyes E, Morlon H, Sauquet H
New Phytol. 2015 Jul. 207(2):401-10.

Evolution of equal division among unequal partners.
Debove S, Baumard N, André JB
Evolution. 2015 Feb. 69(2):561-9.

Molecular dissection of segment formation in the developing hindbrain.
Labalette C, Wassef MA, Desmarquet‑Trin Dinh C, Bouchoucha YX, Le Men J, Charnay P, Gilardi‑Hebenstreit P
Development. 2015 Jan 1. 142(1):185-95.

Membrane glycerolipid remodeling triggered by nitrogen and phosphorus starvation in Phaeodactylum tricornutum.
Abida H, Dolch LJ, Meï C, Villanova V, Conte M, Block MA, Finazzi G, Bastien O, Tirichine L, Bowler C, Rébeillé F, Petroutsos D, Jouhet J, Maréchal E
Plant Physiol. 2015 Jan. 167(1):118-36.

Allosteric modulators of NMDA receptors : multiple sites and mechanisms.
Zhu S, Paoletti P
Curr Opin Pharmacol. 2015 Feb. 20:14-23.

GenomicusPlants : a web resource to study genome evolution in flowering plants.
Louis A, Murat F, Salse J, Crollius HR
Plant Cell Physiol. 2015 Jan. 56(1):e4.

Genomicus update 2015 : KaryoView and MatrixView provide a genome-wide perspective to multispecies comparative genomics.
Louis A, Nguyen NT, Muffato M, Roest Crollius H
Nucleic Acids Res. 2015 Jan. 43(Database issue):D682-9.

Synaptic receptor dynamics : from theoretical concepts to deep quantification and chemistry in cellulo.
Salvatico C, Specht CG, Triller A
Neuropharmacology. 2015 Jan. 88:2-9.

Kinetics of aggregation with a finite number of particles and application to viral capsid assembly.
Hoze N, Holcman D
J Math Biol. 2015 Jun. 70(7):1685-705.

Post-transcriptional regulation in the nucleus and cytoplasm : study of mean time to threshold (MTT) and narrow escape problem.
Holcman D, Dao Duc K, Jones A, Byrne H, Burrage K
J Math Biol. 2015 Mar. 70(4):805-28.

The 3D organization of chromatin explains evolutionary fragile genomic regions.
Berthelot C, Muffato M, Abecassis J, Roest Crollius H
Cell Rep. 2015 Mar 24. 10(11):1913-24.

Anhydrobiosis and freezing-tolerance : adaptations that facilitate the establishment of Panagrolaimus nematodes in polar habitats.
McGill LM, Shannon AJ, Pisani D, Félix MA, Ramløv H, Dix I, Wharton DA, Burnell AM
PLoS One. 2015. 10(3):e0116084.

C. elegans outside the Petri dish.
Frézal L, Félix MA
Elife. 2015 Mar 30. 4.

The ß-importin KAP8 (Pse1/Kap121) is required for nuclear import of the cellulase transcriptional regulator XYR1, asexual sporulation and stress resistance in Trichoderma reesei.
Ghassemi S, Lichius A, Bidard F, Lemoine S, Rossignol MN, Herold S, Seidl‑Seiboth V, Seiboth B, Espeso EA, Margeot A, Kubicek CP
Mol Microbiol. 2015 Apr. 96(2):405-18.

Fast spatial beam shaping by acousto-optic diffraction for 3D non-linear microscopy.
Akemann W, Léger JF, Ventalon C, Mathieu B, Dieudonné S, Bourdieu L
Opt Express. 2015 Nov 2. 23(22):28191-205.

Characterization of the angular memory effect of scattered light in biological tissues.
Schott S, Bertolotti J, Léger JF, Bourdieu L, Gigan S
Opt Express. 2015 May 18. 23(10):13505-16.



2014


2011

Evidence for sequential and increasing activation of replication origins along replication timing gradients in the human genome.
Guilbaud G, Rappailles A, Baker A, Chen CL, Arneodo A, Goldar A, d’Aubenton‑Carafa Y, Thermes C, Audit B, Hyrien O
PLoS Comput Biol. 2011 Dec. 7(12):e1002322.

Syntaxin1A lateral diffusion reveals transient and local SNARE interactions.
Ribrault C, Reingruber J, Petković M, Galli T, Ziv NE, Holcman D, Triller A
J Neurosci. 2011 Nov 30. 31(48):17590-602.

Homeoprotein Phox2b commands a somatic-to-visceral switch in cranial sensory pathways.
D’Autréaux F, Coppola E, Hirsch MR, Birchmeier C, Brunet JF
Proc Natl Acad Sci U S A. 2011 Dec 13. 108(50):20018-23.

C. elegans : la puissance de la simplicité.
Bessereau JL
Ann Pathol. 2011 Nov. 31(5 Suppl):S60-2.

Genome engineering by transgene-instructed gene conversion in C. elegans.
Robert VJ, Bessereau JL
Methods Cell Biol. 2011. 106:65-88.

Single myelin fiber imaging in living rodents without labeling by deep optical coherence microscopy.
Ben Arous J, Binding J, Léger JF, Casado M, Topilko P, Gigan S, Boccara AC, Bourdieu L
J Biomed Opt. 2011 Nov. 16(11):116012.

The residence time of GABA(A)Rs at inhibitory synapses is determined by direct binding of the receptor α1 subunit to gephyrin.
Mukherjee J, Kretschmannova K, Gouzer G, Maric HM, Ramsden S, Tretter V, Harvey K, Davies PA, Triller A, Schindelin H, Moss SJ
J Neurosci. 2011 Oct 12. 31(41):14677-87.

Lateral diffusion on tubular membranes : quantification of measurements bias.
Renner M, Domanov Y, Sandrin F, Izeddin I, Bassereau P, Triller A
PLoS One. 2011. 6(9):e25731.

Physiological roles of microglia during development.
Pont‑Lezica L, Béchade C, Belarif‑Cantaut Y, Pascual O, Bessis A
J Neurochem. 2011 Dec. 119(5):901-8.

Transcription factor search for a DNA promoter in a three-state model.
Reingruber J, Holcman D
Phys Rev E Stat Nonlin Soft Matter Phys. 2011 Aug. 84(2 Pt 1):020901.

Inhibiting eukaryotic transcription : Which compound to choose ? How to evaluate its activity ?
Bensaude O
Transcription. 2011 May. 2(3):103-108.

Identification of the sites of action of SrmB, a DEAD-box RNA helicase involved in Escherichia coli ribosome assembly.
Proux F, Dreyfus M, Iost I
Mol Microbiol. 2011 Oct. 82(2):300-11.

Regulation of glycine receptor diffusion properties and gephyrin interactions by protein kinase C.
Specht CG, Grünewald N, Pascual O, Rostgaard N, Schwarz G, Triller A
EMBO J. 2011 Aug 9. 30(18):3842-53.

Late emergence of the vibrissa direction selectivity map in the rat barrel cortex.
Kremer Y, Léger JF, Goodman D, Brette R, Bourdieu L
J Neurosci. 2011 Jul 20. 31(29):10689-700.

Mitotic spindle orientation in asymmetric and symmetric cell divisions during animal development.
Morin X, Bellaïche Y
Dev Cell. 2011 Jul 19. 21(1):102-19.

Molecular basis of positive allosteric modulation of GluN2B NMDA receptors by polyamines.
Mony L, Zhu S, Carvalho S, Paoletti P
EMBO J. 2011 Jun 17. 30(15):3134-46.

Microscopies cellulaires à l’échelle de la molécule individuelle.
Izeddin I, Darzacq X, Dahan M
Med Sci (Paris). 2011 May. 27(5):547-52.

Physiological and molecular evidence that environmental changes elicit morphological interconversion in the model diatom Phaeodactylum tricornutum.
De Martino A, Bartual A, Willis A, Meichenin A, Villazán B, Maheswari U, Bowler C
Protist. 2011 Jul. 162(3):462-81.

Genome-wide evidence for local DNA methylation spreading from small RNA-targeted sequences in Arabidopsis.
Ahmed I, Sarazin A, Bowler C, Colot V, Quesneville H
Nucleic Acids Res. 2011 Sep 1. 39(16):6919-31.

Replication-fork stalling and processing at a single psoralen interstrand crosslink in Xenopus egg extracts.
Le Breton C, Hennion M, Arimondo PB, Hyrien O
PLoS One. 2011 Apr 15. 6(4):e18554.

Integrative epigenomic mapping defines four main chromatin states in Arabidopsis.
Roudier F, Ahmed I, Bérard C, Sarazin A, Mary‑Huard T, Cortijo S, Bouyer D, Caillieux E, Duvernois‑Berthet E, Al‑Shikhley L, Giraut L, Després B, Drevensek S, Barneche F, Dèrozier S, Brunaud V, Aubourg S, Schnittger A, Bowler C, Martin‑Magniette ML, Robin S, Caboche M, Colot V
EMBO J. 2011 May 18. 30(10):1928-38.

Functional reconstitution of Haemonchus contortus acetylcholine receptors in Xenopus oocytes provides mechanistic insights into levamisole resistance.
Boulin T, Fauvin A, Charvet CL, Cortet J, Cabaret J, Bessereau JL, Neveu C
Br J Pharmacol. 2011 Nov. 164(5):1421-32.

Brain refractive index measured in vivo with high-NA defocus-corrected full-field OCT and consequences for two-photon microscopy.
Binding J, Ben Arous J, Léger JF, Gigan S, Boccara C, Bourdieu L
Opt Express. 2011 Mar 14. 19(6):4833-47.

Decoding algal genomes : tracing back the history of photosynthetic life on Earth.
Tirichine L, Bowler C
Plant J. 2011 Apr. 66(1):45-57.

The presynaptic dense projection of the Caenorhabditis elegans cholinergic neuromuscular junction localizes synaptic vesicles at the active zone through SYD-2/liprin and UNC-10/RIM-dependent interactions.
Stigloher C, Zhan H, Zhen M, Richmond J, Bessereau JL
J Neurosci. 2011 Mar 23. 31(12):4388-96.

Molecular basis of NMDA receptor functional diversity.
Paoletti P
Eur J Neurosci. 2011 Apr. 33(8):1351-65.

Nitric oxide regulates astrocyte maturation in the hippocampus : involvement of NOS2.
Béchade C, Pascual O, Triller A, Bessis A
Mol Cell Neurosci. 2011 Apr. 46(4):762-9.

The conserved factor DE-ETIOLATED 1 cooperates with CUL4-DDB1DDB2 to maintain genome integrity upon UV stress.
Castells E, Molinier J, Benvenuto G, Bourbousse C, Zabulon G, Zalc A, Cazzaniga S, Genschik P, Barneche F, Bowler C
EMBO J. 2011 Mar 16. 30(6):1162-72.

Dok4 is involved in Schwann cell myelination and axonal interaction in vitro.
Blugeon C, Le Crom S, Richard L, Vallat JM, Charnay P, Decker L
Glia. 2011 Mar. 59(3):351-62.

Barhl2 limits growth of the diencephalic primordium through Caspase3 inhibition of beta-catenin activation.
Juraver‑Geslin HA, Ausseil JJ, Wassef M, Durand BC
Proc Natl Acad Sci U S A. 2011 Feb 8. 108(6):2288-93.

A single immunoglobulin-domain protein required for clustering acetylcholine receptors in C. elegans.
Rapti G, Richmond J, Bessereau JL
EMBO J. 2011 Feb 16. 30(4):706-18.

Functional specialization of Piwi proteins in Paramecium tetraurelia from post-transcriptional gene silencing to genome remodelling.
Bouhouche K, Gout JF, Kapusta A, Bétermier M, Meyer E
Nucleic Acids Res. 2011 May. 39(10):4249-64.

Screening for genes that wire the cerebral cortex.
Lokmane L, Garel S
BMC Biol. 2011 Jan 7. 9:1.

Heat shock cognate protein 70 regulates gephyrin clustering.
Machado P, Rostaing P, Guigonis JM, Renner M, Dumoulin A, Samson M, Vannier C, Triller A
J Neurosci. 2011 Jan 5. 31(1):3-14.

Krox20 inactivation in the PNS leads to CNS/PNS boundary transgression by central glia.
Coulpier F, Decker L, Funalot B, Vallat JM, Garcia‑Bragado F, Charnay P, Topilko P
Rev Neurol (Paris). 2011 Jan. 167(1):51-6.

Diffusion laws in dendritic spines.
Holcman D, Schuss Z
J Math Neurosci. 2011 Oct 27. 1(1):10.

Hindbrain patterning requires fine-tuning of early krox20 transcription by Sprouty 4.
Labalette C, Bouchoucha YX, Wassef MA, Gongal PA, Le Men J, Becker T, Gilardi‑Hebenstreit P, Charnay P
Development. 2011 Jan. 138(2):317-26.

Stochastic modeling of gene activation and applications to cell regulation.
Malherbe G, Holcman D
J Theor Biol. 2011 Feb 21. 271(1):51-63.

Functional evidence for a twisted conformation of the NMDA receptor GluN2A subunit N-terminal domain.
Stroebel D, Carvalho S, Paoletti P
Neuropharmacology. 2011 Jan. 60(1):151-8.

Evolution and metabolic significance of the urea cycle in photosynthetic diatoms.
Allen AE, Dupont CL, Oborník M, Horák A, Nunes‑Nesi A, McCrow JP, Zheng H, Johnson DA, Hu H, Fernie AR, Bowler C
Nature. 2011 May 12. 473(7346):203-7.

Mobility in geometrically confined membranes.
Domanov YA, Aimon S, Toombes GE, Renner M, Quemeneur F, Triller A, Turner MS, Bassereau P
Proc Natl Acad Sci U S A. 2011 Aug 2. 108(31):12605-10.

Formation and stability of synaptic receptor domains.
Haselwandter CA, Calamai M, Kardar M, Triller A, da Silveira RA
Phys Rev Lett. 2011 Jun 10. 106(23):238104.

Super-resolution dynamic imaging of dendritic spines using a low-affinity photoconvertible actin probe.
Izeddin I, Specht CG, Lelek M, Darzacq X, Triller A, Zimmer C, Dahan M
PLoS One. 2011 Jan 17. 6(1):e15611.

Fgf signaling controls pharyngeal taste bud formation through miR-200 and Delta-Notch activity.
Kapsimali M, Kaushik AL, Gibon G, Dirian L, Ernest S, Rosa FM
Development. 2011 Aug. 138(16):3473-84.

A holistic approach to marine eco-systems biology.
Karsenti E, Acinas SG, Bork P, Bowler C, De Vargas C, Raes J, Sullivan M, Arendt D, Benzoni F, Claverie JM, Follows M, Gorsky G, Hingamp P, Iudicone D, Jaillon O, Kandels‑Lewis S, Krzic U, Not F, Ogata H, Pesant S, Reynaud EG, Sardet C, Sieracki ME, Speich S, Velayoudon D, Weissenbach J, Wincker P
PLoS Biol. 2011 Oct. 9(10):e1001177.

Labeling neuronal membrane receptors with quantum dots.
Lévi S, Dahan M, Triller A
Cold Spring Harb Protoc. 2011 Mar 1. 2011(3):prot5580.

Stemming epigenetics in marine stramenopiles.
Maumus F, Rabinowicz P, Bowler C, Rivarola M
Curr Genomics. 2011 Aug. 12(5):357-70.

Stage-specific biomass overcompensation by juveniles in response to increased adult mortality in a wild fish population.
Ohlberger J, Langangen Ø, Edeline E, Claessen D, Winfield IJ, Stenseth NC, Vøllestad LA
Ecology. 2011 Dec. 92(12):2175-82.

From the stochasticity of molecular processes to the variability of synaptic transmission.
Ribrault C, Sekimoto K, Triller A
Nat Rev Neurosci. 2011 Jun 20. 12(7):375-87.

GABA(A) Receptors : Post-Synaptic Co-Localization and Cross-Talk with Other Receptors.
Shrivastava AN, Triller A, Sieghart W
Front Cell Neurosci. 2011. 5:7.

Regulation of GABA(A) receptor dynamics by interaction with purinergic P2X(2) receptors.
Shrivastava AN, Triller A, Sieghart W, Sarto‑Jackson I
J Biol Chem. 2011 Apr 22. 286(16):14455-68.

Ultrastructural organization of presynaptic terminals.
Siksou L, Triller A, Marty S
Curr Opin Neurobiol. 2011 Apr. 21(2):261-8.

Assessing the localization of centrosomal proteins by PALM/STORM nanoscopy.
Sillibourne JE, Specht CG, Izeddin I, Hurbain I, Tran P, Triller A, Darzacq X, Dahan M, Bornens M
Cytoskeleton (Hoboken). 2011 Nov. 68(11):619-27.

A lateral belt of cortical LGN and NuMA guides mitotic spindle movements and planar division in neuroepithelial cells.
Peyre E, Jaouen F, Saadaoui M, Haren L, Merdes A, Durbec P, Morin X
J Cell Biol. 2011 Apr 4. 193(1):141-54.

Specific and integrated roles of Lmx1a, Lmx1b and Phox2a in ventral midbrain development.
Deng Q, Andersson E, Hedlund E, Alekseenko Z, Coppola E, Panman L, Millonig JH, Brunet JF, Ericson J, Perlmann T
Development. 2011 Aug. 138(16):3399-408.

Molecular mechanisms for the RNA-dependent ATPase activity of Upf1 and its regulation by Upf2.
Chakrabarti S, Jayachandran U, Bonneau F, Fiorini F, Basquin C, Domcke S, Le Hir H, Conti E
Mol Cell. 2011 Mar 18. 41(6):693-703.

Replication-associated mutational asymmetry in the human genome.
Chen CL, Duquenne L, Audit B, Guilbaud G, Rappailles A, Baker A, Huvet M, d’Aubenton‑Carafa Y, Hyrien O, Arneodo A, Thermes C
Mol Biol Evol. 2011 Aug. 28(8):2327-37.

Physiological and toxic effects of purine intermediate 5-amino-4-imidazolecarboxamide ribonucleotide (AICAR) in yeast.
Hürlimann HC, Laloo B, Simon‑Kayser B, Saint‑Marc C, Coulpier F, Lemoine S, Daignan‑Fornier B, Pinson B
J Biol Chem. 2011 Sep 2. 286(35):30994-1002.

Ploidy influences cellular responses to gross chromosomal rearrangements in Saccharomyces cerevisiae.
Jung PP, Fritsch ES, Blugeon C, Souciet JL, Potier S, Lemoine S, Schacherer J, de Montigny J
BMC Genomics. 2011 Jun 28. 12:331.

Boundary cap cells are peripheral nervous system stem cells that can be redirected into central nervous system lineages.
Zujovic V, Thibaud J, Bachelin C, Vidal M, Deboux C, Coulpier F, Stadler N, Charnay P, Topilko P, Baron‑Van Evercooren A
Proc Natl Acad Sci U S A. 2011 Jun 28. 108(26):10714-9.

The CRE1 carbon catabolite repressor of the fungus Trichoderma reesei : a master regulator of carbon assimilation.
Portnoy T, Margeot A, Linke R, Atanasova L, Fekete E, Sándor E, Hartl L, Karaffa L, Druzhinina IS, Seiboth B, Le Crom S, Kubicek CP
BMC Genomics. 2011 May 27. 12:269.

Comparative genome sequence analysis underscores mycoparasitism as the ancestral life style of Trichoderma.
Kubicek CP, Herrera‑Estrella A, Seidl‑Seiboth V, Martinez DA, Druzhinina IS, Thon M, Zeilinger S, Casas‑Flores S, Horwitz BA, Mukherjee PK, Mukherjee M, Kredics L, Alcaraz LD, Aerts A, Antal Z, Atanasova L, Cervantes‑Badillo MG, Challacombe J, Chertkov O, McCluskey K, Coulpier F, Deshpande N, von Döhren H, Ebbole DJ, Esquivel‑Naranjo EU, Fekete E, Flipphi M, Glaser F, Gómez‑Rodríguez EY, Gruber S, Han C, Henrissat B, Hermosa R, Hernández‑Oñate M, Karaffa L, Kosti I, Le Crom S, Lindquist E, Lucas S, Lübeck M, Lübeck PS, Margeot A, Metz B, Misra M, Nevalainen H, Omann M, Packer N, Perrone G, Uresti‑Rivera EE, Salamov A, Schmoll M, Seiboth B, Shapiro H, Sukno S, Tamayo‑Ramos JA, Tisch D, Wiest A, Wilkinson HH, Zhang M, Coutinho PM, Kenerley CM, Monte E, Baker SE, Grigoriev IV
Genome Biol. 2011. 12(4):R40.

Secreted amyloid precursor protein β and secreted amyloid precursor protein α induce axon outgrowth in vitro through Egr1 signaling pathway.
Chasseigneaux S, Dinc L, Rose C, Chabret C, Coulpier F, Topilko P, Mauger G, Allinquant B
PLoS One. 2011 Jan 27. 6(1):e16301.

Differential regulation of the cellulase transcription factors XYR1, ACE2, and ACE1 in Trichoderma reesei strains producing high and low levels of cellulase.
Portnoy T, Margeot A, Seidl‑Seiboth V, Le Crom S, Ben Chaabane F, Linke R, Seiboth B, Kubicek CP
Eukaryot Cell. 2011 Feb. 10(2):262-71.


2012

Encounter dynamics of a small target by a polymer diffusing in a confined domain.
Amitai A, Amoruso C, Ziskind A, Holcman D
J Chem Phys. 2012 Dec 28. 137(24):244906.

Protocol : Chromatin immunoprecipitation (ChIP) methodology to investigate histone modifications in two model diatom species.
Lin X, Tirichine L, Bowler C
Plant Methods. 2012 Dec 7. 8(1):48.

CLIP-seq of eIF4AIII reveals transcriptome-wide mapping of the human exon junction complex.
Saulière J, Murigneux V, Wang Z, Marquenet E, Barbosa I, Le Tonquèze O, Audic Y, Paillard L, Roest Crollius H, Le Hir H
Nat Struct Mol Biol. 2012 Nov. 19(11):1124-31.

Measuring aberrations in the rat brain by coherence-gated wavefront sensing using a Linnik interferometer.
Wang J, Léger JF, Binding J, Boccara AC, Gigan S, Bourdieu L
Biomed Opt Express. 2012 Oct 1. 3(10):2510-25.

Analysis of human samples reveals impaired SHH-dependent cerebellar development in Joubert syndrome/Meckel syndrome.
Aguilar A, Meunier A, Strehl L, Martinovic J, Bonniere M, Attie‑Bitach T, Encha‑Razavi F, Spassky N
Proc Natl Acad Sci U S A. 2012 Oct 16. 109(42):16951-6.

Human CWC22 escorts the helicase eIF4AIII to spliceosomes and promotes exon junction complex assembly.
Barbosa I, Haque N, Fiorini F, Barrandon C, Tomasetto C, Blanchette M, Le Hir H
Nat Struct Mol Biol. 2012 Oct. 19(10):983-90.

Evolution in developmental phenotype space.
Félix MA
Curr Opin Genet Dev. 2012 Dec. 22(6):593-9.

Positive modulation of a Cys-loop acetylcholine receptor by an auxiliary transmembrane subunit.
Boulin T, Rapti G, Briseño‑Roa L, Stigloher C, Richmond JE, Paoletti P, Bessereau JL
Nat Neurosci. 2012 Oct. 15(10):1374-81.

Diffusion barriers constrain receptors at synapses.
Renner M, Schweizer C, Bannai H, Triller A, Lévi S
PLoS One. 2012. 7(8):e43032.

Histone H2B monoubiquitination facilitates the rapid modulation of gene expression during Arabidopsis photomorphogenesis.
Bourbousse C, Ahmed I, Roudier F, Zabulon G, Blondet E, Balzergue S, Colot V, Bowler C, Barneche F
PLoS Genet. 2012. 8(7):e1002825.

Biochemical characterization of the RNA helicase UPF1 involved in nonsense-mediated mRNA decay.
Fiorini F, Bonneau F, Le Hir H
Methods Enzymol. 2012. 511:255-74.

Astrocyte-neuron communication : functional consequences.
Ben Achour S, Pascual O
Neurochem Res. 2012 Nov. 37(11):2464-73.

Integration of H-2Z1, a somatosensory cortex-expressed transgene, interferes with the expression of the Satb1 and Tbc1d5 flanking genes and affects the differentiation of a subset of cortical interneurons.
Narboux‑Nême N, Goïame R, Mattéi MG, Cohen‑Tannoudji M, Wassef M
J Neurosci. 2012 May 23. 32(21):7287-300.

NMDA receptors with incomplete Mg²⁺ block enable low-frequency transmission through the cerebellar cortex.
Schwartz EJ, Rothman JS, Dugué GP, Diana M, Rousseau C, Silver RA, Dieudonné S
J Neurosci. 2012 May 16. 32(20):6878-93.

An alternating GluN1-2-1-2 subunit arrangement in mature NMDA receptors.
Riou M, Stroebel D, Edwardson JM, Paoletti P
PLoS One. 2012. 7(4):e35134.

Eoulsan : a cloud computing-based framework facilitating high throughput sequencing analyses.
Jourdren L, Bernard M, Dillies MA, Le Crom S
Bioinformatics. 2012 Jun 1. 28(11):1542-3.

Phox2b expression in the taste centers of fish.
Coppola E, D’autréaux F, Nomaksteinsky M, Brunet JF
J Comp Neurol. 2012 Nov 1. 520(16):3633-49.

Mixed inhibitory synaptic balance correlates with glutamatergic synaptic phenotype in cerebellar unipolar brush cells.
Rousseau CV, Dugué GP, Dumoulin A, Mugnaini E, Dieudonné S, Diana MA
J Neurosci. 2012 Mar 28. 32(13):4632-44.

Iron utilization in marine cyanobacteria and eukaryotic algae.
Morrissey J, Bowler C
Front Microbiol. 2012. 3:43.

Modeling the step of endosomal escape during cell infection by a nonenveloped virus.
Lagache T, Danos O, Holcman D
Biophys J. 2012 Mar 7. 102(5):980-9.

Brownian needle in dire straits : stochastic motion of a rod in very confined narrow domains.
Holcman D, Schuss Z
Phys Rev E Stat Nonlin Soft Matter Phys. 2012 Jan. 85(1 Pt 1):010103.

Cthrc1 is a negative regulator of myelination in Schwann cells.
Apra C, Richard L, Coulpier F, Blugeon C, Gilardi‑Hebenstreit P, Vallat JM, Lindner V, Charnay P, Decker L
Glia. 2012 Mar. 60(3):393-403.

Intra-nuclear mobility and target search mechanisms of transcription factors : a single-molecule perspective on gene expression.
Normanno D, Dahan M, Darzacq X
Biochim Biophys Acta. 2012 Jun. 1819(6):482-93.

Robustness and flexibility in nematode vulva development.
Félix MA, Barkoulas M
Trends Genet. 2012 Apr. 28(4):185-95.

Chloroplast-mitochondria cross-talk in diatoms.
Prihoda J, Tanaka A, de Paula WB, Allen JF, Tirichine L, Bowler C
J Exp Bot. 2012 Feb. 63(4):1543-57.

Using default constraints of the spindle assembly checkpoint to estimate the associated chemical rates.
Dao Duc K, Holcman D
BMC Biophys. 2012 Jan 19. 5:1.

From genes to function : the C. elegans genetic toolbox.
Boulin T, Hobert O
Wiley Interdiscip Rev Dev Biol. 2012 Jan-Feb. 1(1):114-37.

Microglia activation triggers astrocyte-mediated modulation of excitatory neurotransmission.
Pascual O, Ben Achour S, Rostaing P, Triller A, Bessis A
Proc Natl Acad Sci U S A. 2012 Jan 24. 109(4):E197-205.

Tetrode recordings in the cerebellar cortex.
Gao H, Solages Cd, Lena C
J Physiol Paris. 2012 May-Aug. 106(3-4):128-36.

Evolution and functional diversification of fructose bisphosphate aldolase genes in photosynthetic marine diatoms.
Allen AE, Moustafa A, Montsant A, Eckert A, Kroth PG, Bowler C
Mol Biol Evol. 2012 Jan. 29(1):367-79.

In vitro effect of malachite green on Candida albicans involves multiple pathways and transcriptional regulators UPC2 and STP2.
Dhamgaye S, Devaux F, Manoharlal R, Vandeputte P, Shah AH, Singh A, Blugeon C, Sanglard D, Prasad R
Antimicrob Agents Chemother. 2012 Jan. 56(1):495-506.

Do replication forks control late origin firing in Saccharomyces cerevisiae ?
Ma E, Hyrien O, Goldar A
Nucleic Acids Res. 2012 Mar. 40(5):2010-9.

Detection and quantification through a lipid membrane using the molecularly controlled semiconductor resistor.
Bavli D, Tkachev M, Piwonski H, Capua E, de Albuquerque I, Bensimon D, Haran G, Naaman R
Langmuir. 2012 Jan 10. 28(1):1020-8.

Engrailed homeoprotein recruits the adenosine A1 receptor to potentiate ephrin A5 function in retinal growth cones.
Stettler O, Joshi RL, Wizenmann A, Reingruber J, Holcman D, Bouillot C, Castagner F, Prochiantz A, Moya KL
Development. 2012 Jan. 139(1):215-24.

Confocal microscopy imaging of NR2B-containing NMDA receptors based on fluorescent ifenprodil-like conjugates.
Marchand P, Becerril‑Ortega J, Mony L, Bouteiller C, Paoletti P, Nicole O, Barré L, Buisson A, Perrio C
Bioconjug Chem. 2012 Jan 18. 23(1):21-6.

RSAT peak-motifs : motif analysis in full-size ChIP-seq datasets.
Thomas‑Chollier M, Herrmann C, Defrance M, Sand O, Thieffry D, van Helden J
Nucleic Acids Res. 2012 Feb. 40(4):e31.

Evolution of host life-history traits in a spatially structured host-parasite system.
Débarre F, Lion S, van Baalen M, Gandon S
Am Nat. 2012 Jan. 179(1):52-63.

Single-molecule studies using magnetic traps.
Lionnet T, Allemand JF, Revyakin A, Strick TR, Saleh OA, Bensimon D, Croquette V
Cold Spring Harb Protoc. 2012 Jan 1. 2012(1):34-49.

Magnetic trap construction.
Lionnet T, Allemand JF, Revyakin A, Strick TR, Saleh OA, Bensimon D, Croquette V
Cold Spring Harb Protoc. 2012 Jan 1. 2012(1):133-8.

Proteins associated with the exon junction complex also control the alternative splicing of apoptotic regulators.
Michelle L, Cloutier A, Toutant J, Shkreta L, Thibault P, Durand M, Garneau D, Gendron D, Lapointe E, Couture S, Le Hir H, Klinck R, Elela SA, Prinos P, Chabot B
Mol Cell Biol. 2012 Mar. 32(5):954-67.

Mechanism of proton/substrate coupling in the heptahelical lysosomal transporter cystinosin.
Ruivo R, Bellenchi GC, Chen X, Zifarelli G, Sagné C, Debacker C, Pusch M, Supplisson S, Gasnier B
Proc Natl Acad Sci U S A. 2012 Jan 31. 109(5):E210-7.

Synaptic neurotransmitter-gated receptors.
Smart TG, Paoletti P
Cold Spring Harb Perspect Biol. 2012 Mar 1. 4(3).

Role of pleiotropy in the evolution of a cryptic developmental variation in Caenorhabditis elegans.
Duveau F, Félix MA
PLoS Biol. 2012 Jan. 10(1):e1001230.

Evolution of susceptibility to ingested double-stranded RNAs in Caenorhabditis nematodes.
Nuez I, Félix MA
PLoS One. 2012. 7(1):e29811.

Chromosome-scale selective sweeps shape Caenorhabditis elegans genomic diversity.
Andersen EC, Gerke JP, Shapiro JA, Crissman JR, Ghosh R, Bloom JS, Félix MA, Kruglyak L
Nat Genet. 2012 Jan 29. 44(3):285-90.

Life histories have a history : effects of past and present conditions on adult somatic growth rates in wild Trinidadian guppies.
Auer SK, Lopez‑Sepulcre A, Heatherly T 2nd, Kohler TJ, Bassar RD, Thomas SA, Reznick DN
J Anim Ecol. 2012 Jul. 81(4):818-26.

Wavelet analysis for single molecule localization microscopy.
Izeddin I, Boulanger J, Racine V, Specht CG, Kechkar A, Nair D, Triller A, Choquet D, Dahan M, Sibarita JB
Opt Express. 2012 Jan 30. 20(3):2081-95.

Establishment of myelinating Schwann cells and barrier integrity between central and peripheral nervous systems depend on Sox10.
Fröb F, Bremer M, Finzsch M, Kichko T, Reeh P, Tamm ER, Charnay P, Wegner M
Glia. 2012 May. 60(5):806-19.

ATP-independent cooperative binding of yeast Isw1a to bare and nucleosomal DNA.
De Cian A, Praly E, Ding F, Singh V, Lavelle C, Le Cam E, Croquette V, Piétrement O, Bensimon D
PLoS One. 2012. 7(2):e31845.

Phylogenetic reconstruction and shell evolution of the Diplommatinidae (Gastropoda : Caenogastropoda).
Webster NB, Van Dooren TJ, Schilthuizen M
Mol Phylogenet Evol. 2012 Jun. 63(3):625-38.

Adaptation of granule cell to Purkinje cell synapses to high-frequency transmission.
Valera AM, Doussau F, Poulain B, Barbour B, Isope P
J Neurosci. 2012 Feb 29. 32(9):3267-80.

Tye7 regulates yeast Ty1 retrotransposon sense and antisense transcription in response to adenylic nucleotides stress.
Servant G, Pinson B, Tchalikian‑Cosson A, Coulpier F, Lemoine S, Pennetier C, Bridier‑Nahmias A, Todeschini AL, Fayol H, Daignan‑Fornier B, Lesage P
Nucleic Acids Res. 2012 Jul. 40(12):5271-82.

Predation-associated differences in sex linkage of wild guppy coloration.
Gordon SP, López‑Sepulcre A, Reznick DN
Evolution. 2012 Mar. 66(3):912-8.

The structure of the ASAP core complex reveals the existence of a Pinin-containing PSAP complex.
Murachelli AG, Ebert J, Basquin C, Le Hir H, Conti E
Nat Struct Mol Biol. 2012 Mar 4. 19(4):378-86.

Single-molecule mechanical identification and sequencing.
Ding F, Manosas M, Spiering MM, Benkovic SJ, Bensimon D, Allemand JF, Croquette V
Nat Methods. 2012 Mar 11. 9(4):367-72.

PSF shaping using adaptive optics for three-dimensional single-molecule super-resolution imaging and tracking.
Izeddin I, El Beheiry M, Andilla J, Ciepielewski D, Darzacq X, Dahan M
Opt Express. 2012 Feb 27. 20(5):4957-67.

Perispeckles are major assembly sites for the exon junction core complex.
Daguenet E, Baguet A, Degot S, Schmidt U, Alpy F, Wendling C, Spiegelhalter C, Kessler P, Rio MC, Le Hir H, Bertrand E, Tomasetto C
Mol Biol Cell. 2012 May. 23(9):1765-82.

Long-term species, sexual and individual variations in foraging strategies of fur seals revealed by stable isotopes in whiskers.
Kernaléguen L, Cazelles B, Arnould JP, Richard P, Guinet C, Cherel Y
PLoS One. 2012. 7(3):e32916.

Mechanism of strand displacement synthesis by DNA replicative polymerases.
Manosas M, Spiering MM, Ding F, Bensimon D, Allemand JF, Benkovic SJ, Croquette V
Nucleic Acids Res. 2012 Jul. 40(13):6174-86.

Leveraging metabolomics for functional investigations in sequenced marine diatoms.
Fernie AR, Obata T, Allen AE, Araújo WL, Bowler C
Trends Plant Sci. 2012 Jul. 17(7):395-403.

Replication fork polarity gradients revealed by megabase-sized U-shaped replication timing domains in human cell lines.
Baker A, Audit B, Chen CL, Moindrot B, Leleu A, Guilbaud G, Rappailles A, Vaillant C, Goldar A, Mongelard F, d’Aubenton‑Carafa Y, Hyrien O, Thermes C, Arneodo A
PLoS Comput Biol. 2012. 8(4):e1002443.

Homozygous deletion of an EGR2 enhancer in congenital amyelinating neuropathy.
Funalot B, Topilko P, Arroyo MA, Sefiani A, Hedley‑Whyte ET, Yoldi ME, Richard L, Touraille E, Laurichesse M, Khalifa E, Chauzeix J, Ouedraogo A, Cros D, Magdelaine C, Sturtz FG, Urtizberea JA, Charnay P, Bragado FG, Vallat JM
Ann Neurol. 2012 May. 71(5):719-23.

The human T-lymphotropic virus type 1 tax protein inhibits nonsense-mediated mRNA decay by interacting with INT6/EIF3E and UPF1.
Mocquet V, Neusiedler J, Rende F, Cluet D, Robin JP, Terme JM, Duc Dodon M, Wittmann J, Morris C, Le Hir H, Ciminale V, Jalinot P
J Virol. 2012 Jul. 86(14):7530-43.

Synaptic structure and function.
Triller A, Sheng M
Curr Opin Neurobiol. 2012 Jun. 22(3):363-5.

Allosteric inhibition of individual enzyme molecules trapped in lipid vesicles.
Piwonski HM, Goomanovsky M, Bensimon D, Horovitz A, Haran G
Proc Natl Acad Sci U S A. 2012 May 29. 109(22):E1437-43.

Gephyrin-independent GABA(A)R mobility and clustering during plasticity.
Niwa F, Bannai H, Arizono M, Fukatsu K, Triller A, Mikoshiba K
PLoS One. 2012. 7(4):e36148.

Identification of Chinese plague foci from long-term epidemiological data.
Ben‑Ari T, Neerinckx S, Agier L, Cazelles B, Xu L, Zhang Z, Fang X, Wang S, Liu Q, Stenseth NC
Proc Natl Acad Sci U S A. 2012 May 22. 109(21):8196-201.

The fundamental role of competition in the ecology and evolution of mutualisms.
Jones EI, Bronstein JL, Ferrière R
Ann N Y Acad Sci. 2012 May. 1256:66-88.

Characterisation of alleles of tomato light signalling genes generated by TILLING.
Jones MO, Piron‑Prunier F, Marcel F, Piednoir‑Barbeau E, Alsadon AA, Wahb‑Allah MA, Al‑Doss AA, Bowler C, Bramley PM, Fraser PD, Bendahmane A
Phytochemistry. 2012 Jul. 79:78-86.

miR-9 controls the timing of neurogenesis through the direct inhibition of antagonistic factors.
Coolen M, Thieffry D, Drivenes Ø, Becker TS, Bally‑Cuif L
Dev Cell. 2012 May 15. 22(5):1052-64.

Evolution of neutral and flowering genes along pearl millet (Pennisetum glaucum) domestication.
Lakis G, Navascués M, Rekima S, Simon M, Remigereau MS, Leveugle M, Takvorian N, Lamy F, Depaulis F, Robert T
PLoS One. 2012. 7(5):e36642.

Mutations in the GlyT2 gene (SLC6A5) are a second major cause of startle disease.
Carta E, Chung SK, James VM, Robinson A, Gill JL, Remy N, Vanbellinghen JF, Drew CJ, Cagdas S, Cameron D, Cowan FM, Del Toro M, Graham GE, Manzur AY, Masri A, Rivera S, Scalais E, Shiang R, Sinclair K, Stuart CA, Tijssen MA, Wise G, Zuberi SM, Harvey K, Pearce BR, Topf M, Thomas RH, Supplisson S, Rees MI, Harvey RJ
J Biol Chem. 2012 Aug 17. 287(34):28975-85.

Central antihypertensive effects of orally active aminopeptidase A inhibitors in spontaneously hypertensive rats.
Marc Y, Gao J, Balavoine F, Michaud A, Roques BP, Llorens‑Cortes C
Hypertension. 2012 Aug. 60(2):411-8.

Apelin and vasopressin : two work better than one.
Llorens‑Cortes C, Moos F
J Neuroendocrinol. 2012 Jul. 24(7):1085-6.

Population dynamics and habitat sharing of natural populations of Caenorhabditis elegans and C. briggsae.
Félix MA, Duveau F
BMC Biol. 2012 Jun 25. 10:59.

Direct and indirect ecosystem effects of evolutionary adaptation in the Trinidadian guppy (Poecilia reticulata).
Bassar RD, Ferriere R, López‑Sepulcre A, Marshall MC, Travis J, Pringle CM, Reznick DN
Am Nat. 2012 Aug. 180(2):167-85.

Multicolor two-photon tissue imaging by wavelength mixing.
Mahou P, Zimmerley M, Loulier K, Matho KS, Labroille G, Morin X, Supatto W, Livet J, Débarre D, Beaurepaire E
Nat Methods. 2012 Jul 8. 9(8):815-8.

Transmission multigénérationnelle de l’interférence à l’ARN chez le nématode Caenorhabditis elegans.
Bélicard T, Félix MA
Med Sci (Paris). 2012 Jun-Jul. 28(6-7):574-7.

Calcium rubies : a family of red-emitting functionalizable indicators suitable for two-photon Ca2+ imaging.
Collot M, Loukou C, Yakovlev AV, Wilms CD, Li D, Evrard A, Zamaleeva A, Bourdieu L, Léger JF, Ropert N, Eilers J, Oheim M, Feltz A, Mallet JM
J Am Chem Soc. 2012 Sep 12. 134(36):14923-31.

Monogalactopyranosides of fluorescein and fluorescein methyl ester : synthesis, enzymatic hydrolysis by biotnylated β-galactosidase, and determination of translational diffusion coefficient.
Mandal PK, Cattiaux L, Bensimon D, Mallet JM
Carbohydr Res. 2012 Sep 1. 358:40-6.

A complete workflow for the analysis of full-size ChIP-seq (and similar) data sets using peak-motifs.
Thomas‑Chollier M, Darbo E, Herrmann C, Defrance M, Thieffry D, van Helden J
Nat Protoc. 2012 Jul 26. 7(8):1551-68.

Monitoring microbial population dynamics at low densities.
Julou T, Desprat N, Bensimon D, Croquette V
Rev Sci Instrum. 2012 Jul. 83(7):074301.

Spatiotemporal manipulation of retinoic acid activity in zebrafish hindbrain development via photo-isomerization.
Xu L, Feng Z, Sinha D, Ducos B, Ebenstein Y, Tadmor AD, Gauron C, Le Saux T, Lin S, Weiss S, Vriz S, Jullien L, Bensimon D
Development. 2012 Sep. 139(18):3355-62.

RNA sequencing revealed novel actors of the acquisition of drug resistance in Candida albicans.
Dhamgaye S, Bernard M, Lelandais G, Sismeiro O, Lemoine S, Coppée JY, Le Crom S, Prasad R, Devaux F
BMC Genomics. 2012 Aug 16. 13:396.

Autonomic neurocristopathy-associated mutations in PHOX2B dysregulate Sox10 expression.
Nagashimada M, Ohta H, Li C, Nakao K, Uesaka T, Brunet JF, Amiel J, Trochet D, Wakayama T, Enomoto H
J Clin Invest. 2012 Sep. 122(9):3145-58.

NERD, a plant-specific GW protein, defines an additional RNAi-dependent chromatin-based pathway in Arabidopsis.
Pontier D, Picart C, Roudier F, Garcia D, Lahmy S, Azevedo J, Alart E, Laudié M, Karlowski WM, Cooke R, Colot V, Voinnet O, Lagrange T
Mol Cell. 2012 Oct 12. 48(1):121-32.

Eco-evolutionary community dynamics : covariation between diversity and invasibility across temperature gradients.
Stegen JC, Enquist BJ, Ferrière R
Am Nat. 2012 Oct. 180(4):E110-26.

MeDIP-HMM : genome-wide identification of distinct DNA methylation states from high-density tiling arrays.
Seifert M, Cortijo S, Colomé‑Tatché M, Johannes F, Roudier F, Colot V
Bioinformatics. 2012 Nov 15. 28(22):2930-9.

Computation of the mean first-encounter time between the ends of a polymer chain.
Amitai A, Kupka I, Holcman D
Phys Rev Lett. 2012 Sep 7. 109(10):108302.

Collective mesendoderm migration relies on an intrinsic directionality signal transmitted through cell contacts.
Dumortier JG, Martin S, Meyer D, Rosa FM, David NB
Proc Natl Acad Sci U S A. 2012 Oct 16. 109(42):16945-50.

Heterogeneity of AMPA receptor trafficking and molecular interactions revealed by superresolution analysis of live cell imaging.
Hoze N, Nair D, Hosy E, Sieben C, Manley S, Herrmann A, Sibarita JB, Choquet D, Holcman D
Proc Natl Acad Sci U S A. 2012 Oct 16. 109(42):17052-7.

ncPRO-seq : a tool for annotation and profiling of ncRNAs in sRNA-seq data.
Chen CJ, Servant N, Toedling J, Sarazin A, Marchais A, Duvernois‑Berthet E, Cognat V, Colot V, Voinnet O, Heard E, Ciaudo C, Barillot E
Bioinformatics. 2012 Dec 1. 28(23):3147-9.

Epialleles in plant evolution.
Weigel D, Colot V
Genome Biol. 2012 Oct 11. 13(10):249.

The Paramecium germline genome provides a niche for intragenic parasitic DNA : evolutionary dynamics of internal eliminated sequences.
Arnaiz O, Mathy N, Baudry C, Malinsky S, Aury JM, Denby Wilkes C, Garnier O, Labadie K, Lauderdale BE, Le Mouël A, Marmignon A, Nowacki M, Poulain J, Prajer M, Wincker P, Meyer E, Duharcourt S, Duret L, Bétermier M, Sperling L
PLoS Genet. 2012. 8(10):e1002984.

New partners in regulation of gene expression : the enhancer of Trithorax and Polycomb Corto interacts with methylated ribosomal protein l12 via its chromodomain.
Coléno‑Costes A, Jang SM, de Vanssay A, Rougeot J, Bouceba T, Randsholt NB, Gibert JM, Le Crom S, Mouchel‑Vielh E, Bloyer S, Peronnet F
PLoS Genet. 2012. 8(10):e1003006.

Endoneurial fibroblast-like cells.
Richard L, Topilko P, Magy L, Decouvelaere AV, Charnay P, Funalot B, Vallat JM
J Neuropathol Exp Neurol. 2012 Nov. 71(11):938-47.

Synaptic transmission in neurological disorders dissected by a quantitative approach.
Freche D, Lee CY, Rouach N, Holcman D
Commun Integr Biol. 2012 Sep 1. 5(5):448-52.

Direct observation of stalled fork restart via fork regression in the T4 replication system.
Manosas M, Perumal SK, Croquette V, Benkovic SJ
Science. 2012 Nov 30. 338(6111):1217-20.

Caenorhabditis elegans vulval cell fate patterning.
Félix MA
Phys Biol. 2012 Aug. 9(4):045001.

An oblique view on the role of spindle orientation in vertebrate neurogenesis.
Peyre E, Morin X
Dev Growth Differ. 2012 Apr. 54(3):287-305.

Complete genome sequence of Le Blanc virus, a third Caenorhabditis nematode-infecting virus.
Franz CJ, Zhao G, Félix MA, Wang D
J Virol. 2012 Nov. 86(21):11940.

The human T-lymphotropic virus type 1 tax protein inhibits nonsense-mediated mRNA decay by interacting with INT6/EIF3E and UPF1.
Mocquet V, Neusiedler J, Rende F, Cluet D, Robin JP, Terme JM, Duc Dodon M, Wittmann J, Morris C, Le Hir H, Ciminale V, Jalinot P
J Virol. 2012 Jul. 86(14):7530-43.

Perispeckles are major assembly sites for the exon junction core complex.
Daguenet E, Baguet A, Degot S, Schmidt U, Alpy F, Wendling C, Spiegelhalter C, Kessler P, Rio MC, Le Hir H, Bertrand E, Tomasetto C
Mol Biol Cell. 2012 May. 23(9):1765-82.

The structure of the ASAP core complex reveals the existence of a Pinin-containing PSAP complex.
Murachelli AG, Ebert J, Basquin C, Le Hir H, Conti E
Nat Struct Mol Biol. 2012 Mar 4. 19(4):378-86.

Proteins associated with the exon junction complex also control the alternative splicing of apoptotic regulators.
Michelle L, Cloutier A, Toutant J, Shkreta L, Thibault P, Durand M, Garneau D, Gendron D, Lapointe E, Couture S, Le Hir H, Klinck R, Elela SA, Prinos P, Chabot B
Mol Cell Biol. 2012 Mar. 32(5):954-67.

The Transmission of Genes and Culture : A Questionable Analogy
Claidière N, André JB
Evolutionary Biology. 2012 Mar. 39(1):12-24.

Photoantenna in two cryptochrome–photolyase proteins from O. tauri : Presence, nature and ultrafast photoinduced dynamics
Brazard J, Ley C, Lacombat F, Plaza P, Mony L, Heijde M, Zabulon G, Bowler C,
Journal of Photochemistry and Photobiology A : Chemistry. 2012 Apr 15. 234:135-145.

Coagulation–fragmentation for a finite number of particles and application to telomere clustering in the yeast nucleus
Hozé N, Holcman D
Physics Letters A. 2012 Jan 30. 376(6-7):845-849.

Widespread intraspecific organismal stoichiometry among populations of the Trinidadian guppy
El‑Sabaawi RW, Zandonà E, Kohler TJ, Marshall MC, Moslemi JM, Travis J, López‑Sepulcre A, Ferriére R, Pringle CM, Thomas SA, Reznick DN, Flecker AS
Functional Ecology. 2012 Mar 12. 26(3):666-676.

Analysis of the Mean First Looping Time of a Rod-Polymer
Amitai A, Kupka I, Holcman D
Multiscale Modeling & Simulation. 2012 Jun 7. 10(2):612-632.

Brownian Motion in Dire Straits
Holcman D, Schuss Z
Multiscale Modeling & Simulation. 2012 Oct 18. 10(4):1204-1231.


2013

Neurodegeneration, neurogenesis, and oxidative stress.
Santos R, Ruiz de Almodóvar C, Bulteau AL, Gomes CM
Oxid Med Cell Longev. 2013. 2013:730581.

Computing the length of the shortest telomere in the nucleus.
Duc KD, Holcman D
Phys Rev Lett. 2013 Nov 27. 111(22):228104.

Dynamic micro-organization of P2X7 receptors revealed by PALM based single particle tracking.
Shrivastava AN, Rodriguez PC, Triller A, Renner M
Front Cell Neurosci. 2013. 7:232.

T-type channel blockade impairs long-term potentiation at the parallel fiber-Purkinje cell synapse and cerebellar learning.
Ly R, Bouvier G, Schonewille M, Arabo A, Rondi‑Reig L, Léna C, Casado M, De Zeeuw CI, Feltz A
Proc Natl Acad Sci U S A. 2013 Dec 10. 110(50):20302-7.

Integrative modelling of the influence of MAPK network on cancer cell fate decision.
Grieco L, Calzone L, Bernard‑Pierrot I, Radvanyi F, Kahn‑Perlès B, Thieffry D
PLoS Comput Biol. 2013 Oct. 9(10):e1003286.

Bioprospecting marine plankton.
Abida H, Ruchaud S, Rios L, Humeau A, Probert I, De Vargas C, Bach S, Bowler C
Mar Drugs. 2013 Nov 14. 11(11):4594-611.

Detection of single photons by toad and mouse rods.
Reingruber J, Pahlberg J, Woodruff ML, Sampath AP, Fain GL, Holcman D
Proc Natl Acad Sci U S A. 2013 Nov 26. 110(48):19378-83.

From simple bacterial and archaeal replicons to replication N/U-domains.
Hyrien O, Rappailles A, Guilbaud G, Baker A, Chen CL, Goldar A, Petryk N, Kahli M, Ma E, d’Aubenton‑Carafa Y, Audit B, Thermes C, Arneodo A
J Mol Biol. 2013 Nov 29. 425(23):4673-89.

Cytosolic transmitter concentration regulates vesicle cycling at hippocampal GABAergic terminals.
Wang L, Tu P, Bonet L, Aubrey KR, Supplisson S
Neuron. 2013 Oct 2. 80(1):143-58.

Activity-dependent regulation of the K/Cl transporter KCC2 membrane diffusion, clustering, and function in hippocampal neurons.
Chamma I, Heubl M, Chevy Q, Renner M, Moutkine I, Eugène E, Poncer JC, Lévi S
J Neurosci. 2013 Sep 25. 33(39):15488-503.

Dissection of a Krox20 positive feedback loop driving cell fate choices in hindbrain patterning.
Bouchoucha YX, Reingruber J, Labalette C, Wassef MA, Thierion E, Desmarquet‑Trin Dinh C, Holcman D, Gilardi‑Hebenstreit P, Charnay P
Mol Syst Biol. 2013. 9:690.

β-amyloid and ATP-induced diffusional trapping of astrocyte and neuronal metabotropic glutamate type-5 receptors.
Shrivastava AN, Kowalewski JM, Renner M, Bousset L, Koulakoff A, Melki R, Giaume C, Triller A
Glia. 2013 Oct. 61(10):1673-86.

Quantitative nanoscopy of inhibitory synapses : counting gephyrin molecules and receptor binding sites.
Specht CG, Izeddin I, Rodriguez PC, El Beheiry M, Rostaing P, Darzacq X, Dahan M, Triller A
Neuron. 2013 Jul 24. 79(2):308-21.

The first mecp2-null zebrafish model shows altered motor behaviors.
Pietri T, Roman AC, Guyon N, Romano SA, Washbourne P, Moens CB, de Polavieja GG, Sumbre G
Front Neural Circuits. 2013. 7:118.

DNA in motion during double-strand break repair.
Miné‑Hattab J, Rothstein R
Trends Cell Biol. 2013 Nov. 23(11):529-36.

Differential control of thrombospondin over synaptic glycine and AMPA receptors in spinal cord neurons.
Hennekinne L, Colasse S, Triller A, Renner M
J Neurosci. 2013 Jul 10. 33(28):11432-9.

Real-time dynamics of RNA polymerase II clustering in live human cells.
Cisse II, Izeddin I, Causse SZ, Boudarene L, Senecal A, Muresan L, Dugast‑Darzacq C, Hajj B, Dahan M, Darzacq X
Science. 2013 Aug 9. 341(6146):664-7.

Insights into the role of DNA methylation in diatoms by genome-wide profiling in Phaeodactylum tricornutum.
Veluchamy A, Lin X, Maumus F, Rivarola M, Bhavsar J, Creasy T, O’Brien K, Sengamalay NA, Tallon LJ, Smith AD, Rayko E, Ahmed I, Le Crom S, Farrant GK, Sgro JY, Olson SA, Bondurant SS, Allen AE, Rabinowicz PD, Sussman MR, Bowler C, Tirichine L
Nat Commun. 2013. 4:2091.

Control of flux by narrow passages and hidden targets in cellular biology.
Holcman D, Schuss Z
Rep Prog Phys. 2013 Jul. 76(7):074601.

DNA topoisomerase IIα controls replication origin cluster licensing and firing time in Xenopus egg extracts.
Gaggioli V, Le Viet B, Germe T, Hyrien O
Nucleic Acids Res. 2013 Aug. 41(15):7313-31.

Egr-1 induction provides a genetic response to food aversion in zebrafish.
Boyer B, Ernest S, Rosa F
Front Behav Neurosci. 2013. 7:51.

Unraveling novel features hidden in superresolution microscopy data.
Holcman D
Commun Integr Biol. 2013 May 1. 6(3):e23893.

NMDA receptor subunit diversity : impact on receptor properties, synaptic plasticity and disease.
Paoletti P, Bellone C, Zhou Q
Nat Rev Neurosci. 2013 Jun. 14(6):383-400.

Ancient origin of somatic and visceral neurons.
Nomaksteinsky M, Kassabov S, Chettouh Z, Stoeklé HC, Bonnaud L, Fortin G, Kandel ER, Brunet JF
BMC Biol. 2013 Apr 30. 11:53.

Sensory map transfer to the neocortex relies on pretarget ordering of thalamic axons.
Lokmane L, Proville R, Narboux‑Nême N, Györy I, Keita M, Mailhes C, Léna C, Gaspar P, Grosschedl R, Garel S
Curr Biol. 2013 May 6. 23(9):810-6.

A Phox2b::FLPo transgenic mouse line suitable for intersectional genetics.
Hirsch MR, d’Autréaux F, Dymecki SM, Brunet JF, Goridis C
Genesis. 2013 Jul. 51(7):506-14.

Functional role of the cerebellum in gamma-band synchronization of the sensory and motor cortices.
Popa D, Spolidoro M, Proville RD, Guyon N, Belliveau L, Léna C
J Neurosci. 2013 Apr 10. 33(15):6552-6.

Transcriptome-wide identification of RNA binding sites by CLIP-seq.
Murigneux V, Saulière J, Roest Crollius H, Le Hir H
Methods. 2013 Sep 1. 63(1):32-40.

Microglial control of neuronal activity.
Béchade C, Cantaut‑Belarif Y, Bessis A
Front Cell Neurosci. 2013. 7:32.

EJC core component MLN51 interacts with eIF3 and activates translation.
Chazal PE, Daguenet E, Wendling C, Ulryck N, Tomasetto C, Sargueil B, Le Hir H
Proc Natl Acad Sci U S A. 2013 Apr 9. 110(15):5903-8.

Pathfinding of corticothalamic axons relies on a rendezvous with thalamic projections.
Deck M, Lokmane L, Chauvet S, Mailhes C, Keita M, Niquille M, Yoshida M, Yoshida Y, Lebrand C, Mann F, Grove EA, Garel S
Neuron. 2013 Feb 6. 77(3):472-84.

A spike of electrodiffusion reaches metabotropic receptors.
Schwartz E, Barbour B
Neuron. 2013 Feb 6. 77(3):381-4.

The transcription factor Vox represses endoderm development by interacting with Casanova and Pou2.
Zhao J, Lambert G, Meijer AH, Rosa FM
Development. 2013 Mar. 140(5):1090-9.

Expanding the genetic code in Xenopus laevis oocytes.
Ye S, Riou M, Carvalho S, Paoletti P
Chembiochem. 2013 Jan 21. 14(2):230-5.

Tight intramolecular regulation of the human Upf1 helicase by its N- and C-terminal domains.
Fiorini F, Boudvillain M, Le Hir H
Nucleic Acids Res. 2013 Feb 1. 41(4):2404-15.

CTD serine-2 plays a critical role in splicing and termination factor recruitment to RNA polymerase II in vivo.
Gu B, Eick D, Bensaude O
Nucleic Acids Res. 2013 Feb 1. 41(3):1591-603.

Genomicus : five genome browsers for comparative genomics in eukaryota.
Louis A, Muffato M, Roest Crollius H
Nucleic Acids Res. 2013 Jan. 41(Database issue):D700-5.

Evolutionary entropy predicts the outcome of selection : Competition for resources that vary in abundance and diversity.
Demetrius L, Legendre S
Theor Popul Biol. 2013 Feb. 83:39-54.

Ablation of Egr2-positive cells in male mouse anterior pituitary leads to atypical isolated GH deficiency.
Bouchoucha YX, Charnay P, Gilardi‑Hebenstreit P
Endocrinology. 2013 Jan. 154(1):270-82.

Emerging role for RNA-based regulation in plant immunity.
Staiger D, Korneli C, Lummer M, Navarro L
New Phytol. 2013 Jan. 197(2):394-404.

Developing a sense of taste.
Kapsimali M, Barlow LA
Semin Cell Dev Biol. 2013 Mar. 24(3):200-9.

Eco-evolutionary feedbacks, adaptive dynamics and evolutionary rescue theory.
Ferriere R, Legendre S
Philos Trans R Soc Lond B Biol Sci. 2013 Jan 19. 368(1610):20120081.

Evolutionary rescue : an emerging focus at the intersection between ecology and evolution.
Gonzalez A, Ronce O, Ferriere R, Hochberg ME
Philos Trans R Soc Lond B Biol Sci. 2013 Jan 19. 368(1610):20120404.

Fast multicolor 3D imaging using aberration-corrected multifocus microscopy.
Abrahamsson S, Chen J, Hajj B, Stallinga S, Katsov AY, Wisniewski J, Mizuguchi G, Soule P, Mueller F, Dugast Darzacq C, Darzacq X, Wu C, Bargmann CI, Agard DA, Dahan M, Gustafsson MG
Nat Methods. 2013 Jan. 10(1):60-3.

Visualization of structural changes accompanying activation of N-methyl-D-aspartate (NMDA) receptors using fast-scan atomic force microscopy imaging.
Suzuki Y, Goetze TA, Stroebel D, Balasuriya D, Yoshimura SH, Henderson RM, Paoletti P, Takeyasu K, Edwardson JM
J Biol Chem. 2013 Jan 11. 288(2):778-84.

Experimental evidence for density-dependent regulation and selection on Trinidadian guppy life histories.
Bassar RD, Lopez‑Sepulcre A, Reznick DN, Travis J
Am Nat. 2013 Jan. 181(1):25-38.

Multiscale analysis of genome-wide replication timing profiles using a wavelet-based signal-processing algorithm.
Audit B, Baker A, Chen CL, Rappailles A, Guilbaud G, Julienne H, Goldar A, d’Aubenton‑Carafa Y, Hyrien O, Thermes C, Arneodo A
Nat Protoc. 2013 Jan. 8(1):98-110.

AUREOCHROME1a-mediated induction of the diatom-specific cyclin dsCYC2 controls the onset of cell division in diatoms (Phaeodactylum tricornutum).
Huysman MJ, Fortunato AE, Matthijs M, Costa BS, Vanderhaeghen R, Van den Daele H, Sachse M, Inzé D, Bowler C, Kroth PG, Wilhelm C, Falciatore A, Vyverman W, De Veylder L
Plant Cell. 2013 Jan. 25(1):215-28.

Species richness, distribution and genetic diversity of Caenorhabditis nematodes in a remote tropical rainforest.
Félix MA, Jovelin R, Ferrari C, Han S, Cho YR, Andersen EC, Cutter AD, Braendle C
BMC Evol Biol. 2013 Jan 12. 13:10.

Robustness and epistasis in the C. elegans vulval signaling network revealed by pathway dosage modulation.
Barkoulas M, van Zon JS, Milloz J, van Oudenaarden A, Félix MA
Dev Cell. 2013 Jan 14. 24(1):64-75.

Egr-2 transcription factor is required for Blimp-1-mediated IL-10 production in IL-27-stimulated CD4+ T cells.
Iwasaki Y, Fujio K, Okamura T, Yanai A, Sumitomo S, Shoda H, Tamura T, Yoshida H, Charnay P, Yamamoto K
Eur J Immunol. 2013 Apr. 43(4):1063-73.

How to measure maturation : a comparison of probabilistic methods used to test for genotypic variation and plasticity in the decision to mature.
Harney E, Van Dooren TJ, Paterson S, Plaistow SJ
Evolution. 2013 Feb. 67(2):525-38.

Comparative transcriptomics reveals different strategies of Trichoderma mycoparasitism.
Atanasova L, Le Crom S, Gruber S, Coulpier F, Seidl‑Seiboth V, Kubicek CP, Druzhinina IS
BMC Genomics. 2013 Feb 22. 14:121.

A mutualistic approach to morality : the evolution of fairness by partner choice.
Baumard N, André JB, Sperber D
Behav Brain Sci. 2013 Feb. 36(1):59-78.

Allosteric signaling and dynamics of the clamshell-like NMDA receptor GluN1 N-terminal domain.
Zhu S, Stroebel D, Yao CA, Taly A, Paoletti P
Nat Struct Mol Biol. 2013 Apr. 20(4):477-85.

On circuit functionality in Boolean networks.
Comet JP, Noual M, Richard A, Aracena J, Calzone L, Demongeot J, Kaufman M, Naldi A, Snoussi el H, Thieffry D
Bull Math Biol. 2013 Jun. 75(6):906-19.

FISH-quant : automatic counting of transcripts in 3D FISH images.
Mueller F, Senecal A, Tantale K, Marie‑Nelly H, Ly N, Collin O, Basyuk E, Bertrand E, Darzacq X, Zimmer C
Nat Methods. 2013 Apr. 10(4):277-8.

Partner choice, fairness, and the extension of morality.
Baumard N, André JB, Sperber D
Behav Brain Sci. 2013 Feb. 36(1):102-13.

Transcriptional and epigenetic signatures of zygotic genome activation during early Drosophila embryogenesis.
Darbo E, Herrmann C, Lecuit T, Thieffry D, van Helden J
BMC Genomics. 2013 Apr 5. 14:226.

Spatial telomere organization and clustering in yeast Saccharomyces cerevisiae nucleus is generated by a random dynamics of aggregation-dissociation.
Hozé N, Ruault M, Amoruso C, Taddei A, Holcman D
Mol Biol Cell. 2013 Jun. 24(11):1791-800, S1-10.

Fast functional imaging of multiple brain regions in intact zebrafish larvae using selective plane illumination microscopy.
Panier T, Romano SA, Olive R, Pietri T, Sumbre G, Candelier R, Debrégeas G
Front Neural Circuits. 2013. 7:65.

A role for vesicular glutamate transporter 1 in synaptic vesicle clustering and mobility.
Siksou L, Silm K, Biesemann C, Nehring RB, Wojcik SM, Triller A, El Mestikawy S, Marty S, Herzog E
Eur J Neurosci. 2013 May. 37(10):1631-42.

Nuclear retention of the transcription factor NLP7 orchestrates the early response to nitrate in plants.
Marchive C, Roudier F, Castaings L, Bréhaut V, Blondet E, Colot V, Meyer C, Krapp A
Nat Commun. 2013. 4:1713.

Extensive natural epigenetic variation at a de novo originated gene.
Silveira AB, Trontin C, Cortijo S, Barau J, Del Bem LE, Loudet O, Colot V, Vincentz M
PLoS Genet. 2013 Apr. 9(4):e1003437.

The zebrafish reference genome sequence and its relationship to the human genome.
Howe K, Clark MD, Torroja CF, Torrance J, Berthelot C, Muffato M, Collins JE, Humphray S, McLaren K, Matthews L, McLaren S, Sealy I, Caccamo M, Churcher C, Scott C, Barrett JC, Koch R, Rauch GJ, White S, Chow W, Kilian B, Quintais LT, Guerra‑Assunção JA, Zhou Y, Gu Y, Yen J, Vogel JH, Eyre T, Redmond S, Banerjee R, Chi J, Fu B, Langley E, Maguire SF, Laird GK, Lloyd D, Kenyon E, Donaldson S, Sehra H, Almeida‑King J, Loveland J, Trevanion S, Jones M, Quail M, Willey D, Hunt A, Burton J, Sims S, McLay K, Plumb B, Davis J, Clee C, Oliver K, Clark R, Riddle C, Elliot D, Threadgold G, Harden G, Ware D, Begum S, Mortimore B, Kerry G, Heath P, Phillimore B, Tracey A, Corby N, Dunn M, Johnson C, Wood J, Clark S, Pelan S, Griffiths G, Smith M, Glithero R, Howden P, Barker N, Lloyd C, Stevens C, Harley J, Holt K, Panagiotidis G, Lovell J, Beasley H, Henderson C, Gordon D, Auger K, Wright D, Collins J, Raisen C, Dyer L, Leung K, Robertson L, Ambridge K, Leongamornlert D, McGuire S, Gilderthorp R, Griffiths C, Manthravadi D, Nichol S, Barker G, Whitehead S, Kay M, Brown J, Murnane C, Gray E, Humphries M, Sycamore N, Barker D, Saunders D, Wallis J, Babbage A, Hammond S, Mashreghi‑Mohammadi M, Barr L, Martin S, Wray P, Ellington A, Matthews N, Ellwood M, Woodmansey R, Clark G, Cooper J, Tromans A, Grafham D, Skuce C, Pandian R, Andrews R, Harrison E, Kimberley A, Garnett J, Fosker N, Hall R, Garner P, Kelly D, Bird C, Palmer S, Gehring I, Berger A, Dooley CM, Ersan‑Ürün Z, Eser C, Geiger H, Geisler M, Karotki L, Kirn A, Konantz J, Konantz M, Oberländer M, Rudolph‑Geiger S, Teucke M, Lanz C, Raddatz G, Osoegawa K, Zhu B, Rapp A, Widaa S, Langford C, Yang F, Schuster SC, Carter NP, Harrow J, Ning Z, Herrero J, Searle SM, Enright A, Geisler R, Plasterk RH, Lee C, Westerfield M, de Jong PJ, Zon LI, Postlethwait JH, Nüsslein‑Volhard C, Hubbard TJ, Roest Crollius H, Rogers J, Stemple DL
Nature. 2013 Apr 25. 496(7446):498-503.

Adaptive radiation driven by the interplay of eco-evolutionary and landscape dynamics.
Aguilée R, Claessen D, Lambert A
Evolution. 2013 May. 67(5):1291-306.

Can we detect oceanic biodiversity hotspots from space ?
De Monte S, Soccodato A, Alvain S, d’Ovidio F
ISME J. 2013 Oct. 7(10):2054-6.

Cdc45 is a critical effector of myc-dependent DNA replication stress.
Srinivasan SV, Dominguez‑Sola D, Wang LC, Hyrien O, Gautier J
Cell Rep. 2013 May 30. 3(5):1629-39.

A blue-absorbing photolabile protecting group for in vivo chromatically orthogonal photoactivation.
Fournier L, Gauron C, Xu L, Aujard I, Le Saux T, Gagey‑Eilstein N, Maurin S, Dubruille S, Baudin JB, Bensimon D, Volovitch M, Vriz S, Jullien L
ACS Chem Biol. 2013 Jul 19. 8(7):1528-36.

Gene expression is circular : factors for mRNA degradation also foster mRNA synthesis.
Haimovich G, Medina DA, Causse SZ, Garber M, Millán‑Zambrano G, Barkai O, Chávez S, Pérez‑Ortín JE, Darzacq X, Choder M
Cell. 2013 May 23. 153(5):1000-11.

Structure of an A-form RNA duplex obtained by degradation of 6S RNA in a crystallization droplet.
Kondo J, Dock‑Bregeon AC, Willkomm DK, Hartmann RK, Westhof E
Acta Crystallogr Sect F Struct Biol Cryst Commun. 2013 Jun. 69(Pt 6):634-9.

The length of the shortest telomere as the major determinant of the onset of replicative senescence.
Xu Z, Duc KD, Holcman D, Teixeira MT
Genetics. 2013 Aug. 194(4):847-57.

Beyond lifetime reproductive success : the posthumous reproductive dynamics of male Trinidadian guppies.
López‑Sepulcre A, Gordon SP, Paterson IG, Bentzen P, Reznick DN
Proc Biol Sci. 2013 Jul 22. 280(1763):20131116.

Atmospheric moisture variability and transmission of hemorrhagic fever with renal syndrome in Changsha City, Mainland China, 1991-2010.
Xiao H, Tian HY, Cazelles B, Li XJ, Tong SL, Gao LD, Qin JX, Lin XL, Liu HN, Zhang XX
PLoS Negl Trop Dis. 2013. 7(6):e2260.

Pan genome of the phytoplankton Emiliania underpins its global distribution.
Read BA, Kegel J, Klute MJ, Kuo A, Lefebvre SC, Maumus F, Mayer C, Miller J, Monier A, Salamov A, Young J, Aguilar M, Claverie JM, Frickenhaus S, Gonzalez K, Herman EK, Lin YC, Napier J, Ogata H, Sarno AF, Shmutz J, Schroeder D, de Vargas C, Verret F, von Dassow P, Valentin K, Van de Peer Y, Wheeler G, Dacks JB, Delwiche CF, Dyhrman ST, Glöckner G, John U, Richards T, Worden AZ, Zhang X, Grigoriev IV
Nature. 2013 Jul 11. 499(7457):209-13.

Optical control and study of biological processes at the single-cell level in a live organism.
Feng Z, Zhang W, Xu J, Gauron C, Ducos B, Vriz S, Volovitch M, Jullien L, Weiss S, Bensimon D
Rep Prog Phys. 2013 Jul. 76(7):072601.

Hyperosmotic priming of Arabidopsis seedlings establishes a long-term somatic memory accompanied by specific changes of the epigenome.
Sani E, Herzyk P, Perrella G, Colot V, Amtmann A
Genome Biol. 2013 Jun 14. 14(6):R59.

Ecological emergence of thermal clines in body size.
Edeline E, Lacroix G, Delire C, Poulet N, Legendre S
Glob Chang Biol. 2013 Oct. 19(10):3062-8.

Depletion of microglia from primary cellular cultures.
Pont‑Lezica L, Colasse S, Bessis A
Methods Mol Biol. 2013. 1041:55-61.

Proteomic analysis of the SH2 domain-containing leukocyte protein of 76 kDa (SLP76) interactome in resting and activated primary mast cells [corrected].
Bounab Y, Hesse AM, Iannascoli B, Grieco L, Couté Y, Niarakis A, Roncagalli R, Lie E, Lam KP, Demangel C, Thieffry D, Garin J, Malissen B, Daëron M
Mol Cell Proteomics. 2013 Oct. 12(10):2874-89.

Dynamical modeling and analysis of large cellular regulatory networks.
Bérenguier D, Chaouiya C, Monteiro PT, Naldi A, Remy E, Thieffry D, Tichit L
Chaos. 2013 Jun. 23(2):025114.

DAP12 and CD11b contribute to the microglial-induced death of dopaminergic neurons in vitro but not in vivo in the MPTP mouse model of Parkinson’s disease.
Kinugawa K, Monnet Y, Béchade C, Alvarez‑Fischer D, Hirsch EC, Bessis A, Hunot S
J Neuroinflammation. 2013 Jul 11. 10:82.

Reconstructing de novo silencing of an active plant retrotransposon.
Marí‑Ordóñez A, Marchais A, Etcheverry M, Martin A, Colot V, Voinnet O
Nat Genet. 2013 Sep. 45(9):1029-39.

Cell-cell contacts confine public goods diffusion inside Pseudomonas aeruginosa clonal microcolonies.
Julou T, Mora T, Guillon L, Croquette V, Schalk IJ, Bensimon D, Desprat N
Proc Natl Acad Sci U S A. 2013 Jul 30. 110(31):12577-82.

Density-dependent life history and the dynamics of small populations.
Mugabo M, Perret S, Legendre S, Le Galliard JF
J Anim Ecol. 2013 Nov. 82(6):1227-39.

Logical modelling of Drosophila signalling pathways.
Mbodj A, Junion G, Brun C, Furlong EE, Thieffry D
Mol Biosyst. 2013 Sep. 9(9):2248-58.

Granule cell ascending axon excitatory synapses onto Golgi cells implement a potent feedback circuit in the cerebellar granular layer.
Cesana E, Pietrajtis K, Bidoret C, Isope P, D’Angelo E, Dieudonné S, Forti L
J Neurosci. 2013 Jul 24. 33(30):12430-46.

Rapid and sustained autologous neutralizing response leading to early spontaneous recovery after HCV infection.
Esteban‑Riesco L, Depaulis F, Moreau A, Bacq Y, Dubois F, Goudeau A, Gaudy‑Graffin C
Virology. 2013 Sep. 444(1-2):90-9.

Tubulin glycylases and glutamylases have distinct functions in stabilization and motility of ependymal cilia.
Bosch Grau M, Gonzalez Curto G, Rocha C, Magiera MM, Marques Sousa P, Giordano T, Spassky N, Janke C
J Cell Biol. 2013 Aug 5. 202(3):441-51.

Mobilization of a plant transposon by expression of the transposon-encoded anti-silencing factor.
Fu Y, Kawabe A, Etcheverry M, Ito T, Toyoda A, Fujiyama A, Colot V, Tarutani Y, Kakutani T
EMBO J. 2013 Aug 28. 32(17):2407-17.

Evaluation of MeDIP-chip in the context of whole-genome bisulfite sequencing (WGBS-seq) in Arabidopsis.
Wardenaar R, Liu H, Colot V, Colomé‑Tatché M, Johannes F
Methods Mol Biol. 2013. 1067:203-24.

Monitoring tectal neuronal activities and motor behavior in zebrafish larvae.
Sumbre G, Poo MM
Cold Spring Harb Protoc. 2013 Sep 1. 2013(9):873-9.

RecG and UvsW catalyse robust DNA rewinding critical for stalled DNA replication fork rescue.
Manosas M, Perumal SK, Bianco PR, Ritort F, Benkovic SJ, Croquette V
Nat Commun. 2013. 4:2368.

Clusters of cerebellar Purkinje cells control their afferent climbing fiber discharge.
Chaumont J, Guyon N, Valera AM, Dugué GP, Popa D, Marcaggi P, Gautheron V, Reibel‑Foisset S, Dieudonné S, Stephan A, Barrot M, Cassel JC, Dupont JL, Doussau F, Poulain B, Selimi F, Léna C, Isope P
Proc Natl Acad Sci U S A. 2013 Oct 1. 110(40):16223-8.

A naturally occurring insertion of a single amino acid rewires transcriptional regulation by glucocorticoid receptor isoforms.
Thomas‑Chollier M, Watson LC, Cooper SB, Pufall MA, Liu JS, Borzym K, Vingron M, Yamamoto KR, Meijsing SH
Proc Natl Acad Sci U S A. 2013 Oct 29. 110(44):17826-31.

The dynamic synapse.
Choquet D, Triller A
Neuron. 2013 Oct 30. 80(3):691-703.

Two Leucobacter strains exert complementary virulence on Caenorhabditis including death by worm-star formation.
Hodgkin J, Félix MA, Clark LC, Stroud D, Gravato‑Nobre MJ
Curr Biol. 2013 Nov 4. 23(21):2157-61.

High-frequency promoter firing links THO complex function to heavy chromatin formation.
Mouaikel J, Causse SZ, Rougemaille M, Daubenton‑Carafa Y, Blugeon C, Lemoine S, Devaux F, Darzacq X, Libri D
Cell Rep. 2013 Nov 27. 5(4):1082-94.

Crystal structure of the human eIF4AIII-CWC22 complex shows how a DEAD-box protein is inhibited by a MIF4G domain.
Buchwald G, Schüssler S, Basquin C, Le Hir H, Conti E
Proc Natl Acad Sci U S A. 2013 Nov 26. 110(48):E4611-8.

Modeling the structure of RNA molecules with small-angle X-ray scattering data.
Gajda MJ, Martinez Zapien D, Uchikawa E, Dock‑Bregeon AC
PLoS One. 2013. 8(11):e78007.

Does homologous reinfection drive multiple-wave influenza outbreaks ? Accounting for immunodynamics in epidemiological models.
Camacho A, Cazelles B
Epidemics. 2013 Dec. 5(4):187-96.

Epigenetic diversity increases the productivity and stability of plant populations.
Latzel V, Allan E, Bortolini Silveira A, Colot V, Fischer M, Bossdorf O
Nat Commun. 2013. 4:2875.

Epigenetics of ciliates.
Chalker DL, Meyer E, Mochizuki K
Cold Spring Harb Perspect Biol. 2013 Dec 1. 5(12):a017764.

SBML qualitative models : a model representation format and infrastructure to foster interactions between qualitative modelling formalisms and tools.
Chaouiya C, Bérenguier D, Keating SM, Naldi A, van Iersel MP, Rodriguez N, Dräger A, Büchel F, Cokelaer T, Kowal B, Wicks B, Gonçalves E, Dorier J, Page M, Monteiro PT, von Kamp A, Xenarios I, de Jong H, Hucka M, Klamt S, Thieffry D, Le Novère N, Saez‑Rodriguez J, Helikar T
BMC Syst Biol. 2013 Dec 10. 7:135.

Polymer model with long-range interactions : analysis and applications to the chromatin structure.
Amitai A, Holcman D
Phys Rev E Stat Nonlin Soft Matter Phys. 2013 Nov. 88(5):052604.

Biological information : why we need a good measure and the challenges ahead.
van Baalen M
Interface Focus. 2013 Dec 6. 3(6):20130030.

Diffusing polymers in confined microdomains and estimation of chromosomal territory sizes from chromosome capture data.
Amitai A, Holcman D
Phys Rev Lett. 2013 Jun 14. 110(24):248105.

Dynamics and biological relevance of DNA demethylation in Arabidopsis antibacterial defense.
Yu A, Lepère G, Jay F, Wang J, Bapaume L, Wang Y, Abraham AL, Penterman J, Fischer RL, Voinnet O, Navarro L
Proc Natl Acad Sci U S A. 2013 Feb 5. 110(6):2389-94.

Epigenetic variation creates potential for evolution of plant phenotypic plasticity.
Zhang YY, Fischer M, Colot V, Bossdorf O
New Phytol. 2013 Jan. 197(1):314-22.

A deletion polymorphism in the Caenorhabditis elegans RIG-I homolog disables viral RNA dicing and antiviral immunity.
Ashe A, Bélicard T, Le Pen J, Sarkies P, Frézal L, Lehrbach NJ, Félix MA, Miska EA
Elife. 2013 Oct 8. 2:e00994.

Crystal structure of the human eIF4AIII-CWC22 complex shows how a DEAD-box protein is inhibited by a MIF4G domain.
Buchwald G, Schüssler S, Basquin C, Le Hir H, Conti E
Proc Natl Acad Sci U S A. 2013 Nov 26. 110(48):E4611-8.

Kinetics of Diffusing Polymer Encounter in Confined Cellular Microdomains
AmitaiI A, Kupka I, Holcman D
Journal of Statistical Physics. 2013 Dec 13. 153(6):1107-1131.

Intermittent breeding and the dynamics of resource allocation to reproduction, growth and survival
Baron JP, Le Galliard JF, Ferrière R, Tully T
Functional Ecology. 2013 Jan 28. 27(1):173-183.

Physics of sinking and selection of plankton cell size
Sciascia R, De Monte S, Provenzale A
Physics Letters A. 2013 Feb 4. 377(6):467-472.

Ecological implications of eddy retention in the open ocean : a Lagrangian approach
D’Ovidio F, De Monte S, Della Penna A, Cotté C, Guinet C
Journal of Physics A : Mathematical and Theoretical. 2013 Jun 4. 46(25):254023.

Food-web aggregation, methodological and functional issues
Gauzens B, Legendre S, Lazzaro X, Lacroix G
OIKOS Synthesising Ecology. 2013 Apr 25. 122(11):1606-1615.

Reconstruction of Surface and Stochastic Dynamics from a Planar Projection of Trajectories
Hoze N, Schuss Z, Holcman D
SIAM Journal on Imaging Sciences. 2013 Dec 3. 6(4):2430-2449.


2014

Kinetic transcriptome analysis reveals an essentially intact induction system in a cellulase hyper-producer Trichoderma reesei strain.
Poggi‑Parodi D, Bidard F, Pirayre A, Portnoy T, Blugeon C, Seiboth B, Kubicek CP, Le Crom S, Margeot A
Biotechnol Biofuels. 2014. 7(1):173.

Residence times of receptors in dendritic spines analyzed by stochastic simulations in empirical domains.
Hoze N, Holcman D
Biophys J. 2014 Dec 16. 107(12):3008-17.

Controlling NMDA receptor subunit composition using ectopic retention signals.
Stroebel D, Carvalho S, Grand T, Zhu S, Paoletti P
J Neurosci. 2014 Dec 10. 34(50):16630-6.

Signaling switch of the axon guidance receptor Robo3 during vertebrate evolution.
Zelina P, Blockus H, Zagar Y, Péres A, Friocourt F, Wu Z, Rama N, Fouquet C, Hohenester E, Tessier‑Lavigne M, Schweitzer J, Roest Crollius H, Chédotal A
Neuron. 2014 Dec 17. 84(6):1258-72.

TE-Tracker : systematic identification of transposition events through whole-genome resequencing.
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Role of the DHH1 gene in the regulation of monocarboxylic acids transporters expression in Saccharomyces cerevisiae.
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Loss of Krox20 results in aortic valve regurgitation and impaired transcriptional activation of fibrillar collagen genes.
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The conserved barH-like homeobox-2 gene barhl2 acts downstream of orthodentricle-2 and together with iroquois-3 in establishment of the caudal forebrain signaling center induced by Sonic Hedgehog.
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PLoS Comput Biol. 2014 Oct. 10(10):e1003834.

Adhesion molecules from the diatom Phaeodactylum tricornutum (Bacillariophyceae) : genomic identification by amino-acid profiling and in vivo analysis.
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Neuron. 2014 Oct 1. 84(1):137-151.

Dlg1 controls planar spindle orientation in the neuroepithelium through direct interaction with LGN.
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Computational and mathematical methods for morphogenetic gradient analysis, boundary formation and axonal targeting.
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Semin Cell Dev Biol. 2014 Nov. 35:189-202.

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Ku-mediated coupling of DNA cleavage and repair during programmed genome rearrangements in the ciliate Paramecium tetraurelia.
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PLoS Genet. 2014 Aug. 10(8):e1004552.

Microglia modulate wiring of the embryonic forebrain.
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Cell Rep. 2014 Sep 11. 8(5):1271-9.

Optogenetic recruitment of dorsal raphe serotonergic neurons acutely decreases mechanosensory responsivity in behaving mice.
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The world according to zebrafish : how neural circuits generate behavior.
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Front Neural Circuits. 2014. 8:91.

Microbial priming of plant and animal immunity : symbionts as developmental signals.
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Trends Microbiol. 2014 Nov. 22(11):607-13.

Computational modeling of the main signaling pathways involved in mast cell activation.
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PhylDiag : identifying complex synteny blocks that include tandem duplications using phylogenetic gene trees.
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BMC Bioinformatics. 2014 Aug 8. 15:268.

Broad-host-range vector system for synthetic biology and biotechnology in cyanobacteria.
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Nucleic Acids Res. 2014. 42(17):e136.

Cerebellum involvement in cortical sensorimotor circuits for the control of voluntary movements.
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Nat Neurosci. 2014 Sep. 17(9):1233-9.

The molecular life of diatoms.
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Mar Genomics. 2014 Aug. 16:1-3.

Map transfer from the thalamus to the neocortex : inputs from the barrel field.
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Semin Cell Dev Biol. 2014 Nov. 35:147-55.

Differential GABAergic and glycinergic inputs of inhibitory interneurons and Purkinje cells to principal cells of the cerebellar nuclei.
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J Neurosci. 2014 Jul 9. 34(28):9418-31.

Neuroscience : A structure to remember.
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Nature. 2014 Jul 10. 511(7508):162-3.

The plant RWP-RK transcription factors : key regulators of nitrogen responses and of gametophyte development.
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J Exp Bot. 2014 Oct. 65(19):5577-87.

A Cyclin T1 point mutation that abolishes positive transcription elongation factor (P-TEFb) binding to Hexim1 and HIV tat.
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Retrovirology. 2014 Jul 1. 11:50.

Transcription factors modulate c-Fos transcriptional bursts.
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Cell Rep. 2014 Jul 10. 8(1):75-83.

Geometry of the nucleus : a perspective on gene expression regulation.
Woringer M, Darzacq X, Izeddin I
Curr Opin Chem Biol. 2014 Jun. 20:112-9.

Natural occurring epialleles determine vitamin E accumulation in tomato fruits.
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Nat Commun. 2014 Jun 26. 5:3027.

Modélisation de réseaux biologiques et médecine de précision en oncologie.
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Bull Cancer. 2014 Jun. 101 Suppl 1:S18-21.

SLK-dependent activation of ERMs controls LGN-NuMA localization and spindle orientation.
Machicoane M, de Frutos CA, Fink J, Rocancourt M, Lombardi Y, Garel S, Piel M, Echard A
J Cell Biol. 2014 Jun 23. 205(6):791-9.

SnapShot : receptor dynamics at plastic synapses.
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Cell. 2014 Jun 19. 157(7):1738-1738.e1.

How to control proteins with light in living systems.
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Nat Chem Biol. 2014 Jul. 10(7):533-41.

Neurodevelopment. Parasympathetic ganglia derive from Schwann cell precursors.
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Science. 2014 Jul 4. 345(6192):87-90.

Single-molecule tracking in live cells reveals distinct target-search strategies of transcription factors in the nucleus.
Izeddin I, Récamier V, Bosanac L, Cissé II, Boudarene L, Dugast‑Darzacq C, Proux F, Bénichou O, Voituriez R, Bensaude O, Dahan M, Darzacq X
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Zinc dynamics and action at excitatory synapses.
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Neuron. 2014 Jun 4. 82(5):1101-14.

A forward genetic screen reveals essential and non-essential RNAi factors in Paramecium tetraurelia.
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Nucleic Acids Res. 2014 Jun. 42(11):7268-80.

Re-print of "Histone extraction protocol from the two model diatoms Phaeodactylum tricornutum and Thalassiosira pseudonana".
Tirichine L, Lin X, Thomas Y, Lombard B, Loew D, Bowler C
Mar Genomics. 2014 Aug. 16:67-71.

The complete genome of Blastobotrys (Arxula) adeninivorans LS3 - a yeast of biotechnological interest.
Kunze G, Gaillardin C, Czernicka M, Durrens P, Martin T, Böer E, Gabaldón T, Cruz JA, Talla E, Marck C, Goffeau A, Barbe V, Baret P, Baronian K, Beier S, Bleykasten C, Bode R, Casaregola S, Despons L, Fairhead C, Giersberg M, Gierski PP, Hähnel U, Hartmann A, Jankowska D, Jubin C, Jung P, Lafontaine I, Leh‑Louis V, Lemaire M, Marcet‑Houben M, Mascher M, Morel G, Richard GF, Riechen J, Sacerdot C, Sarkar A, Savel G, Schacherer J, Sherman DJ, Stein N, Straub ML, Thierry A, Trautwein‑Schult A, Vacherie B, Westhof E, Worch S, Dujon B, Souciet JL, Wincker P, Scholz U, Neuvéglise C
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Genome-defence small RNAs exapted for epigenetic mating-type inheritance.
Singh DP, Saudemont B, Guglielmi G, Arnaiz O, Goût JF, Prajer M, Potekhin A, Przybòs E, Aubusson‑Fleury A, Bhullar S, Bouhouche K, Lhuillier‑Akakpo M, Tanty V, Blugeon C, Alberti A, Labadie K, Aury JM, Sperling L, Duharcourt S, Meyer E
Nature. 2014 May 22. 509(7501):447-52.

From dinosaurs to modern bird diversity : extending the time scale of adaptive radiation.
Moen D, Morlon H
PLoS Biol. 2014 May. 12(5):e1001854.

Methylcrotonyl-CoA Carboxylase Regulates Triacylglycerol Accumulation in the Model Diatom Phaeodactylum tricornutum.
Ge F, Huang W, Chen Z, Zhang C, Xiong Q, Bowler C, Yang J, Xu J, Hu H
Plant Cell. 2014 Apr. 26(4):1681-1697.

Genetics. Being selective in the Prochlorococcus collective.
Bowler C, Scanlan DJ
Science. 2014 Apr 25. 344(6182):366-7.

Settling down of seasonal migrants promotes bird diversification.
Rolland J, Jiguet F, Jønsson KA, Condamine FL, Morlon H
Proc Biol Sci. 2014 Jun 7. 281(1784):20140473.

The rainbow trout genome provides novel insights into evolution after whole-genome duplication in vertebrates.
Berthelot C, Brunet F, Chalopin D, Juanchich A, Bernard M, Noël B, Bento P, Da Silva C, Labadie K, Alberti A, Aury JM, Louis A, Dehais P, Bardou P, Montfort J, Klopp C, Cabau C, Gaspin C, Thorgaard GH, Boussaha M, Quillet E, Guyomard R, Galiana D, Bobe J, Volff JN, Genêt C, Wincker P, Jaillon O, Roest Crollius H, Guiguen Y
Nat Commun. 2014 Apr 22. 5:3657.

Cell-penetrating nanobiosensors for pointillistic intracellular Ca2+-transient detection.
Zamaleeva AI, Collot M, Bahembera E, Tisseyre C, Rostaing P, Yakovlev AV, Oheim M, de Waard M, Mallet JM, Feltz A
Nano Lett. 2014 Jun 11. 14(6):2994-3001.

Huntingtin regulates mammary stem cell division and differentiation.
Elias S, Thion MS, Yu H, Sousa CM, Lasgi C, Morin X, Humbert S
Stem Cell Reports. 2014 Apr 8. 2(4):491-506.

GABAA receptor subunit composition and competition at synapses are tuned by GABAB receptor activity.
Gerrow K, Triller A
Mol Cell Neurosci. 2014 May. 60:97-107.

Inputs from the thalamocortical system on axon pathfinding mechanisms.
Garel S, López‑Bendito G
Curr Opin Neurobiol. 2014 Aug. 27:143-50.

Nascent multicellular life and the emergence of individuality.
De Monte S, Rainey PB
J Biosci. 2014 Apr. 39(2):237-48.

Oscillatory decay of the survival probability of activated diffusion across a limit cycle.
Dao Duc K, Schuss Z, Holcman D
Phys Rev E Stat Nonlin Soft Matter Phys. 2014 Mar. 89(3):030101.

A streamlined system for species diagnosis in Caenorhabditis (Nematoda : Rhabditidae) with name designations for 15 distinct biological species.
Félix MA, Braendle C, Cutter AD
PLoS One. 2014. 9(4):e94723.

The SNARE Sec22b has a non-fusogenic function in plasma membrane expansion.
Petkovic M, Jemaiel A, Daste F, Specht CG, Izeddin I, Vorkel D, Verbavatz JM, Darzacq X, Triller A, Pfenninger KH, Tareste D, Jackson CL, Galli T
Nat Cell Biol. 2014 May. 16(5):434-44.

Protein aggregation and prionopathies.
Renner M, Melki R
Pathol Biol (Paris). 2014 Jun. 62(3):162-8.

New red-fluorescent calcium indicators for optogenetics, photoactivation and multi-color imaging.
Oheim M, van ’t Hoff M, Feltz A, Zamaleeva A, Mallet JM, Collot M
Biochim Biophys Acta. 2014 Oct. 1843(10):2284-306.

Transgenerational epigenetic inheritance : myths and mechanisms.
Heard E, Martienssen RA
Cell. 2014 Mar 27. 157(1):95-109.

miRNAs trigger widespread epigenetically activated siRNAs from transposons in Arabidopsis.
Creasey KM, Zhai J, Borges F, Van Ex F, Regulski M, Meyers BC, Martienssen RA
Nature. 2014 Apr 17. 508(7496):411-5.

Single cell correlation fractal dimension of chromatin : a framework to interpret 3D single molecule super-resolution.
Récamier V, Izeddin I, Bosanac L, Dahan M, Proux F, Darzacq X
Nucleus. 2014 Jan-Feb. 5(1):75-84.

Mechanistic constraints and the unlikely evolution of reciprocal cooperation.
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J Evol Biol. 2014 Apr. 27(4):784-95.

NOS2 expression is restricted to neurons in the healthy brain but is triggered in microglia upon inflammation.
Béchade C, Colasse S, Diana MA, Rouault M, Bessis A
Glia. 2014 Jun. 62(6):956-63.

Evolution of galactoglycerolipid biosynthetic pathways—from cyanobacteria to primary plastids and from primary to secondary plastids.
Petroutsos D, Amiar S, Abida H, Dolch LJ, Bastien O, Rébeillé F, Jouhet J, Falconet D, Block MA, McFadden GI, Bowler C, Botté C, Maréchal E
Prog Lipid Res. 2014 Apr. 54:68-85.

Microglia shape corpus callosum axon tract fasciculation : functional impact of prenatal inflammation.
Pont‑Lezica L, Beumer W, Colasse S, Drexhage H, Versnel M, Bessis A
Eur J Neurosci. 2014 May. 39(10):1551-7.

Differential adhesion between moving particles as a mechanism for the evolution of social groups.
Garcia T, Brunnet LG, De Monte S
PLoS Comput Biol. 2014 Feb. 10(2):e1003482.

Connexin 30 sets synaptic strength by controlling astroglial synapse invasion.
Pannasch U, Freche D, Dallérac G, Ghézali G, Escartin C, Ezan P, Cohen‑Salmon M, Benchenane K, Abudara V, Dufour A, Lübke JH, Déglon N, Knott G, Holcman D, Rouach N
Nat Neurosci. 2014 Apr. 17(4):549-58.

The impact of chromatin dynamics on plant light responses and circadian clock function.
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J Exp Bot. 2014 Jun. 65(11):2895-913.

Multiplex cell and lineage tracking with combinatorial labels.
Loulier K, Barry R, Mahou P, Le Franc Y, Supatto W, Matho KS, Ieng S, Fouquet S, Dupin E, Benosman R, Chédotal A, Beaurepaire E, Morin X, Livet J
Neuron. 2014 Feb 5. 81(3):505-20.

Mapping the epigenetic basis of complex traits.
Cortijo S, Wardenaar R, Colomé‑Tatché M, Gilly A, Etcheverry M, Labadie K, Caillieux E, Hospital F, Aury JM, Wincker P, Roudier F, Jansen RC, Colot V, Johannes F
Science. 2014 Mar 7. 343(6175):1145-8.

Genome-wide analysis of DNA methylation in Arabidopsis using MeDIP-chip.
Cortijo S, Wardenaar R, Colomé‑Tatché M, Johannes F, Colot V
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Role of the plasticity-associated transcription factor zif268 in the early phase of instrumental learning.
Maroteaux M, Valjent E, Longueville S, Topilko P, Girault JA, Hervé D
PLoS One. 2014. 9(1):e81868.

The Arabidopsis miR472-RDR6 silencing pathway modulates PAMP- and effector-triggered immunity through the post-transcriptional control of disease resistance genes.
Boccara M, Sarazin A, Thiébeauld O, Jay F, Voinnet O, Navarro L, Colot V
PLoS Pathog. 2014 Jan. 10(1):e1003883.

Ultra-rapid axon-axon ephaptic inhibition of cerebellar Purkinje cells by the pinceau.
Blot A, Barbour B
Nat Neurosci. 2014 Feb. 17(2):289-95.

Mapping the energy and diffusion landscapes of membrane proteins at the cell surface using high-density single-molecule imaging and Bayesian inference : application to the multiscale dynamics of glycine receptors in the neuronal membrane.
Masson JB, Dionne P, Salvatico C, Renner M, Specht CG, Triller A, Dahan M
Biophys J. 2014 Jan 7. 106(1):74-83.

Neuroscience. Young neurons sever ties to the parental niche.
Tozer S, Morin X
Science. 2014 Jan 10. 343(6167):146-7.

Exposure to bloom-like concentrations of two marine Synechococcus cyanobacteria (strains CC9311 and CC9902) differentially alters fish behaviour.
Hamilton TJ, Paz‑Yepes J, Morrison RA, Palenik B, Tresguerres M
Conserv Physiol. 2014. 2(1):cou020.

Time-resolved gene expression profiling during reprogramming of C/EBPα-pulsed B cells into iPS cells.
Di Stefano B, Collombet S, Graf T
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Proceedings of the fourth international conference on central hypoventilation.
Trang H, Brunet JF, Rohrer H, Gallego J, Amiel J, Bachetti T, Fischbeck KH, Similowski T, Straus C, Ceccherini I, Weese‑Mayer DE, Frerick M, Bieganowska K, Middleton L, Morandi F, Ottonello G
Orphanet J Rare Dis. 2014 Dec 5. 9:194.

C/EBPα poises B cells for rapid reprogramming into induced pluripotent stem cells.
Di Stefano B, Sardina JL, van Oevelen C, Collombet S, Kallin EM, Vicent GP, Lu J, Thieffry D, Beato M, Graf T
Nature. 2014 Feb 13. 506(7487):235-9.

Cytokinin signalling inhibitory fields provide robustness to phyllotaxis.
Besnard F, Refahi Y, Morin V, Marteaux B, Brunoud G, Chambrier P, Rozier F, Mirabet V, Legrand J, Lainé S, Thévenon E, Farcot E, Cellier C, Das P, Bishopp A, Dumas R, Parcy F, Helariutta Y, Boudaoud A, Godin C, Traas J, Guédon Y, Vernoux T
Nature. 2014 Jan 16. 505(7483):417-21.

Histone extraction protocol from the two model diatoms Phaeodactylum tricornutum and Thalassiosira pseudonana.
Tirichine L, Lin X, Thomas Y, Lombard B, Loew D, Bowler C
Mar Genomics. 2014 Feb. 13:21-5.

Links between topology of the transition graph and limit cycles in a two-dimensional piecewise affine biological model.
Abou‑Jaoudé W, Chaves M, Gouzé JL
J Math Biol. 2014 Dec. 69(6-7):1461-95.

Quantification of the density of cooperative neighboring synapses required to evoke endocannabinoid signaling.
Pachoud B, Sharma P, Bergerot A, Knöpfel T, Marcaggi P
Neuroscience. 2014 Jan 3. 256:412-25.

Adaptive and non-adaptive changes in activity-deprived presynaptic terminals.
Horellou S, Pascual O, Triller A, Marty S
Eur J Neurosci. 2014 Jan. 39(1):61-71.

An RNAi screen for Aire cofactors reveals a role for Hnrnpl in polymerase release and Aire-activated ectopic transcription.
Giraud M, Jmari N, Du L, Carallis F, Nieland TJ, Perez‑Campo FM, Bensaude O, Root DE, Hacohen N, Mathis D, Benoist C
Proc Natl Acad Sci U S A. 2014 Jan 28. 111(4):1491-6.

Ebf factors and MyoD cooperate to regulate muscle relaxation via Atp2a1.
Jin S, Kim J, Willert T, Klein‑Rodewald T, Garcia‑Dominguez M, Mosqueira M, Fink R, Esposito I, Hofbauer LC, Charnay P, Kieslinger M
Nat Commun. 2014 May 2. 5:3793.

Relationship between genome and epigenome—challenges and requirements for future research.
Almouzni G, Altucci L, Amati B, Ashley N, Baulcombe D, Beaujean N, Bock C, Bongcam‑Rudloff E, Bousquet J, Braun S, Bressac‑de Paillerets B, Bussemakers M, Clarke L, Conesa A, Estivill X, Fazeli A, Grgurević N, Gut I, Heijmans BT, Hermouet S, Houwing‑Duistermaat J, Iacobucci I, Ilaš J, Kandimalla R, Krauss‑Etschmann S, Lasko P, Lehmann S, Lindroth A, Majdič G, Marcotte E, Martinelli G, Martinet N, Meyer E, Miceli C, Mills K, Moreno‑Villanueva M, Morvan G, Nickel D, Niesler B, Nowacki M, Nowak J, Ossowski S, Pelizzola M, Pochet R, Potočnik U, Radwanska M, Raes J, Rattray M, Robinson MD, Roelen B, Sauer S, Schinzer D, Slagboom E, Spector T, Stunnenberg HG, Tiligada E, Torres‑Padilla ME, Tsonaka R, Van Soom A, Vidaković M, Widschwendter M
BMC Genomics. 2014 Jun 18. 15:487.

A single point mutation in cyclin T1 eliminates binding to Hexim1, Cdk9 and RNA but not to AFF4 and enforces repression of HIV transcription.
Kuzmina A, Verstraete N, Galker S, Maatook M, Bensaude O, Taube R
Retrovirology. 2014 Jul 1. 11:51.

The loss of adipokine genes in the chicken genome and implications for insulin metabolism.
Daković N, Térézol M, Pitel F, Maillard V, Elis S, Leroux S, Lagarrigue S, Gondret F, Klopp C, Baeza E, Duclos MJ, Roest Crollius H, Monget P
Mol Biol Evol. 2014 Oct. 31(10):2637-46.

Description of embryonic development of spotted green pufferfish (Tetraodon nigroviridis).
Zaucker A, Bodur T, Roest Crollius H, Hadzhiev Y, Gehrig J, Loosli F, Watson C, Müller F
Zebrafish. 2014 Dec. 11(6):509-17.

Benzodiazepine-dependent stabilization of GABA(A) receptors at synapses.
Gouzer G, Specht CG, Allain L, Shinoe T, Triller A
Mol Cell Neurosci. 2014 Nov. 63:101-13.

Orsay, Santeuil and Le Blanc viruses primarily infect intestinal cells in Caenorhabditis nematodes.
Franz CJ, Renshaw H, Frezal L, Jiang Y, Félix MA, Wang D
Virology. 2014 Jan 5. 448:255-64.

Isolation of C. elegans and related nematodes.
Barrière A, Félix MA
WormBook. 2014 May 2:1-19.

Transcriptome-wide modulation of splicing by the exon junction complex.
Wang Z, Murigneux V, Le Hir H
Genome Biol. 2014. 15(12):551.

bPeaks : a bioinformatics tool to detect transcription factor binding sites from ChIPseq data in yeasts and other organisms with small genomes.
Merhej J, Frigo A, Le Crom S, Camadro JM, Devaux F, Lelandais G
Yeast. 2014 Oct. 31(10):375-91.

Modeling capsid kinetics assembly from the steady state distribution of multi-sizes aggregates
Hozé N, Holcman D
Physics Letters A. 2014 Jan 24. 378(5-6):531-534.

From the chromatin interaction network to the organization of the human genome into replication N/U-domains
Boulos RE, Julienne H, Baker A, Chen CL, Petryk N, Kahli M, DʼAubenton‑Carafa Y, Goldar A, Jensen P, Hyrien O, Thermes C, Arneodo A, Audit B
New Journal of Physics. 2014 Nov 20. 16:115014.



2010


BioRxiv

Vascular dysfunction is at the onset of oxaliplatin-induced peripheral neuropathy symptoms in mice
Sonia, Taib, Juliette, Durand, Anne‑Cecile, Boulay, Vianney, Dehais, Sabrina, Martin, Corinne, Blugeon, Laurent, Jourdren, Martine, Cohen‑Salmon, Jamile, Hazan, Isabelle V, Brunet
BioRxiv.

Evolutionary rescue of spherical mreB deletion mutants of the rod-shape bacterium Pseudomonas fluorescens SBW25
P. Richard, J. Yulo, Nicolas, Desprat, Monica L., Gerth, Barbara, Ritzl‑Rinkenberger, Andrew D., Farr, Yunhao, Liu, Xue‑Xian, Zhang, Michael, Miller, Felipe, Cava, Paul B., Rainey, Heather L., Hendrickson
BioRxiv.

Transposable element products, functions, and regulatory networks in Arabidopsis
Carles, Borreda, Basile, Leduque, Vincent, Colot, Leandro, Quadrana
BioRxiv.

Microgliosis driven by palmitate exposure alters energy metabolism and extracellular vesicles release that impact behavior and systemic metabolism
Gabriela C., De Paula, Blanca, Aldana, Roberta, Battistella, Rosalia Fernández, Calle, Andreas, Bjure, Iben, Lundgaard, Tomas, Deierborg, João M. N., Duarte
BioRxiv.

A tunable and versatile chemogenetic near infrared fluorescent reporter
Lina El, Hajji, Benjamin, Bunel, Octave, Joliot, Chenge, Li, Alison G., Tebo, Christine, Rampon, Michel, Volovitch, Evelyne, Fischer, Nicolas, Pietrancosta, Franck, Perez, Xavier, Morin, Sophie, Vriz, Arnaud, Gautier
BioRxiv.

Complementary environmental analysis and functional characterization of a plastid diatom lower glycolytic-gluconeogenesis pathway
Richard G., Dorrell, Youjun, Zhang, Yue, Liang, Nolwenn, Gueguen, Tomomi, Nonoyama, Dany, Croteau, Mathias, Penot, Sandrine, Adiba, Benjamin, Bailleul, Valérie, Gros, Juan José Pierella, Karlusich, Nathanaël, Zweig, Alisdair R., Fernie, Juliette, Jouhet, Eric, Maréchal, Chris, Bowler
BioRxiv.

Dynamic role of GlyT1 as glycine sink or source : pharmacological implications for the gain control of NMDA receptors
Stéphane, Supplisson
BioRxiv.

Loci associated with cave-derived traits concentrate in specific regions of the Mexican cavefish genome
Jonathan, Wiese, Emilie, Richards, Johanna E., Kowalko, Suzanne E., McGaugh
BioRxiv.

QuartPlotR : A quarternary phase diagram tool
Alaguraj, Veluchamy, Chris, Bowler
BioRxiv.

Nucleoid-associated proteins shape the global protein occupancy and transcriptional landscape of a clinical isolate of Vibrio cholerae
Yulduz, Rakibova, Drew T., Dunham, Kimberley D., Seed, P. Lydia, Freddolino
BioRxiv.

Multivalent GU-rich oligonucleotides sequester TDP-43 in the nucleus by inducing high molecular weight RNP complexes
Xi, Zhang, Tanuza, Das, Tiffany F., Chao, Vickie, Trinh, Rogger, Carmen, Jonathan, Ling, Petr, Kalab, Lindsey R., Hayes
BioRxiv.

In vivo targeted and deterministic single cell malignant transformation
Pierluigi, Scerbo, Benjamin, Tisserand, Marine, Delagrange, Héloïse, Debare, David, Bensimon, Bertrand, Ducos
BioRxiv.

Wnt-Ror-Dvl signalling and the dystrophin complex organize planar-polarized membrane compartments in C. elegans muscles
Alice, Peysson, Noura, Zariohi, Marie, Gendrel, Amandine, Chambert‑Loir, Noémie, Frébault, Elise, Cheynet, Olga, Andrini, Thomas, Boulin
BioRxiv.

Modulation of SARS-CoV-2 spike binding to ACE2 through conformational selection
Prithwidip, Saha, Ignacio, Fernandez, Fidan, Sumbul, Claire, Valotteau, Dorota, Kostrz, Annalisa, Meola, Eduard, Baquero, Arvind, Sharma, James R., Portman, François, Stransky, Thomas, Boudier, Pablo Guardado, Calvo, Charlie, Gosse, Terence, Strick, Felix A., Rey, Felix, Rico
BioRxiv.

Neuronal activity promotes axonal node-like clustering prior to myelination and remyelination in the central nervous system
Rémi, Ronzano, Clément, Perrot, Elisa, Mazuir, Melina, Thetiot, Marie‑Stéphane, Aigrot, Paul, Stheneur, François‑Xavier, Lejeune, Bruno, Stankoff, Catherine, Lubetzki, Nathalie, Sol‑Foulon, Anne, Desmazières
BioRxiv.

SUN2 mediates calcium-triggered nuclear actin polymerization to cluster active RNA polymerase II
Svenja, Ulferts, Robert, Grosse
BioRxiv.

Identification of an evolutionary conserved binding motif responsible for the recruitment of NMD factors to the UPF1 helicase
Irène, Barbarin‑Bocahu, Nathalie, Ulryck, Amandine, Rigobert, Nadia, Ruiz Gutierrez, Laurence, Decourty, Mouna, Raji, Bhumika, Garkhal, Hervé, Le Hir, Cosmin, Saveanu, Marc, Graille
BioRxiv.

Benchmarking transcriptional deconvolution methods for estimating tissue- and cell type-specific extracellular vesicle abundances
Jannik Hjortshøj, Larsen, Iben Skov, Jensen, Per, Svenningsen
BioRxiv.

Novel Nuclear Roles for Testis-Specific ACTL7A and ACTL7B Supported by In Vivo Characterizations and AI Facilitated In Silico Mechanistic Modeling with Implications for Epigenetic Regulation in Spermiogenesis
Pierre, Ferrer, Srijana, Upadhyay, James J., Cai, Tracy M., Clement
BioRxiv.

Spatial Multiomics Reveal the Role of Wnt Modulator, Dkk2, in Palatogenesis
Jeremie, Oliver Piña, Resmi, Raju, Daniela M., Roth, Emma Wentworth, Winchester, Cameron, Padilla, James, Iben, Fabio R., Faucz, Justin L., Cotney, Rena N., D’Souza
BioRxiv.

Mechanotransductive feedback control of endothelial cell motility and vascular morphogenesis
Devon E., Mason, Paula, Camacho, Megan E., Goeckel, Brendan R., Tobin, Sebastián L., Vega, Pei‑Hsun, Wu, Dymonn, Johnson, Su‑Jin, Heo, Denis, Wirtz, Jason A., Burdick, Levi, Wood, Brian Y., Chow, Amber N., Stratman, Joel D., Boerckel
BioRxiv.

Telling mutualistic and antagonistic ecological networks apart by learning their multiscale structure
Benoît, Pichon, Rémy Le, Goff, Hélène, Morlon, Benoît, Perez‑Lamarque
BioRxiv.

Evolutionary genomics of the emergence of brown algae as key components of coastal ecosystems
France, Denoeud, Olivier, Godfroy, Corinne, Cruaud, Svenja, Heesch, Zofia, Nehr, Nachida, Tadrent, Arnaud, Couloux, Loraine, Brillet‑Guéguen, Ludovic, Delage, Dean, Mckeown, Taizo, Motomura, Duncan, Sussfeld, Xiao, Fan, Lisa, Mazéas, Nicolas, Terrapon, Josué, Barrera‑Redondo, Romy, Petroll, Lauric, Reynes, Seok‑Wan, Choi, Jihoon, Jo, Kavitha, Uthanumallian, Kenny, Bogaert, Céline, Duc, Pélagie, Ratchinski, Agnieszka, Lipinska, Benjamin, Noel, Eleanor A., Murphy, Martin, Lohr, Ananya, Khatei, Pauline, Hamon‑Giraud, Christophe, Vieira, Svea Sanja, Akerfors, Shingo, Akita, Komlan, Avia, Yacine, Badis, Tristan, Barbeyron, Arnaud, Belcour, Wahiba, Berrabah, Samuel, Blanquart, Ahlem, Bouguerba‑Collin, Trevor, Bringloe, Rose Ann, Cattolico, Alexandre, Cormier, Helena, Cruz de Carvalho, Romain, Dallet, Olivier, De Clerck, Ahmed, Debit, Erwan, Denis, Christophe, Destombe, Erica, Dinatale, Simon, Dittami, Elodie, Drula, Sylvain, Faugeron, Jeanne, Got, Louis, Graf, Agnès, Groisillier, Marie‑Laure, Guillemin, Lars, Harms, William John, Hatchett, Bernard, Henrissat, Galice, Hoarau, Chloé, Jollivet, Alexander, Jueterbock, Ehsan, Kayal, Kazuhiro, Kogame, Arthur Le, Bars, Catherine, Leblanc, Ronja, Ley, Xi, Liu, Pascal Jean, Lopez, Philippe, Lopez, Eric, Manirakiza, Karine, Massau, Stéphane, Mauger, Laetitia, Mest, Gurvan, Michel, Catia, Monteiro, Chikako, Nagasato, Delphine, Nègre, Eric, Pelletier, Naomi, Phillips, Philippe, Potin, Stefan A., Rensing, Ellyn, Rousselot, Sylvie, Rousvoal, Declan, Schroeder, Delphine, Scornet, Anne, Siegel, Leila, Tirichine, Thierry, Tonon, Klaus, Valentin, Heroen, Verbruggen, Florian, Weinberger, Glen, Wheeler, Hiroshi, Kawai, Akira F., Peters, Hwan Su, Yoon, Cécile, Hervé, Naihao, Ye, Eric, Bapteste, Myriam, Valero, Gabriel V., Markov, Erwan, Corre, Susana M., Coelho, Patrick, Wincker, Jean‑Marc, Aury, J. Mark, Cock
BioRxiv.

Mod5 mediates a molecular trade-off between optimal gene expression and antifungal resistance
Alexander, Bruch, Valentina, Lazarova, Thomas, Krüger, Sascha, Schäuble, Abdulrahman A., Kelani, Pamela, Lehenberger, Olaf, Kniemeyer, Gianni, Panagiotou, Matthew G., Blango
BioRxiv.

Filamin A mediates embryonical palatal fusion by linking mechanotransduction with β-Catenin/Smad2
Ziyi, Wang, Satoru, Hayano, Yao, Weng, Xindi, Mu, Mitsuaki, Ono, Jeremie Oliver, Piña, Rena N., D’Souza, Takashi, Yamashiro, Toshitaka, Oohashi, Hiroshi, Kamioka
BioRxiv.

Comparative transcriptomics reveal a novel tardigrade specific DNA binding protein induced in response to ionizing radiation
M., Anoud, E., Delagoutte, Q., Helleu, A., Brion, E., Duvernois‑Berthet, M., As, X., Marques, K., Lamribet, C., Senamaud, L., Jourdren, A., Adrait, S., Heinrich, G., Toutirais, S., Hamlaoui, G., Gropplero, I., Giovannini, L., Ponger, M., Gèze, C., Blugeon, Y., Coute, R., Guidetti, L, Rebecchi, C., Giovannangeli, A., De Cian, J‑P., Concordet
BioRxiv.

Microtubule-dependent orchestration of centriole amplification in brain multiciliated cells
Amélie‑Rose, Boudjema, Rémi, Balagué, Cayla E, Jewett, Gina M, LoMastro, Olivier, Mercey, Adel Al, Jord, Marion, Faucourt, Alexandre, Schaeffer, Camille, Noûs, Nathalie, Delgehyr, Andrew J, Holland, Nathalie, Spassky, Alice, Meunier
BioRxiv.

State-dependent dynamics of cuttlefish mantle activity
Sophie, Cohen‑Bodénès, Peter, Neri
BioRxiv.

Ubiquity of inverted ’gelatinous’ ecosystem pyramids in the global ocean
Lombard, Fabien, Guidi, Lionel, Manoela C., Brandão, Coelho Luis, Pedro, Colin, Sébastien, Dolan John, Richard, Elineau, Amanda, Josep M, Gasol, Grondin Pierre, Luc, Henry, Nicolas, Federico M, Ibarbalz, Jalabert, Laëtitia, Loreau, Michel, Martini, Séverinne, Mériguet, Zoé, Picheral, Marc, Juan José, Pierella Karlusich, Rainer, Pepperkok, Romagnan, Jean‑Baptiste, Zinger, Lucie, Stemmann, Lars, Silvia G, Acinas, Karp‑Boss, Lee, Boss, Emmanuel, Matthew B., Sullivan, Colomban, de Vargas, Bowler, Chris, Karsenti, Eric, Gorsky, Gabriel
BioRxiv.

Natural variation in infection specificity of Caenorhabditis briggsae isolates by two RNA viruses
Cigdem, Alkan, Gautier, Brésard, Lise, Frézal, Aurélien, Richaud, Albane, Ruaud, Gaotian, Zhang, Marie‑Anne, Félix
BioRxiv.

The genome sequence of the Montseny horsehair worm, Gordionus montsenyensis sp. nov., a key resource to investigate Ecdysozoa evolution
Klara, Eleftheriadi, Nadège, Guiglielmoni, Judit, Salces‑Ortiz, Carlos, Vargas‑Chavez, Gemma I., Martínez‑Redondo, Marta, Gut, Jean‑François, Flot, Andreas, Schmidt‑Rhaesa, Rosa, Fernández
BioRxiv.

A POLR3B-variant reveals a Pol III transcriptome response dependent on La protein/SSB
Sandy, Mattijssen, Kyra, Kerkhofs, Joshi, Stephen, Acong, Yang, Chen G., Han, Yokoyama, Tadafumi, James R., Iben, Saurabh, Mishra, Rima M., Sakhawala, Amitabh, Ranjan, Mamatha, Gowda, William A., Gahl, Shuo, Gu, May C., Malicdan, Richard J., Maraia
BioRxiv.

Attractor-like circuits improve visual decoding and behavior in zebrafish
Martin, Privat, Enrique Carlos Arnoldo, Hansen, Thomas, Pietri, Emiliano, Marachlian, Alejandro, Uribe‑Arias, Auriane, Duchemin, Virginie, Candat, Sarah, Nourin, Germán, Sumbre
BioRxiv.

Potential role of microRNAs in regulating transcriptional profile, and sculpting development and metabolism in cavefish
Tathagata, Biswas, Huzaifa, Hassan, Nicolas, Rohner
BioRxiv.

Distinguishing cophylogenetic signal from phylogenetic congruence clarifies the interplay between evolutionary history and species interactions
Benoît, Perez‑Lamarque, Hélène, Morlon
BioRxiv.

The nuclear basket regulates the distribution and mobility of nuclear pore complexes in budding yeast
Janka, Zsok, Francois, Simon, Göksu, Bayrak, Luljeta, Isaki, Nina, Kerff, Amy, Wolstenholme, Lucien E., Weiss, Elisa, Dultz
BioRxiv.

An active light signalling pathway is necessary for ABA-induced inhibition of hypocotyl elongation
Esther, Cañibano, Daniela, Soto‑Gomez, Juan Carlos, Oliveros, Clara, Bourbousse, Sandra, Fonseca
BioRxiv.

An anti-virulence drug targeting the evolvability protein Mfd protects against infections with antimicrobial resistant ESKAPE pathogens
SL., Tran, L., Lebreuilly, D., Cormontagne, S., Samson, TB., Tô, R., Dervyn, A., Grießhammer, J., de la Cuesta‑Zuluaga, L., Maier, T., Naas, S., Mura, J., Nicolas, D., Rognan, G., André, N., Ramarao
BioRxiv.

Regulatory and evolutionary impact of DNA methylation in two songbird species and their naturally occurring F1 hybrids
Jesper, Boman, Anna, Qvarnström, Carina F., Mugal
BioRxiv.

SETDB1 modulates the TGFβ response in Duchenne muscular dystrophy myotubes
Alice, Granados, Maeva, Zamperoni, Roberta, Rapone, Maryline, Moulin, Ekaterina, Boyarchuk, Costas, Bouyioukos, Laurence, Del Maestro, Véronique, Joliot, Elisa, Negroni, Myriame, Mohamed, Sandra, Piquet, Anne, Bigot, Fabien, Le Grand, Sonia, Albini, Slimane, Ait‑Si‑Ali
BioRxiv.

WITHDRAWN : Environmentally-informed functional characterization of a plastid diatom metabolic bridge of mitochondrial origin
Richard G., Dorrell, Youjun, Zhang, Yue, Liang, Nolwenn, Gueguen, Tomomi, Nonoyama, Dany, Croteau, Mathias, Penot, Sandrine, Adiba, Benjamin, Bailleul, Valérie, Gros, Juan José, Pierella Karlusich, Nathanaël, Zweig, Alisdair R., Fernie, Juliette, Jouhet, Eric, Maréchal, Chris, Bowler
BioRxiv.

Broadly conserved FlgV controls flagellar assembly and Borrelia burgdorferi dissemination in mice
Maxime, Zamba‑Campero, Daniel, Soliman, Huaxin, Yu, Amanda G., Lasseter, Yuen‑Yan, Chang, Jun, Liu, L., Aravind, Mollie W., Jewett, Gisela, Storz, Philip P., Adams
BioRxiv.

Neural precursor cells rescue symptoms of Rett syndrome by activation of the Interferon γ pathway
Angelisa, Frasca, Federica, Miramondi, Erica, Butti, Marzia, Indrigo, Maria Balbontin, Arenas, Francesca M., Postogna, Arianna, Piffer, Francesco, Bedogni, Lara, Pizzamiglio, Clara, Cambria, Ugo, Borello, Flavia, Antonucci, Gianvito, Martino, Nicoletta, Landsberger
BioRxiv.

Fas2EB112 : A Tale of Two Chromosomes
Tara M., Finegan, Christian, Cammarota, Oscar Mendoza, Andrade, Audrey M., Garoutte, Dan T., Bergstralh
BioRxiv.

pyRBDome : A comprehensive computational platform for enhancing and interpreting RNA-binding proteome data
Liang‑Cui, Chu, Niki, Christopoulou, Hugh, McCaughan, Sophie, Winterbourne, Davide, Cazzola, Shichao, Wang, Ulad, Litvin, Salomé, Brunon, Patrick J.B., Harker, Iain, McNae, Sander, Granneman
BioRxiv.

A Novel Role for CSA in the Regulation of Nuclear Envelope Integrity : Uncovering a Non-Canonical Function
Denny, Yang, Austin, Lai, Amelie, Davies, Anne FJ, Janssen, Delphine, Larrieu
BioRxiv.

How demography shapes linkage disequilibrium with or without recombination
Elise, Kerdoncuff, Amaury, Lambert, Guillaume, Achaz
BioRxiv.

Examining chromatin heterogeneity through PacBio long-read sequencing of M.EcoGII methylated genomes : an m6A detection efficiency and calling bias correcting pipeline
Allison F., Dennis, Zhuwei, Xu, David J., Clark
BioRxiv.

Towards modeling genome-scale knowledge in the global ocean
Antoine, Régimbeau, Olivier, Aumont, Chris, Bowler, Lionel, Guidi, George A., Jackson, Eric, Karsenti, Laurent, Memery, Alessandro, Tagliabue, Damien, Eveillard
BioRxiv.

Export of discarded splicing intermediates requires mRNA export factors and the nuclear basket
Yi, Zeng, Jonathan P., Staley
BioRxiv.

Simultaneous photoactivation and high-speed structural tracking reveal diffusion-dominated motion in the endoplasmic reticulum
Matteo, Dora, Christopher J., Obara, Tim, Abel, Jennifer, Lippincott‑Schwarz, David, Holcman
BioRxiv.

A reference genome for the Andean cavefish Trichomycterus rosablanca (Siluriformes, Trichomycteridae) : building genomic resources to study evolution in cave environments
Carlos Daniel, Cadena, Laura, Pabón, Carlos, DoNascimiento, Linelle, Abueg, Tatiana, Tiley, Brian, O‑Toole, Dominic, Absolon, Ying, Sims, Giulio, Formenti, Olivier, Fedrigo, Erich D., Jarvis, Mauricio, Torres
BioRxiv.

Reversible inhibition of GluN2B-containing NMDA receptors with an in situ red-shifted, photoswitchable antagonist
Chloé, Geoffroy, Romain, Berraud‑Pache, Nicolas, Chéron, Isabelle, McCort‑Tranchepain, Pierre, Paoletti, Laetitia, Mony
BioRxiv.

Opening the species box : What microscopic models of neutral speciation have to say about macroevolution
Élisa, Couvert, François, Bienvenu, Jean‑Jil, Duchamps, Adélie, Erard, Verónica, Miró Pina, Emmanuel, Schertzer, Amaury, Lambert
BioRxiv.

A randomized multiplex CRISPRi-Seq approach for the identification of critical combinations of genes
Nicole A., Ellis, Kevin S., Myers, Jessica, Tung, Anne Davidson, Ward, Kathryn, Johnston, Katherine E., Bonnington, Timothy J., Donohue, Matthias P., Machner
BioRxiv.

Regulation of chromatin transcription dynamics by DNA supercoiling
Sumitabha, Brahmachari, Shubham, Tripathi, José N, Onuchic, Herbert, Levine
BioRxiv.

LncPlankton V1.0 : a comprehensive collection of plankton long non-coding RNAs
Ahmed, Debit, Pierre, Vincens, Chris, Bowler, Helena Cruz, de Carvalho
BioRxiv.

Polycomb protein binding and looping mediated by Polycomb Response Elements in the ON transcriptional state
J. Lesley, Brown, Liangliang, Zhang, Pedro P, Rocha, Judith A., Kassis, Ming‑an, Sun
BioRxiv.

LARP1 senses free ribosomes to coordinate supply and demand of ribosomal proteins
James A., Saba, Zixuan, Huang, Kate L., Schole, Xianwen, Ye, Shrey D., Bhatt, Yi, Li, Winston, Timp, Jingdong, Cheng, Rachel, Green
BioRxiv.

The pelvic organs receive no parasympathetic innervation
Margaux, Sivori, Bowen, Dempsey, Zoubida, Chettouh, Franck, Boismoreau, Maïlys, Ayerdi, Annaliese Nucharee, Eymael, Sylvain, Baulande, Sonia, Lameiras, Fanny, Coulpier, Olivier, Delattre, Hermann, Rohrer, Olivier, Mirabeau, Jean‑François, Brunet
BioRxiv.

Biogenesis of specialized lysosomes in differentiated keratinocytes relies on close apposition with the Golgi apparatus
Sarmistha, Mahanty, Ptissam, Bergam, Vivek, Belapurkar, Litralson, Eluvathingal, Nikita, Gupta, Bruno, Goud, Deepak, Nair, Graca, Raposo, Subba Rao, Gangi Setty
BioRxiv.

Biological and genomic resources for the cosmopolitan phytoplankton Bathycoccus : Insights into genetic diversity and major structural variations
Louis, Dennu, Martine, Devic, Janaina, Rigonato, Angela, Falciatore, Jean‑Claude, Lozano, Valérie, Vergé, Cédric, Mariac, Olivier, Jaillon, François, Sabot, François‑Yves, Bouget
BioRxiv.

Cockayne syndrome patient iPSC-derived brain organoids and neurospheres show early transcriptional dysregulation of biological processes associated with brain development and metabolism
Leon‑Phillip, Szepanowski, Wasco, Wruck, Julia, Kapr, Andrea, Rossi, Ellen, Fritsche, Jean, Krutmann, James, Adjaye
BioRxiv.

Actin-based deformations of the nucleus control multiciliated ependymal cell differentiation
Marianne, Basso, Alexia, Mahuzier, Ana‑Maria, Lennon‑Duménil, Marion, Faucourt, Alice, Meunier, Nathalie, Spassky, Nathalie, Delgehyr
BioRxiv.

Identification and organization of a postural anti-gravity module in the cerebellar vermis
Aurélien, Gouhier, Vincent, Villette, Benjamin, Mathieu, Annick, Ayon, Jonathan, Bradley, Stéphane, Dieudonné
BioRxiv.

Alternative splicing induced by bacterial pore-forming toxins sharpens CIRBP-mediated cell response to Listeria infection
Morgane, Corre, Volker, Boehm, Vinko, Besic, Anna, Kurowska, Anouk, Viry, Ammara, Mohammad, Catherine, Sénamaud‑Beaufort, Morgane, Thomas‑Chollier, Alice, Lebreton
BioRxiv.

Yeast Heterochromatin Only Stably Silences Weak Regulatory Elements by Altering Burst Duration
Kenneth, Wu, Namrita, Dhillon, Antone, Bajor, Sara, Abrahamson, Rohinton T., Kamakaka
BioRxiv.

Liver microRNA transcriptome reveals miR-182 as link between type 2 diabetes and fatty liver disease in obesity
Christin, Krause, Jan H., Britsemmer, Miriam, Bernecker, Anna, Molenaar, Natalie, Taege, Cathleen, Geißler, Meike, Kaehler, Katharina, Iben, Anna, Judycka, Jonas, Wagner, Stefan, Wolter, Oliver, Mann, Paul T., Pfluger, Ingolf, Cascorbi, Hendrik, Lehnert, Kerstin, Stemmer, Sonja C., Schriever, Henriette, Kirchner
BioRxiv.

Substrates and Cyclic Peptide Inhibitors of the Oligonucleotide Activated SIRT7
Julie E., Bolding, Alexander L., Nielsen, Iben, Jensen, Tobias N., Hansen, Line A., Ryberg, Samuel T., Jameson, Pernille, Harris, Günther H. J., Peters, John M., Denu, Joseph M., Rogers, Christian A., Olsen
BioRxiv.

Convergent adaptation of true crabs (Decapoda : Brachyura) to a gradient of terrestrial environments
Joanna M., Wolfe, Lauren, Ballou, Javier, Luque, Victoria M., Watson‑Zink, Shane T., Ahyong, Joëlle, Barido‑Sottani, Tin‑Yam, Chan, Ka Hou, Chu, Keith A., Crandall, Savel R., Daniels, Darryl L., Felder, Harrison, Mancke, Joel W., Martin, Peter K.L., Ng, Javier, Ortega‑Hernández, Emma Palacios, Theil, N. Dean, Pentcheff, Rafael, Robles, Brent P., Thoma, Ling Ming, Tsang, Regina, Wetzer, Amanda M., Windsor, Heather D., Bracken‑Grissom
BioRxiv.

Loss of intracerebellar heterogeneity and selective vulnerability in Spinocerebellar ataxia type 1 neurodegeneration
Katherine, Hamel, Emmanuel Labrada, Moncada, Carrie, Sheeler, Juao‑Guilherme, Rosa, Stephen, Gilliat, Ying, Zhang, Marija, Cvetanovic
BioRxiv.

Telomere-to-telomere Schizosaccharomyces japonicus genome assembly reveals hitherto unknown genome features
Graham J, Etherington, Pei‑Shang, Wu, Snezhana, Oliferenko, Frank, Uhlmann, Conrad A., Nieduszynski
BioRxiv.

A bacterial effector directly targets Arabidopsis Argonaute 1 to suppress Pattern-triggered immunity and cause disease
Odon, Thiébeauld, Magali, Charvin, Meenu, Singla‑Rastogi, Alvaro L, Perez‑Quintero, Fan, Yang, Dominique, Pontier, Pierre, Barraud, Cécile, Pouzet, Laure, Bapaume, Delase, Amesefe, Guangyong, Li, Laurent, Deslandes, Thierry, Lagrange, James R., Alfano, Lionel, Navarro
BioRxiv.

A cell atlas of the larval Aedes aegypti ventral nerve cord
Chang, Yin, Takeshi, Morita, Jay Z., Parrish
BioRxiv.

KCNN4 links PIEZO-dependent mechanotransduction to NLRP3 inflammasome activation
Li, Ran, Tao, Ye, Eric, Erbs, Stephan, Ehl, Nathalie, Spassky, Izabela, Sumara, Zhirong, Zhang, Romeo, Ricci
BioRxiv.

Actin associates with actively elongating genes and binds directly to the Cdk9 subunit of P-TEFb
Salla, Kyheröinen, Bina, Prajapati, Maria, Sokolova, Maximilian, Schmitz, Tiina, Viita, Matthias, Geyer, Maria K., Vartiainen
BioRxiv.

Retrotransposon-driven environmental regulation of FLC leads to adaptive response to herbicide
Mathieu, Raingeval, Basile, Leduque, Pierre, Baduel, Alejandro, Edera, Fabrice, Roux, Vincent, Colot, Leandro, Quadrana
BioRxiv.

Loss of Ezh2 in the medial ganglionic eminence alters interneuron fate, cell morphology and gene expression profiles
Christopher T., Rhodes, Dhanya, Asokumar, Mira, Sohn, Shovan, Naskar, Lielle, Elisha, Parker, Stevenson, Dongjin R., Lee, Yajun, Zhang, Pedro P., Rocha, Ryan K., Dale, Soohyun, Lee, Timothy J., Petros
BioRxiv.

Causal Genetic Loci for a Motivated Behavior Spectrum Harbor Psychiatric Risk Genes
Jiale, Xu, Romelo, Casanave, Apurva S., Chitre, Qiyang, Wang, Khai‑Minh, Nguyen, Chiara, Blake, Mahendra, Wagle, Riyan, Cheng, Oksana, Polesskaya, Abraham A., Palmer, Su, Guo
BioRxiv.

ZBTB24 is a conserved multifaceted transcription factor at genes and centromeres that governs the DNA methylation state and expression of satellite repeats
Giacomo, Grillo, Ekaterina, Boyarchuk, Seed, Mihic, Ivana, Ivkovic, Mathilde, Bertrand, Alice, Jouneau, Thomas, Dahlet, Michael, Dumas, Michael, Weber, Guillaume, Velasco, Claire, Francastel
BioRxiv.

Detecting the ecological footprint of selection
Juliette, Luiselli, Isaac, Overcast, Andrew, Rominger, Megan, Ruffley, Hélène, Morlon, James, Rosindell
BioRxiv.

Microglial TNFα controls synaptic GABAARs, sleep slow waves and memory consolidation
Maria Joana, Pinto, Lucy, Bizien, Julie M.J., Fabre, Nina, Ðukanović, Valentin, Lepetz, Fiona, Henderson, Marine, Pujol, Romain W., Sala, Thibault, Tarpin, Daniela, Popa, Antoine, Triller, Clément, Léna, Véronique, Fabre, Alain, Bessis
BioRxiv.

Crosstalk between the tRNA methyltransferase Trm1 and RNA chaperone La influences eukaryotic tRNA maturation
Jennifer, Porat, Ana, Vakiloroayaei, Brittney M., Remnant, Mohammadaref, Talebi, Taylor, Cargill, Mark A., Bayfield
BioRxiv.

Distinct clades of TELOMERE REPEAT BINDING transcriptional regulators interplay to regulate plant development
Simon, Amiard, Léa, Feit, Lauriane, Simon, Samuel Le, Goff, Loriane, Loizeau, Léa, Wolff, Falk, Butter, Clara, Bourbousse, Fredy, Barneche, Christophe, Tatout, Aline. V., Probst
BioRxiv.

Factors influencing the accuracy and precision in dating single gene trees
Guillaume, Louvel, Hugues, Roest Crollius
BioRxiv.

Synthetic autotetraploid Caenorhabditis elegans resist severe cold stress by escaping cold induced death at the gravid adult stage
Laetitia, Chauve, Aoibhin, McGarry, Liam, Butler, Aoife, McLysaght
BioRxiv.

Recent evolutionary origin and localized diversity hotspots of mammalian coronaviruses
Renan, Maestri, Benoît, Perez‑Lamarque, Anna, Zhukova, Hélène, Morlon
BioRxiv.

Seed or soil : tracing back the plant mycobiota primary sources
Liam, Laurent‑Webb, Kenji, Maurice, Benoît, Perez‑Lamarque, Amélia, Bourceret, Marc, Ducousso, Marc‑André, Selosse
BioRxiv.

SCO-spondin knockout mice exhibit small brain ventricles and mild spine deformation
Huixin, Xu, Guillaume P., Dugué, Yasmine, Cantaut‑Belarif, François‑Xavier, Lejeune, Suhasini, Gupta, Claire, Wyart, Maria K., Lehtinen
BioRxiv.

Evaluation of gliovascular functions of Aqp4 readthrough isoforms
Shayna M., Mueller, Kelli McFarland, White, Stuart B., Fass, Siyu, Chen, Zhan, Shi, Xia, Ge, John A., Engelbach, Seana H, Gaines, Annie R, Bice, Michael J., Vasek, Joel R., Garbow, Joseph P., Culver, Zila, Martinez‑Lozada, Martine, Cohen‑Salmon, Joseph D., Dougherty, Darshan, Sapkota
BioRxiv.

MiniBAR/KIAA0355 is a dual Rac and Rab effector required for ciliogenesis
Ronan, Shaughnessy, Murielle, Serres, Sophie, Escot, Hussein, Hammich, Frédérique, Cuvelier, Audrey, Salles, Murielle, Rocancourt, Quentin, Verdon, Anne‑Lise, Gaffuri, Yannick, Sourigues, Gilles, Malherbe, Leonid, Velikovsky, Florian, Chardon, Jean‑Yves, Tinevez, Isabelle, Callebaut, Etienne, Formstecher, Anne, Houdusse, Nicolas, David, Olena, Pylypenko, Arnaud, Echard
BioRxiv.

Willingness to wait covaries with endogenous variation in cortisol
Evgeniya, Lukinova, Jeffrey C., Erlich
BioRxiv.

Kin-recognition shapes collective behaviors in the cannibalistic nematode Pristionchus pacificus
Fumie, Hiramatsu, James W., Lightfoot
BioRxiv.

Metabolic shift toward ketosis in asocial cavefish increases social-like affinity
Motoko, Iwashita, Amity, Tran, Marianne, Garcia, Jia, Cashon, Devanne, Burbano, Vanessa, Salgado, Malia, Hasegawa, Rhoada, Balmilero‑Unciano, Kaylah, Politan, Miki, Wong, Ryan W.Y., Lee, Masato, Yoshizawa
BioRxiv.

Mapping general anesthesia states based on electro-encephalogram transition phases
V., Loison, Y., Voskobiynyk, B., Lindquist, D., Necula, D., Longrois, J., Paz, D., Holcman
BioRxiv.

Simultaneous Mapping of DNA Binding and Nucleosome Positioning with SpLiT-ChEC
Orion G. B., Banks, Michael J., Harms, Jeffrey. N., McKnight, Laura E., McKnight
BioRxiv.

Estimating clade-specific diversification rates and palaeodiversity dynamics from reconstructed phylogenies
Nathan, Mazet, Hélène, Morlon, Pierre‑Henri, Fabre, Fabien L., Condamine
BioRxiv.

Genome-scale community modelling reveals conserved metabolic cross-feedings in epipelagic bacterioplankton communities
Nils, Giordano, Marinna, Gaudin, Camille, Trottier, Erwan, Delage, Charlotte, Nef, Chris, Bowler, Samuel, Chaffron
BioRxiv.

Ocean-wide comparisons of mesopelagic planktonic community structures
Janaina, Rigonato, Marko, Budinich, Alejandro A., Murillo, Manoela C., Brandão, Juan J., Pierella Karlusich, Yawouvi Dodji, Soviadan, Ann C., Gregory, Hisashi, Endo, Florian, Kokoszka, Dean, Vik, Nicolas, Henry, Paul, Frémont, Karine, Labadie, Ahmed A., Zayed, Céline, Dimier, Marc, Picheral, Sarah, Searson, Julie, Poulain, Stefanie, Kandels, Stéphane, Pesant, Eric, Karsenti, Peer, Bork, Chris, Bowler, Colomban, de Vargas, Damien, Eveillard, Marion, Gehlen, Daniele, Iudicone, Fabien, Lombard, Hiroyuki, Ogata, Lars, Stemmann, Matthew B., Sullivan, Shinichi, Sunagawa, Patrick, Wincker, Samuel, Chaffron, Olivier, Jaillon
BioRxiv.

Human TRMT2A methylates tRNA and contributes to translation fidelity
Monika, Witzenberger, Sandra, Burczyk, David, Settele, Wieland, Mayer, Luisa M., Welp, Matthias, Heiss, Mirko, Wagner, Thomas, Monecke, Robert, Janowski, Thomas, Carell, Henning, Urlaub, Stefanie M., Hauck, Aaron, Voigt, Dierk, Niessing
BioRxiv.

Presence of vitamin B12 metabolism in the last common ancestor of land plants
Richard G., Dorrell, Charlotte, Nef, Setsen, Altan‑Ochir, Chris, Bowler, Alison G., Smith
BioRxiv.

Phylogenetic comparative approach reveals evolutionary conservatism, ancestral composition, and integration of vertebrate gut microbiota
Benoît, Perez‑Lamarque, Guilhem, Sommeria‑Klein, Loréna, Duret, Hélène, Morlon
BioRxiv.

A Genome-Wide Comprehensive Analysis of Nucleosome Positioning in Yeast
Leo, Zeitler, Kevin, André, Adriana, Alberti, Cyril Denby, Wilkes, Julie, Soutourina, Arach, Goldar
BioRxiv.

Human-environment feedback and the consistency of proenvironmental behavior
Claire, Ecotière, Sylvain, Billiard, Jean‑Baptiste, André, Pierre, Collet, Régis, Ferrière, Sylvie, Méléard
BioRxiv.

Transcriptomic landscape of posterior regeneration in the annelid Platynereis dumerilii
Louis, Paré, Loïc, Bideau, Loeiza, Baduel, Caroline, Dalle, Médine, Benchouaia, Stephan Q., Schneider, Lucie, Laplane, Yves, Clément, Michel, Vervoort, Eve, Gazave
BioRxiv.

Distinct roles of LARP1 and 4EBP1/2 in regulating translation and stability of 5′TOP mRNAs
Tobias, Hochstoeger, Panagiotis, Papasaikas, Ewa, Piskadlo, Jeffrey A., Chao
BioRxiv.

Importin 13-dependent Axon Diameter Growth Regulates Conduction Speeds along Myelinated CNS Axons
Jenea M, Bin, Daumante, Suminaite, Silvia K., Benito‑Kwiecinski, Linde, Kegel, Maria, Rubio‑Brotons, Jason J, Early, Daniel, Soong, Matthew R, Livesey, Richard J, Poole, David A, Lyons
BioRxiv.

Structural insights into human TFIIIC promoter recognition
Wolfram, Seifert‑Davila, Mathias, Girbig, Luis, Hauptmann, Thomas, Hoffmann, Sebastian, Eustermann, Christoph W., Müller
BioRxiv.

CTCF barrier breaking by ZFP661 promotes protocadherin diversity in mammalian brains
Jinpu, Jin, Sherry, Ralls, Elaine, Wu, Gernot, Wolf, Ming‑An, Sun, Danielle A., Springer, Rachel L., Cosby, Anna D., Senft, Todd S., Macfarlan
BioRxiv.

CLT-seq as a universal homopolymer-sequencing concept reveals poly(A)-tail-tuned ncRNA regulation
Qiang, Su, Yi, Long, Jun, Wang, Deming, Gou
BioRxiv.

Brain cell type specific proteomics approach to discover pathological mechanisms in the childhood CNS disorder mucolipidosis type IV
Madison, Sangster, Sanjid, Shahriar, Zachary, Niziolek, Maria Carla, Carisi, Michael, Lewandowski, Bogdan, Budnik, Yulia, Grishchuk
BioRxiv.

Neural network and kinetic modelling of human genome replication reveal replication origin locations and strengths
Jean‑Michel, Arbona, Hadi, Kabalane, Jeremy, Barbier, Arach, Goldar, Olivier, Hyrien, Benjamin, Audit
BioRxiv.

Caspase-mediated nuclear pore complex trimming in cell differentiation and endoplasmic reticulum stress
Ukrae H., Cho, Martin W., Hetzer
BioRxiv.

Genome-wide phage susceptibility analysis in Acinetobacter baumannii reveals capsule modulation strategies that determine phage infectivity
Jinna, Bai, Nicole, Raustad, Jason, Denoncourt, Tim, van Opijnen, Edward, Geisinger
BioRxiv.

Magnetic actuation of otoliths allows behavioral and brain-wide neuronal exploration of vestibulo-motor processing in larval zebrafish
Natalia, Beiza‑Canelo, Hippolyte, Moulle, Thomas, Pujol, Thomas, Panier, Geoffrey, Migault, Guillaume, Le Goc, Pierre, Tapie, Nicolas, Desprat, Hans, Straka, Georges, Debrégeas, Volker, Bormuth
BioRxiv.

The RNA binding proteins LARP4A and LARP4B promote sarcoma and carcinoma growth and metastasis
Jennifer C., Coleman, Luke, Tattersall, Val, Yianni, Laura, Knight, Hongqiang, Yu, Sadie, Hallett, Philip, Johnson, Ana, Caetano, Charlie, Cosstick, Anne, Ridley, Alison, Gartland, Maria R, Conte, Agamemnon E., Grigoriadis
BioRxiv.

α-Melanocyte-Stimulating Hormone Regulates Pathological Cardiac Remodeling by Activating Melanocortin 5 Receptor in Cardiomyocytes
Anni, Suominen, Guillem Saldo, Rubio, Saku, Ruohonen, Zoltán, Szabó, Lotta, Pohjolainen, Bishwa, Ghimire, Suvi T., Ruohonen, Karla, Saukkonen, Jani, Ijas, Sini, Skarp, Leena, Kaikkonen, Minying, Cai, Sharon L., Wardlaw, Heikki, Ruskoaho, Virpi, Talman, Eriika, Savontaus, Risto, Kerkelä, Petteri, Rinne
BioRxiv.

Meta-analysis of public RNA sequencing data revealed potential key genes associated with reproductive division of labor in social Hymenoptera and termites
Kouhei, Toga, Hidemasa, Bono
BioRxiv.

Cas9-targeted Nanopore sequencing rapidly elucidates the transposition preferences and DNA methylation profiles of mobile elements in plants
Pavel, Merkulov, Sofya, Gvaramiya, Roman, Komakhin, Murad, Omarov, Maxim, Dudnikov, Alina, Kocheshkova, Zakhar, Konstantinov, Alexander, Soloviev, Gennady, Karlov, Mikhail, Divashuk, Ilya, Kirov
BioRxiv.

High changing curvature regions detect chromatin enrichment in single cell data
Giulia, Amici, Andrea, Papale, David, Lando, Wayne, Boucher, D., Holcman
BioRxiv.

Assessing Random Forest self-reproducibility for optimal short biomarker signature discovery
Christophe, Poulet, Ahmed, Debit, Claire, Josse, Guy, Jerusalem, Chloe‑Agathe, Azencott, Vincent, Bours, Kristel, Van Steen
BioRxiv.

Integrated spatiotemporal transcriptomic resolution of embryonic palate osteogenesis
Jeremie Oliver, Piña, Resmi, Raju, Daniela M., Roth, Parna, Chattaraj, Fahad, Kidwai, Fabio R., Faucz, James, Iben, Apratim, Mitra, Kiersten, Campbell, Gus, Fridell, Caroline, Esnault, Ryan K., Dale, Rena N., D’Souza
BioRxiv.

A Comparison of Deep Learning Architectures for Inferring Parameters of Diversification Models from Extant Phylogenies
Ismaël, Lajaaiti, Sophia, Lambert, Jakub, Voznica, Hélène, Morlon, Florian, Hartig
BioRxiv.

Human synaptic neoteny requires species-specific balancing of SRGAP2-SYNGAP1 cross-inhibition
Baptiste, Libé‑Philippot, Ryohei, Iwata, Aleksandra J, Recupero, Keimpe, Wierda, Martyna, Ditkowska, Vaiva, Gaspariunaite, Ben, Vermaercke, Eugénie, Peze‑Heidsieck, Daan, Remans, Cécile, Charrier, Franck, Polleux, Pierre, Vanderhaeghen
BioRxiv.

A layer cake model for plant and metazoan chromatin
Léoplod, Carron, Lorenzo, Concia, Stefan, Grob, Fredy, Barneche, Alessandra, Carbone, Julien, Mozziconacci
BioRxiv.

Spatial transcriptomic analysis of Sonic Hedgehog Medulloblastoma identifies that the loss of heterogeneity and promotion of differentiation underlies the response to CDK4/6 inhibition
Tuan, Vo, Brad, Balderson, Kahli, Jones, Guiyan, Ni, Joanna, Crawford, Amanda, Millar, Elissa, Tolson, Matthew, Singleton, Onkar, Mulay, Shaun, Walters, Marija, Kojic, Thomas, Robertson, Dharmesh D., Bhuva, Melissa J., Davis, Brandon J., Wainwright, Quan, Nguyen, Laura A., Genovesi
BioRxiv.

Single-cell phenotypic plasticity modulates social behaviour in Dictyostelium discoideum
Mathieu, Forget, Sandrine, Adiba, Silvia, De Monte
BioRxiv.

Primate sympatry shapes the evolution of their brain architecture
Benjamin, Robira, Benoît, Perez‑Lamarque
BioRxiv.

Chromatin phase separated nanoregions regulated by cross-linkers and explored by single particle trajectories
A, Papale, D., Holcman
BioRxiv.

Diatom phytochromes integrate the entire visible light spectra for photosensing in marine environments
Carole, Duchêne, Jean‑Pierre, Bouly, Juan José Pierella, Karlusich, Julien, Sellés, Benjamin, Bailleul, Chris, Bowler, Maurizio Ribera, d’Alcalà, Angela, Falciatore, Marianne, Jaubert
BioRxiv.

Y-complex nucleoporins independently contribute to nuclear pore assembly and gene regulation in neuronal progenitors
Clarisse, Orniacki, Annalisa, Verrico, Stéphane, Pelletier, Benoit, Souquet, Fanny, Coulpier, Laurent, Jourdren, Serena, Benetti, Valérie, Doye
BioRxiv.

Mis-spliced transcripts generate de novo proteins in TDP-43-related ALS/FTD
Sahba, Seddighi, Yue A., Qi, Anna‑Leigh, Brown, Oscar G., Wilkins, Colleen, Bereda, Cedric, Belair, Yongjie, Zhang, Mercedes, Prudencio, Matthew J, Keuss, Aditya, Khandeshi, Sarah, Pickles, Sarah E., Hill, James, Hawrot, Daniel M., Ramos, Hebao, Yuan, Jessica, Roberts, Erika Kelmer, Sacramento, Syed I., Shah, Mike A., Nalls, Jenn, Colon‑Mercado, Joel F., Reyes, Veronica H., Ryan, Matthew P., Nelson, Casey, Cook, Ziyi, Li, Laurel, Screven, Justin Y, Kwan, Anantharaman, Shantaraman, Lingyan, Ping, Yuka, Koike, Björn, Oskarsson, Nathan, Staff, Duc M., Duong, Aisha, Ahmed, Maria, Secrier, Jerneg, Ule, Steven, Jacobson, Jonathan, Rohrer, Andrea, Malaspina, Jonathan D., Glass, Alessandro, Ori, Nicholas T., Seyfried, Manolis, Maragkakis, Leonard, Petrucelli, Pietro, Fratta, Michael E., Ward
BioRxiv.

Hypometabolism to survive the long polar night in the diatom Fragilariopsis cylindrus
Nathalie, Joli, Lorenzo, Concia, Karel, Mocaer, Julie, Guterman, Juliette, Laude, Sebastien, Guerin, Theo, Sciandra, Flavienne, Bruyant, Ouardia, Ait‑Mohamed, Marine, Beguin, Marie‑Helene, Forget, Clara, Bourbousse, Thomas, Lacour, Benjamin, Bailleul, Jean‑Eric, Tremblay, Douglas, Campbell, Johan, Lavaud, Yannick, Schwab, Marcel, Babin, Chris, Bowler
BioRxiv.

Phylogenetic modeling of enhancer shifts in African mole-rats reveals regulatory changes associated with tissue-specific traits
Elise, Parey, Stephanie, Frost, Ainhoa, Uribarren, Thomas J., Park, Markus, Zoettl, Ewan St. John, Smith, Camille, Berthelot, Diego, Villar
BioRxiv.

Endothelial SMAD1/5 signaling couples angiogenesis to osteogenesis during long bone growth
Annemarie, Lang, Andreas, Benn, Angelique, Wolter, Tim, Balcaen, Joseph, Collins, Greet, Kerckhofs, An, Zwijsen, Joel D., Boerckel
BioRxiv.

Enhanced neuroimaging with a calcium sensor in the live adult Drosophila Melanogaster brain using closed-loop adaptive optics light-sheet microscopy
Antoine, Hubert, Georges, Farkouh, Fabrice, Harms, Cynthia, Veilly, Sophia, Imperato, Mathias, Mercier, Vincent, Loriette, François, Rouyer, Alexandra, Fragola
BioRxiv.

The genetic architecture of the human skeletal form
Eucharist, Kun, Emily M., Javan, Olivia, Smith, Faris, Gulamali, Javier, de la Fuente, Brianna I., Flynn, Kushal, Vajrala, Zoe, Trutner, Prakash, Jayakumar, Elliot M., Tucker‑Drob, Mashaal, Sohail, Tarjinder, Singh, Vagheesh M., Narasimhan
BioRxiv.

Both GEF domains of the autism and epilepsy-associated Trio protein are required for proper tangential migration of GABAergic interneurons
Lara, Eid, Ludmilla, Lokmane, Praveen K., Raju, Samuel Boris Tene, Tadoum, Xiao, Jiang, Karolanne, Toulouse, Alexis, Lupien‑Meilleur, François, Charron‑Ligez, Asmaa, Toumi, Stéphanie, Backer, Mathieu, Lachance, Marisol, Lavertu‑Jolin, Marie, Montseny, Jean‑Claude, Lacaille, Evelyne, Bloch‑Gallego, Elsa, Rossignol
BioRxiv.

Abundant deep ocean heterotrophic bacteria are culturable
Isabel, Sanz‑Sáez, Pablo, Sánchez, Guillem, Salazar, Shinichi, Sunagawa, Colomban, de Vargas, Chris, Bowler, Matthew B., Sullivan, Patrick, Wincker, Eric, Karsenti, Carlos, Pedrós‑Alió, Susana, Agustí, Takashi, Gojobori, Carlos M., Duarte, Josep M., Gasol, Olga, Sánchez, Silvia G., Acinas
BioRxiv.

Different modification pathways for m1A58 incorporation in yeast elongator and initiator tRNAs
Marcel‑Joseph, Yared, Yasemin, Yoluç, Marjorie, Catala, Carine, Tisné, Stefanie, Kaiser, Pierre, Barraud
BioRxiv.

The build-up of the present-day tropical diversity of tetrapods
Ignacio, Quintero, Michael, Landis, Walter, Jetz, Hélène, Morlon
BioRxiv.

Arabidopsis hydathodes are sites of intense auxin metabolism and nutrient scavenging
Jean‑Marc, Routaboul, Caroline, Bellenot, Gilles, Clément, Sylvie, Citerne, Céline, Remblière, Magali, Charvin, Lars, Franke, Serge, Chiarenza, Damien, Vasselon, Marie‑Françoise, Jardinaud, Sébastien, Carrère, Laurent, Nussaume, Patrick, Laufs, Nathalie, Leonhardt, Lionel, Navarro, Martin, Schattat, Laurent D., Noël
BioRxiv.

Divergent and diversified proteome content across a serially acquired plastid lineage
Anna M. G., Novák Vanclová, Charlotte, Nef, Adél, Vancl, Fuhai, Liu, Zoltán, Füssy, Chris, Bowler, Richard G., Dorrell
BioRxiv.

Repurposing of the multiciliation gene regulatory network in fate specification of Cajal-Retzius neurons
Matthieu X, Moreau, Yoann, Saillour, Vicente, Elorriaga, Benoît, Bouloudi, Elodie, Delberghe, Tanya Deutsch, Guerrero, Amaia, Ochandorena‑Saa, Laura, Maeso‑Alonso, Margarita M, Marques, Maria C, Marin, Nathalie, Spassky, Alessandra, Pierani, Frédéric, Causeret
BioRxiv.

A Legionella pneumophila effector impedes host gene silencing to promote virulence
Justine, Toinon, Monica, Rolando, Magali, Charvin, Didier, Filopon, Lionel, Schiavolin, Khadeeja Adam, Sy, Hai‑Chi, Vu, Sarah, Gallois‑Montbrun, Antoine, Alam, Christophe, Rusniok, Bérangère, Lombard, Damarys, Loew, Carmen, Buchrieser, Lionel, Navarro
BioRxiv.

The UBP5 histone H2A deubiquitinase counteracts PRC2-mediated repression to regulate Arabidopsis development and stress responses
James, Godwin, Eduardo, March, Mohan, Govindasamy, Clara, Bourbousse, Léa, Wolff, Antoine, Fort, Michal, Krzyszton, Jesús, López, Szymon, Swiezewski, Fredy, Barneche, Daniel, Schubert, Sara, Farrona
BioRxiv.

Limiting etioplast gene-expression induces apical hook twisting during skoto-morphogenesis of Arabidopsis seedlings
Salek Ahmed, Sajib, Björn, Grübler, Cylia, Oukacine, Etienne, Delannoy, Florence, Courtois, Caroline, Mauve, Claire, Lurin, Bertrand, Gakière, Thomas, Pfannschmidt, Livia, Merendino
BioRxiv.

Changes in functional composition and gene expression in eukaryotic plankton at the Atlantic-Arctic Polar front
Paul, Frémont, Corinne, Da Silva, Lucia, Campese, Émilie, Villar, Achal, Rastogi, Jean‑Marc, Aury, Chris, Bowler, Lee Karp, Boss, Patrick, Wincker, Eric, Pelletier, Marion, Gehlen, Daniele, Iudicone, Olivier, Jaillon
BioRxiv.

LARP4 Is an RNA-Binding Protein That Binds Nuclear-Encoded Mitochondrial mRNAs To Promote Mitochondrial Function
Benjamin M, Lewis, Chae Yun, Cho, Hsuan‑Lin, Her, Tony, Hunter, Gene W, Yeo
BioRxiv.

Structure and mechanics of the human Nuclear Pore Complex basket
Anthony, Vial, Luca, Costa, Patrice, Dosset, Pietro, Rosso, Gaëlle, Boutières, Orestis, Faklaris, Heiko, Haschke, Pierre‑Emmanuel, Milhiet, Christine M., Doucet
BioRxiv.

cis-eQTL mapping of TB-T2D comorbidity elucidates the involvement of African ancestry in TB susceptibility
Yolandi, Swart, Caitlin, Uren, Clare, Eckold, Jacqueline M, Cliff, Stephanus T, Malherbe, Katharina, Ronacher, Vinod, Kumar, Cisca, Wijmenga, Hazel M, Dockrell, Reinout, van Crevel, Gerhard, Walzl, Léanie, Kleynhans, Marlo, Möller
BioRxiv.

Gains and losses of the epiphytic lifestyle in epidendroid orchids : review and new analyses with succulence traits
Géromine, Collobert, Benoît, Perez‑Lamarque, Jean‑Yves, Dubuisson, Florent, Martos
BioRxiv.

The contribution of mutation to variation in temperature-dependent sprint speed in zebrafish, Danio rerio
Christina L., Miller, Derek, Sun, Lauren H., Thornton, Katrina, McGuigan
BioRxiv.

svep1 and tie1 genetically interact and affect aspects of facial lymphatic development in a Vegfc-independent manner
Melina, Hußmann, Sarah, Weischer, Claudia, Carlantoni, Didier Y. R., Stainier, Thomas, Zobel, Stefan, Schulte‑Merker
BioRxiv.

DREAMS : Deep Read-level Error Model for Sequencing data applied to low-frequency variant calling and circulating tumor DNA detection
Mikkel H., Christensen, Simon, Drue, Mads H., Rasmussen, Amanda, Frydendahl, Iben, Lyskjær, Christina, Demuth, Jesper, Nors, Kåre A., Gotschalck, Lene H., Iversen, Claus L., Andersen, Jakob Skou, Pedersen
BioRxiv.

DNA methylation at a single cytosine embedded in the W-box cis-element repels binding of WRKY transcription factors through steric hindrance
Magali, Charvin, Thierry, Halter, Romain, Blanc‑Mathieu, Pierre, Barraud, Magali, Aumont‑Nicaise, François, Parcy, Lionel, Navarro
BioRxiv.

Global observation of plankton communities from space
Hiroto, Kaneko, Hisashi, Endo, Nicolas, Henry, Cédric, Berney, Frédéric, Mahé, Julie, Poulain, Karine, Labadie, Odette, Beluche, Roy, El Hourany, Samuel, Chaffron, Patrick, Wincker, Ryosuke, Nakamura, Lee, Karp‑Boss, Emmanuel, Boss, Chris, Bowler, Colomban, de Vargas, Kentaro, Tomii, Hiroyuki, Ogata
BioRxiv.

Cross-modal Graph Contrastive Learning with Cellular Images
Shuangjia, Zheng, Jiahua, Rao, Jixian, Zhang, Ethan, Cohen, Chengtao, Li, Yuedong, Yang
BioRxiv.

The filipodia-like protrusions of adjacent somatic cells shape the developmental potential of mouse oocytes
Flora, Crozet, Gaëlle, Letort, Christelle, Da Silva, Adrien, Eichmuller, Anna Francesca, Tortorelli, Morgane, Belle, Julien, Dumont, Tristan, Piolot, Aurélien, Dauphin, Fanny, Coulpier, Alain, Chédotal, Jean‑Léon, Maître, Marie‑Hélène, Verlhac, Hugh.J, Clarke, Marie‑Emilie, Terret
BioRxiv.

CTNND2 moderates neuronal excitation and links human evolution to prolonged synaptic development in the neocortex
Nora, Assendorp, Marine, Depp, Matteo, Fossati, Florent, Dingli, Damarys, Loew, Cécile, Charrier
BioRxiv.

Nuclear basket protein ZC3HC1 and its yeast homolog Pml39p feature an evolutionary conserved bimodular construction essential for initial binding to NPC-anchored homologs of scaffold protein TPR
Philip, Gunkel, Haruki, Iino, Sandra, Krull, Volker C., Cordes
BioRxiv.

STAT3 promotes RNA polymerase III-directed transcription by controlling the miR-106a-5p/TP73 axis
Cheng, Zhang, Shahsha, Zhao, Huan, Deng, Shihua, Zhang, Juan, Wang, Xiaoye, Song, Deen, Yu, Yue, Zhang, Wensheng, Deng
BioRxiv.

Generation of floxed alleles for cell-specific knockout in zebrafish
Masahiro, Shin, Takayuki, Nozaki, Benjamin, Toles, Amy, Kolb, Kevin, Luk, Sumio, Isogai, Kinji, Ishida, Tomohito, Hanasaka, Michael J., Parsons, Scot A., Wolfe, Nathan D., Lawson
BioRxiv.

Variable effects on virulence of bacteriophage resistance mechanisms in extraintestinal pathogenic Escherichia coli
Baptiste, Gaborieau, Raphaëlle, Delattre, Sandrine, Adiba, Olivier, Clermont, Erick, Denamur, Jean‑Damien, Ricard, Laurent, Debarbieux
BioRxiv.

Comparing different computational approaches for detecting long-term vertical transmission in host-associated microbiota
Benoît, Perez‑Lamarque, Hélène, Morlon
BioRxiv.

The Nematode Oscheius tipulae as A Genetic Model for Programmed DNA Elimination
Thomas C., Dockendorff, Brandon, Estrem, Jordan, Reed, James R., Simmons, Sobhan Bahrami, Zadegan, Maxim V., Zagoskin, Vincent, Terta, Erin, Seaberry, Jianbin, Wang
BioRxiv.

Combining DNA scaffolds and acoustic force spectroscopy to characterize individual protein bonds
Yong Jian, Wang, Claire, Valotteau, Adrien, Aimard, Lorenzo, Villanueva, Dorota, Kostrz, Maryne, Follenfant, Terence, Strick, Patrick, Chames, Felix, Rico, Charlie, Gosse, Laurent, Limozin
BioRxiv.

The birth-death diffusion leading to present-day Mammal diversity
Ignacio, Quintero, Nicolas, Lartillot, Hélène, Morlon
BioRxiv.

Estimating the age of poorly dated fossil specimens and deposits using a total-evidence approach and the fossilized birth-death process
Joëlle, Barido‑Sottani, Dagmara, Żyła, Tracy A., Heath
BioRxiv.

The model diatom Phaeodactylum tricornutum provides insights into the diversity and function of microeukaryotic DNA methyltransferases
Antoine, Hoguin, Feng, Yang, Agnès, Groisillier, Chris, Bowler, Auguste, Genovesio, Ouardia, Ait‑Mohamed, Fabio Rocha Jimenez, Vieira, Leila, Tirichine
BioRxiv.

Do closely related species interact with similar partners ? Testing for phylogenetic signal in bipartite interaction networks
Benoît, Perez‑Lamarque, Odile, Maliet, Benoît, Pichon, Marc‑André, Selosse, Florent, Martos, Hélène, Morlon
BioRxiv.

Putting the F in FBD analyses : tree constraints or morphological data ?
Joëlle, Barido‑Sottani, Alexander, Pohle, Kenneth, De Baets, Duncan, Murdock, Rachel C. M., Warnock
BioRxiv.

Protein as evolvable functionally-constrained amorphous matter
Madhusmita, Tripathy, Anand, Srivastava, Srikanth, Sastry, Madan, Rao
BioRxiv.

Bottlenecks can constrain and channel evolutionary paths
Jasmine, Gamblin, Sylvain, Gandon, François, Blanquart, Amaury, Lambert
BioRxiv.

Morphological and sensorimotor phenotypes in a zebrafish CHARGE syndrome model are domain-dependent
Dana R., Hodorovich, Patrick M., Lindsley, Austen A., Berry, Derek F., Burton, Kurt C., Marsden
BioRxiv.

A proteomic screen of Ty1 integrase partners identifies the protein kinase CK2 as a regulator of Ty1 retrotransposition
Anastasia, Barkova, Indranil, Adhya, Christine, Conesa, Amna, Asif‑Laidin, Amandine, Bonnet, Elise, Rabut, Carine, Chagneau, Pascale, Lesage, Joël, Acker
BioRxiv.

Prox2+ and Runx3+ neurons regulate esophageal motility
Elijah D., Lowenstein, Pierre‑Louis, Ruffault, Aristotelis, Misios, Kate L., Osman, Huimin, Li, Rebecca, Thompson, Kun, Song, Stephan, Dietrich, Xun, Li, Nikita, Vladimirov, Jean‑François, Brunet, Andrew, Woehler, Niccolò, Zampieri, Ralf, Kühn, Shiqi, Jia, Gary R., Lewin, Nikolaus, Rajewsky, Teresa E., Lever, Carmen, Birchmeier
BioRxiv.

Regulation of oxidative phosphorylation by Nuclear myosin 1 protects cells from metabolic reprogramming and tumorigenesis in mice
Tomas, Venit, Oscar, Sapkota, Wael Said, Abdrabou, Palanikumar, Loganathan, Renu, Pasricha, Syed Raza, Mahmood, Nadine Hosny, El Said, Sneha, Thomas, Youssef, Idaghdour, Mazin, Magzoub, Piergiorgio, Percipalle
BioRxiv.

The role of histone acetyltransferases Gcn5 and Esa1 in recruiting the RSC complex and maintaining nucleosome-depleted regions genome-wide in Saccharomyces cerevisiae
Emily, Biernat, Mansi, Verma, Matthew, Werick, Uzair, Khan, Sama, Joseph, Chhabi K., Govind
BioRxiv.

Revealing invisible cell phenotypes with conditional generative modeling
Alexis, Lamiable, Tiphaine, Champetier, Francesco, Leonardi, Ethan, Cohen, Peter, Sommer, David, Hardy, Nicolas, Argy, Achille, Massougbodji, Elaine, Del Nery, Gilles, Cottrell, Yong‑Jun, Kwon, Auguste, Genovesio
BioRxiv.

Beta oscillations and waves in motor cortex can be accounted for by the interplay of spatially-structured connectivity and fluctuating inputs
Ling, Kang, Jonas, Ranft, Vincent, Hakim
BioRxiv.

Context- and scale-dependent effects of thymol bioactivity on biological networks : contributions from quail under heat stress
Maria Emilia, Fernandez, Rocío Inés, Bonansea, Agustin Lucini, Mas, María Verónica, Baroni, Raul Hector, Marin, Maria Carla, Labaque, Jackelyn M., Kembro
BioRxiv.

The TRIPLE PHD FINGERS proteins are required for SWI/SNF complex-mediated +1 nucleosome positioning and 5’ transcript length determination in Arabidopsis
Borja, Diego‑Martin, Jaime, Pérez‑Alemany, Joan, Candela‑Ferre, Antonio, Corbalán‑Acedo, Juan, Pereyra, David, Alabadí, Yasaman, Jami‑Alahmadi, James, Wohlschlegel, Javier, Gallego‑Bartolomé
BioRxiv.

Immune gene variation associated with chromosome-scale differences among individual zebrafish genomes
Sean C., McConnell, Kyle M., Hernandez, Jorge, Andrade, Jill L.O., de Jong
BioRxiv.

Postnatal developmental trajectory of sex-biased gene expression in the mouse pituitary gland
Huayun, Hou, Cadia, Chan, Kyoko E., Yuki, Dustin, Sokolowski, Anna, Roy, Rihao, Qu, Liis, Uusküla‑Reimand, Mariela, Faykoo‑Martinez, Matt, Hudson, Christina, Corre, Anna, Goldenberg, Zhaolei, Zhang, Mark R., Palmert, Michael D., Wilson
BioRxiv.

A Role for Nup153 in Nuclear Assembly Reveals Differential Requirements for Targeting of Nuclear Envelope Constituents
Dollie, LaJoie, Ayse M., Turkmen, Douglas R., Mackay, Christopher C., Jensen, Vasilisa, Aksenova, Maho, Niwa, Mary, Dasso, Katharine S., Ullman
BioRxiv.

Zur and Zinc Increase Expression of E. coli Ribosomal Protein L31 Through RNA-Mediated Repression of the Repressor L31p
Rebecca A., Rasmussen, Jeannie M., Camarillo, Victoria, Sosnowski, Byoung‑Kyu, Cho, Young Ah, Goo, Julius B., Lucks, Thomas V., O’Halloran
BioRxiv.

Whole-genome scanning reveals selection mechanisms in epipelagic Chaetoceros diatom populations
Charlotte, Nef, Mohammed‑Amin, Madoui, Éric, Pelletier, Chris, Bowler
BioRxiv.

Pervasive tandem duplications and convergent evolution shape coral genomes
Benjamin, Noel, France, Denoeud, Alice, Rouan, Carol, Buitrago‑López, Laura, Capasso, Julie, Poulain, Emilie, Boissin, Mélanie, Pousse, Corinne, Da Silva, Arnaud, Couloux, Eric, Armstrong, Quentin, Carradec, Corinne, Cruaud, Karine, Labadie, Julie, Lê‑Hoang, Sylvie, Tambutté, Valérie, Barbe, Clémentine, Moulin, Guillaume, Bourdin, Guillaume, Iwankow, Sarah, Romac, Denis, Allemand, Serge, Planes, Eric, Gilson, Didier, Zoccola, Patrick, Wincker, Christian R, Voolstra, Jean‑Marc, Aury
BioRxiv.

tRNA Methylation Resolves Codon Usage Bias at the Limit of Cell Viability
Isao, Masuda, Yuka, Yamaki, Rajesh, Detroja, Somnath, Tagore, Henry, Moore, Sunita, Maharjan, Yuko, Nakano, Thomas, Christian, Ryuma, Matsubara, Todd, Lowe, Milana, Frenkel‑Morgenstern, Ya‑Ming, Hou
BioRxiv.

Structure and specialization of mycorrhizal networks in phylogenetically diverse tropical communities
Benoît, Perez‑Lamarque, Rémi, Petrolli, Christine, Strullu‑Derrien, Dominique, Strasberg, Hélène, Morlon, Marc‑André, Selosse, Florent, Martos
BioRxiv.

Neurotransmitter content heterogeneity within an interneuron class shapes inhibitory transmission at a central synapse
Dimitri, Dumontier, Caroline, Mailhes‑Hamon, Stéphane, Supplisson, Stéphane, Dieudonné
BioRxiv.

An atlas of fish genome evolution reveals delayed rediploidization following the teleost whole-genome duplication
Elise, Parey, Alexandra, Louis, Jérôme, Montfort, Yann, Guiguen, Hugues Roest, Crollius, Camille, Berthelot
BioRxiv.

Displacement and dissociation of oligonucleotides during DNA hairpin closure under strain
Fangyuan, Ding, Simona, Cocco, Saurabh, Raj, Maria, Manosas, Michelle M., Spiering, David, Bensimon, Jean‑François, Allemand, Vincent, Croquette
BioRxiv.

Evolution is not uniform along protein sequences
Raphaël, Bricout, Dominique, Weil, David, Stroebel, Auguste, Genovesio, Hugues Roest, Crollius
BioRxiv.

Interpreting the pervasive observation of U-shaped Site Frequency Spectra
Fabian, Freund, Elise, Kerdoncuff, Sebastian, Matuszewski, Marguerite, Lapierre, Marcel, Hildebrandt, Jeffrey D., Jensen, Luca, Ferretti, Amaury, Lambert, Timothy B., Sackton, Guillaume, Achaz
BioRxiv.

Global drivers of obligate mycorrhizal symbionts diversification
Benoît, Perez‑Lamarque, Maarja, Öpik, Odile, Maliet, Ana C., Afonso Silva, Marc‑André, Selosse, Florent, Martos, Hélène, Morlon
BioRxiv.

Binding of different substrate molecules at the docking site and the active site of γ-secretase can trigger toxic events in sporadic and familial Alzheimer’s disease
Željko M., Svedružić, Vesna Šendula, Jengić, Lucija, Ostojić
BioRxiv.

Elp1 is required for development of visceral sensory peripheral and central circuitry
Zariah, Tolman, Marta, Chaverra, Lynn, George, Frances, Lefcort
BioRxiv.

RNA-protein interactome at the Hepatitis E virus internal ribosome entry site
Shiv, Kumar, Rohit, Verma, Sandhini, Saha, Ashish, Agrahari, Shivangi, Shukla, Anurag, Tushar Kanti, Maiti, Shailendra, Asthana, C.T., Ranjith‑Kumar, Milan, Surjit
BioRxiv.

A maximum mean discrepancy approach reveals subtle changes in α-synuclein dynamics
Hippolyte, Verdier, François, Laurent, Alhassan, Cassé, Christian L., Vestergaard, Christian G., Specht, Jean‑Baptiste, Masson
BioRxiv.

Endogenous viral elements reveal associations between a non-retroviral RNA virus and symbiotic dinoflagellate genomes
Alex J., Veglia, Kalia S.I., Bistolas, Christian R., Voolstra, Benjamin C. C., Hume, Serge, Planes, Denis, Allemand, Emilie, Boissin, Patrick, Wincker, Julie, Poulain, Clémentine, Moulin, Guillaume, Bourdin, Guillaume, Iwankow, Sarah, Romac, Sylvain, Agostini, Bernard, Banaigs, Emmanuel, Boss, Chris, Bowler, Colomban, de Vargas, Eric, Douville, Michel, Flores, Didier, Forcioli, Paola, Furla, Pierre, Galand, Eric, Gilson, Fabien, Lombard, Stéphane, Pesant, Stéphanie, Reynaud, Shinichi, Sunagawa, Olivier, Thomas, Romain, Troublé, Didier, Zoccola, Adrienne M.S., Correa, Rebecca L., Vega Thurber
BioRxiv.

Genome structures resolve the early diversification of teleost fishes
Elise, Parey, Alexandra, Louis, Jerome, Montfort, Olivier, Bouchez, Céline, Roques, Carole, Iampietro, Jerome, Lluch, Adrien, Castinel, Cécile, Donnadieu, Thomas, Desvignes, Christabel Floi, Bucao, Elodie, Jouanno, Ming, Wen, Sahar, Mejri, Ron, Dirks, Hans, Jansen, Christiaan, Henkel, Wei‑Jen, Chen, Margot, Zahm, Cédric, Cabau, Christophe, Klopp, Andrew W., Thompson, Marc, Robinson‑Rechavi, Ingo, Braasch, Guillaume, Lecointre, Julien, Bobe, John H., Postlethwait, Camille, Berthelot, Hugues Roest, Crollius, Yann, Guiguen
BioRxiv.

Epistasis between synonymous and nonsynonymous mutations in Dictyostelium discoideum ammonium transporter amtA drives functional complementation in Saccharomyces cerevisiae
Asha, Densi, Revathi S, Iyer, Paike Jayadeva, Bhat
BioRxiv.

Transcriptional profiling from whole embryos to single neuroblast lineages in Drosophila
Austin, Seroka, Sen‑Lin, Lai, Chris Q, Doe
BioRxiv.

Microglial TNFα orchestrates brain phosphorylation during the sleep period and controls homeostatic sleep
Maria J, Pinto, Léa, Cottin, Florent, Dingli, Victor, Laigle, Luís F., Ribeiro, Antoine, Triller, Fiona J, Henderson, Damarys, Loew, Véronique, Fabre, Alain, Bessis
BioRxiv.

Comparative analysis of genome-wide protein-DNA interactions across domains of life reveals unique binding patterns for hypersaline archaeal histones
Saaz, Sakrikar, Rylee K., Hackley, Mar, Martinez‑Pastor, Cynthia L., Darnell, Angie, Vreugdenhil, Amy K., Schmid
BioRxiv.

Nementin is a Nematode-Selective Small Molecule Agonist of Neurotransmitter Release
Sean, Harrington, Jessica J., Knox, Andrew R., Burns, Ken‑Loon, Choo, Aaron, Au, Megan, Kitner, Cecile, Haeberli, Jacob, Pyche, Cassandra, D’Amata, Yong‑Hyun, Kim, Jonathan R., Volpatti, Maximillano, Guiliani, Jamie, Snider, Victoria, Wong, Bruna M., Palmeira, Elizabeth M., Redman, Aditya S., Vaidya, John S., Gilleard, Igor, Stagljar, Sean R., Cutler, Daniel, Kulke, James J., Dowling, Christopher M., Yip, Jennifer, Keiser, Inga, Zasada, Mark, Lautens, Peter J., Roy
BioRxiv.

Selective Control of Parasitic Nematodes Using Bioactivated Nematicides
Andrew R., Burns, Rachel J., Ross, Megan, Kitner, Jonathan R., Volpatti, Aditya S., Vaidya, Emily, Puumala, Bruna M., Palmeira, Elizabeth M., Redman, Jamie, Snider, Sagar, Marwah, Sai W., Chung, Margaret H., MacDonald, Jens, Tiefenbach, Chun, Hu, Qi, Xiao, Constance A. M., Finney, Henry M., Krause, Sonya A., MacParland, Igor, Stagljar, John S., Gilleard, Leah E., Cowen, Susan L. F., Meyer, Sean R., Cutler, James J., Dowling, Mark, Lautens, Inga, Zasada, Peter J., Roy
BioRxiv.

Deletion of can1/cat1 genes and expression of a dominant any1 mutation establish an effective canavanine selection in fission yeast
Anissia Ait, Saada, Alex B., Costa, Kirill S., Lobachev
BioRxiv.

Distinct functions of three chromatin remodelers in activator binding and preinitiation complex assembly
Yashpal, Rawal, Hongfang, Qiu, Alan G., Hinnebusch
BioRxiv.

Structural basis of Ty1 integrase tethering to RNA polymerase III for targeted retrotransposon integration
Phong Quoc, Nguyen, Sonia, Huecas, Amna, Asif‑Laidin, Adrián, Plaza‑Pegueroles, Noé, Palmic, Joël, Acker, Juan, Reguera, Pascale, Lesage, Carlos, Fernández‑Tornero
BioRxiv.

Alterations of the axon initial segment in multiple sclerosis
Aysegul Dilsizoglu, Senol, Giulia, Pinto, Maxime, Beau, Vincent, Guillemot, Jeff L., Dupree, Christine, Stadelmann, Jonas, Ranft, Catherine, Lubetzki, Marc, Davenne
BioRxiv.

Architecture of the yeast Pol III pre-termination complex and pausing mechanism on poly-dT termination signals
Mathias, Girbig, Juanjuan, Xie, Helga, Grötsch, Domenico, Libri, Odil, Porrua, Christoph W., Müller
BioRxiv.

Evolutionary conservation of centriole rotational asymmetry in the human centrosome
Noémie, Gaudin, Paula Martin, Gil, Meriem, Boumendjel, Dmitry, Ershov, Catherine, Pioche‑Durieu, Manon, Bouix, Quentin, Delobelle, Lucia, Maniscalco, Thanh Bich, Ngan Phan, Vincent, Heyer, Bernardo, Reina‑San‑Martin, Juliette, Azimzadeh
BioRxiv.

Reconstruction of hundreds of reference ancestral genomes across the eukaryotic kingdom
Matthieu, Muffato, Alexandra, Louis, Nga Thi Thuy, Nguyen, Joseph, Lucas, Camille, Berthelot, Hugues Roest, Crollius
BioRxiv.

Automatic post-processing and merging of multiple spike-sorting analyses with Lussac
Victor, Llobet, Aurélien, Wyngaard, Boris, Barbour
BioRxiv.

Effects of cryo-EM cooling on structural ensembles
Lars V., Bock, Helmut, Grubmüller
BioRxiv.

Deep sequencing of yeast and mouse tRNAs and tRNA fragments using OTTR
H. Tobias, Gustafsson, Carolina, Galan, Tianxiong, Yu, Heather E., Upton, Lucas, Ferguson, Ebru, Kaymak, Zhiping, Weng, Kathleen, Collins, Oliver J., Rando
BioRxiv.

Multivalent interactions essential for lentiviral integrase function
Allison, Ballandras‑Colas, Vidya, Chivukula, Dominika T., Gruszka, Zelin, Shan, Parmit K., Singh, Valerie E., Pye, Rebecca K., McLean, Gregory J., Bedwell, Wen, Li, Andrea, Nans, Nicola J., Cook, Hind J., Fadel, Eric M., Poeschla, David J., Griffiths, Javier, Vargas, Ian A., Taylor, Dmitry, Lyumkis, Hasan, Yardimci, Alan N., Engelman, Peter, Cherepanov
BioRxiv.

An epigenome atlas of neural progenitors within the embryonic mouse forebrain
Christopher T., Rhodes, Joyce J., Thompson, Apratim, Mitra, Dhanya, Asokumar, Dongjin R., Lee, Daniel J., Lee, Yajun, Zhang, Eva, Jason, Ryan K., Dale, Pedro P., Rocha, Timothy J., Petros
BioRxiv.

High abundance of transcription regulators compacts the nucleoid in Escherichia coli
Cihan, Yilmaz, Karin, Schnetz
BioRxiv.

Evolving social behaviour through selection of single-cell adhesion in Dictyostelium discoideum
Sandrine, Adiba, Mathieu, Forget, Silvia, De Monte
BioRxiv.

Strand-switching mechanism of Pif1 helicase induced by its collision with a G-quadruplex embedded in dsDNA
Jessica, Valle‑Orero, Martin, Rieu, Phong Lan Thao, Tran, Alexandra, Joubert, Jean‑François, Allemand, Vincent, Croquette, Jean‑Baptiste, Boulé
BioRxiv.

Single-molecule mapping of replisome progression
Clémence, Claussin, Jacob, Vazquez, Iestyn, Whitehouse
BioRxiv.

Dissecting conformational rearrangements and allosteric modulation in metabotropic glutamate receptor activation
Nathalie, Lecat‑Guillet, Robert B., Quast, Hongkang, Liu, Thor C., Møller, Xavier, Rovira, Stéphanie, Soldevila, Laurent, Lamarque, Eric, Trinquet, Jianfeng, Liu, Jean‑Philippe, Pin, Philippe, Rondard, Emmanuel, Margeat
BioRxiv.

ZC3HC1 is a structural element of the nuclear basket effecting interlinkage of TPR polypeptides
Philip, Gunkel, Volker C., Cordes
BioRxiv.

High affinity enhancer-promoter interactions can bypass CTCF/cohesin-mediated insulation and contribute to phenotypic robustness
Shreeta, Chakraborty, Nina, Kopitchinski, Ariel, Eraso, Parirokh, Awasthi, Raj, Chari, Pedro P, Rocha
BioRxiv.

Properties and proximity proteomics of synaptopodin provide insight into the molecular organization of the spine apparatus of dendritic spines
Hanieh, Falahati, Yumei, Wu, Vanessa, Feuerer, Pietro, De Camilli
BioRxiv.

A reference induced pluripotent stem cell line for large-scale collaborative studies
Caroline B., Pantazis, Andrian, Yang, Erika, Lara, Justin A., McDonough, Cornelis, Blauwendraat, Lirong, Peng, Hideyuki, Oguro, Jitendra, Kanaujiya, Jizhong, Zou, David, Sebesta, Gretchen, Pratt, Erin, Cross, Jeffrey, Blockwick, Philip, Buxton, Lauren, Kinner‑Bibeau, Constance, Medura, Christopher, Tompkins, Stephen, Hughes, Marianita, Santiana, Faraz, Faghri, Mike A., Nalls, Daniel, Vitale, Shannon, Ballard, Yue A., Qi, Daniel M., Ramos, Kailyn M., Anderson, Julia, Stadler, Priyanka, Narayan, Jason, Papademetriou, Luke, Reilly, Matthew P., Nelson, Sanya, Aggarwal, Leah U., Rosen, Peter, Kirwan, Venkat, Pisupati, Steven L., Coon, Sonja W., Scholz, Theresa, Priebe, Miriam, Öttl, Jian, Dong, Marieke, Meijer, Lara J.M., Janssen, Vanessa S., Lourenco, Rik, van der Kant, Dennis, Crusius, Dominik, Paquet, Ana‑Caroline, Raulin, Guojun, Bu, Aaron, Held, Brian J., Wainger, Rebecca M.C., Gabriele, Jackie M, Casey, Selina, Wray, Dad, Abu‑Bonsrah, Clare L., Parish, Melinda S., Beccari, Don W., Cleveland, Emmy, Li, Indigo V.L., Rose, Martin, Kampmann, Carles Calatayud, Aristoy, Patrik, Verstreken, Laurin, Heinrich, Max Y., Chen, Birgitt, Schüle, Dan, Dou, Erika L.F., Holzbaur, Maria Clara, Zanellati, Richa, Basundra, Mohanish, Deshmukh, Sarah, Cohen, Richa, Khanna, Malavika, Raman, Zachary S., Nevin, Madeline, Matia, Jonas Van, Lent, Vincent, Timmerman, Bruce R., Conklin, Katherine Johnson, Chase, Ke, Zhang, Salome, Funes, Daryl A., Bosco, Lena, Erlebach, Marc, Welzer, Deborah, Kronenberg‑Versteeg, Guochang, Lyu, Ernest, Arenas, Elena, Coccia, Lily, Sarrafha, Tim, Ahfeldt, John C., Marioni, William C., Skarnes, Mark R., Cookson, Michael E., Ward, Florian T., Merkle
BioRxiv.

Single amino-acid mutation in a Drosophila melanogaster ribosomal protein : an insight in uL11 transcriptional activity
Héloïse, Grunchec, Jérôme, Deraze, Delphine, Dardalhon‑Cuménal, Valérie, Ribeiro, Anne, Coléno‑Costes, Karine, Dias, Sébastien, Bloyer, Emmanuèle, Mouchel‑Vielh, Frédérique, Peronnet, Hélène, Thomassin
BioRxiv.

Artificial selection of communities drives the emergence of structured interactions
Jules, Fraboul, Giulio, Biroli, Silvia, De Monte
BioRxiv.

Macroevolutionary dynamics of climatic niche space
Ignacio, Quintero, Marc A., Suchard, Walter, Jetz
BioRxiv.

Developing an empirical model for spillover and emergence : Orsay virus host range in Caenorhabditis
Clara L., Shaw, David A., Kennedy
BioRxiv.

Transcriptomic heterogeneity of Sox2-expressing pituitary cells
Patrick A., Fletcher, Rafael M., Prévide, Kosara, Smiljanic, Arthur, Sherman, Steven L., Coon, Stanko S., Stojilkovic
BioRxiv.

Single-cell transcriptome reveals insights into the development and function of the zebrafish ovary
Yulong, Liu, Michelle E., Kossack, Matthew E., McFaul, Lana, Christensen, Stefan, Siebert, Sydney R., Wyatt, Caramai, Kamei, Samuel, Horst, Nayeli, Arroyo, Iain, Drummond, Celina E., Juliano, Bruce W., Draper
BioRxiv.

An interplay between cellular growth and atypical fusion defines morphogenesis of a modular glial niche
Maria Alexandra, Rujano, David, Briand, Bojana, Ðelić, Pauline, Spéder
BioRxiv.

A fully automated FAIMS-DIA proteomic pipeline for high-throughput characterization of iPSC-derived neurons
Luke, Reilly, Lirong, Peng, Erika, Lara, Daniel, Ramos, Michael, Fernandopulle, Caroline B., Pantazis, Julia, Stadler, Marianita, Santiana, Anant, Dadu, James, Iben, Faraz, Faghri, Mike A., Nalls, Steven L., Coon, Priyanka, Narayan, Andrew B., Singleton, Mark R., Cookson, Michael E., Ward, Yue A., Qi
BioRxiv.

An efficient and adaptable workflow for editing disease-relevant single nucleotide variants using CRISPR/Cas9
Inga, Usher, Lorena, Ligammari, Sara, Ahrabi, Emily, Hepburn, Calum, Connolly, Gareth L., Bond, Adrienne M., Flanagan, Lucia, Cottone
BioRxiv.

Chromosome scale assembly of allopolyploid genome of the diatom Fistulifera solaris
Yoshiaki, Maeda, Kahori, Watanabe, Ryosuke, Kobayashi, Tomoko, Yoshino, Chris, Bowler, Mitsufumi, Matsumoto, Tsuyoshi, Tanaka
BioRxiv.

Maf1, a repressor of RNA polymerase III-dependent transcription, regulates bone mass
Ellen, Busschers, Naseer, Ahmad, Li, Sun, James, Iben, Christopher J., Walkey, Aleksandra, Rusin, Tony, Yuen, Clifford J., Rosen, Ian M., Willis, Mone, Zaidi, Deborah L., Johnson
BioRxiv.

SPtsAnalysis : a high-throughput super-resolution single particle trajectory analysis to reconstruct organelle dynamics and membrane re-organization
P., Parutto, J., Heck, M., Lu, C., Kaminski, M., Heine, E., Avezov, D., Holcman
BioRxiv.

Dynamic Cell Imaging : application to the diatom Phaeodactylum tricornutum under environmental stresses
Houda, Bey, Florent, Charton, Helena Cruz, de Carvalho, Shun, Liu, Richard G., Dorrell, Chris, Bowler, Claude, Boccara, Martine, Boccara
BioRxiv.

Systematic expression profiling of dprs and DIPs reveals cell surface codes in Drosophila larval peripheral neurons
Yupu, Wang, Meike, Lobb‑Rabe, James, Ashley, Purujit, Chatterjee, Veera, Anand, Hugo J., Bellen, Oguz, Kanca, Robert A., Carrillo
BioRxiv.

The accumulation of lncRNAs in hybrid with DNA in patients with psoriasis reveals a decrease in the levels of RNase HII transcripts in the skin
Ecmel, Mehmetbeyoglu, Leila, Kianmehr, Murat, Borlu, Zeynep, Yilmaz, Seyma Basar, Kılıc, Hassan, Rajabi‑Maham, Serpil, Taheri, Minoo, Rassoulzadegan
BioRxiv.

Eoulsan 2 : an efficient workflow manager for reproducible bulk, long-read and single-cell transcriptomics analyses
Nathalie, Lehmann, Sandrine, Perrin, Claire, Wallon, Xavier, Bauquet, Vivien, Deshaies, Cyril, Firmo, Runxin, Du, Charlotte, Berthelier, Céline, Hernandez, Cédric, Michaud, Denis, Thieffry, Stéphane, Le Crom, Morgane, Thomas‑Chollier, Laurent, Jourdren
BioRxiv.

Heterogeneity and developmental dynamics of LYVE-1 perivascular macrophages distribution in the mouse brain
Marie, Karam, Guy, Malkinson, Isabelle, Brunet
BioRxiv.

Population bottleneck has only marginal effect on fitness evolution and its repeatability in dioecious C. elegans
Karen, Bisschop, Thomas, Blankers, Janine, Mariën, Meike T., Wortel, Martijn, Egas, Astrid T., Groot, Marcel E., Visser, Jacintha, Ellers
BioRxiv.

A holobiont view of island biogeography : unraveling patterns driving the nascent diversification of a Hawaiian spider and its microbial associates
Ellie E., Armstrong, Benoît, Perez‑Lamarque, Ke, Bi, Cerise, Chen, Leontine E., Becking, Jun Ying, Lim, Tyler, Linderoth, Henrik, Krehenwinkel, Rosemary, Gillespie
BioRxiv.

Blind cavefish retain functional connectivity in the tectum despite loss of retinal input
Evan, Lloyd, Brittnee, McDole, Martin, Privat, James B., Jaggard, Erik, Duboué, German, Sumbre, Alex, Keene
BioRxiv.

DAVI : a tool for clustering and visualising protein domain architectures
Paul, Saighi, Chadi, Jaouadi, Fabio R.J, Vieira, Juliana Silva, Bernardes
BioRxiv.

Cerebellar stimulations prevent Levodopa-induced dyskinesia in mice and normalize brain activity
Bérénice, Coutant, Jimena Laura, Frontera, Elodie, Perrin, Adèle, Combes, Thibault, Tarpin, Fabien, Menardy, Caroline, Mailhes‑Hamon, Sylvie, Perez, Bertrand, Degos, Laurent, Venance, Clément, Léna, Daniela, Popa
BioRxiv.

Activity-dependent modulation of NMDA receptors by endogenous zinc shapes dendritic function in cortical neurons
Annunziato, Morabito, Yann, Zerlaut, Benjamin, Serraz, Romain, Sala, Pierre, Paoletti, Nelson, Rebola
BioRxiv.

A robust approach to estimate relative phytoplankton cell abundance from metagenomes
Juan José Pierella, Karlusich, Eric, Pelletier, Lucie, Zinger, Fabien, Lombard, Adriana, Zingone, Sébastien, Colin, Josep M., Gasol, Richard G., Dorrell, Eleonora, Scalco, Silvia G., Acinas, Patrick, Wincker, Colomban, de Vargas, Chris, Bowler
BioRxiv.

Photoinduced Isomerization Sampling of Retinal in Bacteriorhodopsin
Zhong, Ren
BioRxiv.

Environmental and molecular modulation of motor individuality in larval zebrafish
John, Hageter, Matthew, Waalkes, Jacob, Starkey, Haylee, Copeland, Heather, Price, Logan, Bays, Casey, Showman, Sean, Laverty, Sadie A., Bergeron, Eric J., Horstick
BioRxiv.

Identification of a stereotypic molecular arrangement of endogenous glycine receptors at spinal cord synapses
Stephanie A, Maynard, Philippe, Rostaing, Natascha, Schaefer, Olivier, Gemin, Adrien, Candat, Andréa, Dumoulin, Carmen, Villmann, Antoine, Triller, Christian G, Specht
BioRxiv.

Biochemical characterization of a human septin octamer
Martin, Fischer, Dominik, Frank, Reinhild, Rösler, Nils, Johnsson, Thomas, Gronemeyer
BioRxiv.

Fast wavefront shaping for two-photon brain imaging with large field of view correction
Baptiste, Blochet, Walther, Akemann, Sylvain, Gigan, Laurent, Bourdieu
BioRxiv.

Autonomic and respiratory components of orienting behaviors are mediated by descending pathways originating from the superior colliculus
Erin, Lynch, Bowen, Dempsey, Christine, Saleeba, Eloise, Monteiro, Anita, Turner, Peter GR, Burke, Andrew M, Allen, Roger AL, Dampney, Cara M, Hildreth, Jennifer L, Cornish, Ann K, Goodchild, Simon, McMullan
BioRxiv.

Control of protein synthesis and memory by GluN3A-NMDA receptors through inhibition of GIT1/mTORC1 assembly
María J., Conde‑Dusman, Partha N., Dey, Oscar, Elía‑Zudaire, Luis G., Rabaneda, Carmen, García‑Lira, Teddy, Grand, Victor, Briz, Eric R., Velasco, Raúl, Andero, Sergio, Niñerola, Angel, Barco, Pierre, Paoletti, John F., Wesseling, Fabrizio, Gardoni, Steven J., Tavalin, Isabel, Pérez‑Otaño
BioRxiv.

Nucleosome positioning on large tandem DNA repeats of the ‘601’ sequence engineered in Saccharomyces cerevisiae
Astrid, Lancrey, Alexandra, Joubert, Evelyne, Duvernois‑Berthet, Etienne, Routhier, Saurabh, Raj, Agnès, Thierry, Marta, Sigarteu, Loic, Ponger, Vincent, Croquette, Julien, Mozziconacci, Jean‑Baptiste, Boulé
BioRxiv.

Nuclear RNA binding regulates TDP-43 nuclear localization and passive nuclear export
Lauren, Duan, Benjamin L., Zaepfel, Vasilisa, Aksenova, Mary, Dasso, Jeffrey D., Rothstein, Petr, Kalab, Lindsey R., Hayes
BioRxiv.

RSC and GRFs confer promoter directionality by limiting divergent noncoding transcription
Andrew C.K., Wu, Claudia, Vivori, Harshil, Patel, Theodora, Sideri, Fabien, Moretto, Folkert J., van Werven
BioRxiv.

Within-Arctic horizontal gene transfer as a driver of convergent evolution in distantly related microalgae
Richard G., Dorrell, Alan, Kuo, Zoltan, Füssy, Elisabeth, Richardson, Asaf, Salamov, Nikola, Zarevski, Nastasia J., Freyria, Federico M., Ibarbalz, Jerry, Jenkins, Juan Jose Pierella, Karlusich, Andrei Stecca, Steindorff, Robyn E., Edgar, Lori, Handley, Kathleen, Lail, Anna, Lipzen, Vincent, Lombard, John, McFarlane, Charlotte, Nef, Anna M.G., Novák Vanclová, Yi, Peng, Chris, Plott, Marianne, Potvin, Fabio Rocha Jimenez, Vieira, Kerrie, Barry, Joel B., Dacks, Colomban, de Vargas, Bernard, Henrissat, Eric, Pelletier, Jeremy, Schmutz, Patrick, Wincker, Chris, Bowler, Igor V., Grigoriev, Connie, Lovejoy
BioRxiv.

Rapid redistribution and extensive binding of NANOG and GATA6 at shared regulatory elements underlie specification of divergent cell fates
Joyce J., Thompson, Daniel J., Lee, Apratim, Mitra, Sarah, Frail, Ryan, Dale, Pedro P., Rocha
BioRxiv.

Epigenetic Divergence during Early Stages of Speciation in an African Crater Lake Cichlid Fish
Grégoire, Vernaz, Alan G., Hudson, M., Emília Santos, Bettina, Fischer, Madeleine, Carruthers, Asilatu H., Shechonge, Nestory P., Gabagambi, Alexandra M., Tyers, Benjamin P., Ngatunga, Milan, Malinsky, Richard, Durbin, George F., Turner, Martin J., Genner, Eric A., Miska
BioRxiv.

Annexin A1 is a polarity cue that directs planar mitotic spindle orientation during mammalian epithelial morphogenesis
Maria, Fankhaenel, Farahnaz Sadat Golestan, Hashemi, Larissa, Mourao, Emily, Lucas, Manal Mosa, Hosawi, Paul, Skipp, Xavier, Morin, Colinda L.G.J., Scheele, Salah, Elias
BioRxiv.

Upregulation of breathing rate during running exercise by central locomotor circuits
Coralie, Hérent, Séverine, Diem, Gilles, Fortin, Julien, Bouvier
BioRxiv.

Contribution of genome scale metabolic modeling to niche theory
Antoine, Régimbeau, Marko, Budinich, Abdelhalim, Larhlimi, Juan Jose Pierella, Karlusich, Olivier, Aumont, Laurent, Memery, Chris, Bowler, Damien, Eveillard
BioRxiv.

A high-throughput assay for directly monitoring nucleolar rRNA biogenesis
Carson J., Bryant, Mason A., McCool, Laura, Abriola, Yulia V., Surovtseva, Susan J., Baserga
BioRxiv.

Human engineered skeletal muscle of hypaxial origin from pluripotent stem cells with advanced function and regenerative capacity
Mina, Shahriyari, Md Rezaul, Islam, M. Sadman, Sakib, Anastasia, Rika, Dennis, Krüger, Lalit, Kaurani, Harithaa, Anandakumar, Orr, Shomroni, Matthias, Schmidt, Gabriela, Salinas, Andreas, Unger, Wolfgang A., Linke, Jana, Zschüntzsch, Jens, Schmidt, André, Fischer, Wolfram‑Hubertus, Zimmermann, Malte, Tiburcy
BioRxiv.

Transcriptional heterogeneity of ventricular zone cells throughout the embryonic mouse forebrain
Dongjin R., Lee, Christopher T., Rhodes, Apratim, Mitra, Yajun, Zhang, Dragan, Maric, Ryan K., Dale, Timothy J., Petros
BioRxiv.

An executive center for the intake of liquids
Bowen, Dempsey, Selvee, Sungeelee, Philip, Bokiniec, Zoubida, Chettouh, Séverine, Diem, Sandra, Autran, Evan R., Harrell, James F.A., Poulet, Carmen, Birchmeier, Harry, Carrey, Auguste, Genovesio, Simon, McMullan, Christo, Goridis, Gilles, Fortin, Jean‑François, Brunet
BioRxiv.

A unique cerebellar pattern of microglia activation in a mouse model of encephalopathy of prematurity
Luisa, Klein, Juliette, Van Steenwinckel, Bobbi, Fleiss, Till, Scheuer, Christoph, Bührer, Valerie, Faivre, Cindy, Bokobza, Sophie, Lemoine, Corinne, Blugeon, Leslie, Schwendimann, Zsolt, Csaba, Dulcie A., Vousden, Jason P., Lerch, Anthony C., Vernon, Pierre, Gressens, Thomas, Schmitz
BioRxiv.

Viral transduction and the dynamics of bacterial adaptation
Philippe, Cherabier, Sylvie, Méléard, Régis, Ferrière
BioRxiv.

Bidirectional cooperation between Ubtf1 and SL1 determines RNA Polymerase I promoter recognition in cell and is negatively affected in the UBTF-E210K neuroregression syndrome
Michel G., Tremblay, Dany S., Sibai, Melissa, Valère, Jean‑Clément, Mars, Frédéric, Lessard, Roderick T., Hori, Mohammad M., Khan, Victor Y., Stefanovsky, Mark S., Ledoux, Tom, Moss
BioRxiv.

C. elegans TFIIH subunit GTF-2H5/TTDA is a non-essential transcription factor indispensable for DNA repair
Karen L., Thijssen, Melanie, van der Woude, Carlota, Davó‑Martínez, Mariangela, Sabatella, Wim, Vermeulen, Hannes, Lans
BioRxiv.

A three-sodium-to-glycine stoichiometry shapes the structural relationships of ATB0,+ with GlyT2 and GlyT1 in the SLC6 family
Bastien, Le Guellec, France, Rousseau, Marion, Bied, Stéphane, Supplisson
BioRxiv.

NMDARs in Granule Cells contribute to parallel fiber - Purkinje cell synaptic plasticity and motor learning
Martijn, Schonewille, Allison E., Girasole, Philippe, Rostaing, Caroline, Mailhes‑Hamon, Annick, Ayon, Alexandra B., Nelson, Antoine, Triller, Mariano, Casado, Chris I., De Zeeuw, Guy, Bouvier
BioRxiv.

Peripheral neuropathy linked mRNA export factor GANP reshapes gene regulation in human motor neurons
Rosa, Woldegebriel, Jouni, Kvist, Matthew, White, Matilda, Sinkko, Satu, Hänninen, Markus T, Sainio, Rubén, Torregrosa‑Munumer, Sandra, Harjuhaahto, Nadine, Huber, Sanna‑Kaisa, Herukka, Annakaisa, Haapasalo, Olli, Carpen, Andrew, Bassett, Emil, Ylikallio, Jemeen, Sreedharan, Henna, Tyynismaa
BioRxiv.

In mice and humans, the brain’s blood vessels mature postnatally to acquire barrier and contractile properties
Leila, Slaoui, Alice, Gilbert, Laetitia, Federici, Armelle, Rancillac, Antoinette, Gelot, Maryline, Favier, Noémie, Robil, Gaëlle, Letort, Karine, Dias, Laurent, Jourdren, Philippe, Mailly, Sylvain, Auvity, Salvatore, Cisternino, Martine, Cohen‑Salmon, Anne‑Cécile, Boulay
BioRxiv.

Massive colonization of protein-coding exons by selfish genetic elements in Paramecium germline genomes
Diamantis, Sellis, Frédéric, Guérin, Olivier, Arnaiz, Walker, Pett, Emmanuelle, Lerat, Nicole, Boggetto, Sascha, Krenek, Thomas, Berendonk, Arnaud, Couloux, Jean‑Marc, Aury, Karine, Labadie, Sophie, Malinsky, Simran, Bhullar, Eric, Meyer, Linda, Sperling, Laurent, Duret, Sandra, Duharcourt
BioRxiv.

A genome-wide knock-out screen for actors of epigenetic silencing reveals new regulators of germline genes and 2-cell like cell state
Nikhil, Gupta, Lounis, Yakhou, Julien Richard, Albert, Fumihito, Miura, Laure, Ferry, Olivier, Kirsh, Marthe, Laisné, Kosuke, Yamaguchi, Cécilia, Domrane, Frédéric, Bonhomme, Arpita, Sarkar, Marine, Delagrange, Bertrand, Ducos, Maxim V. C., Greenberg, Gael, Cristofari, Sebastian, Bultmann, Takashi, Ito, Pierre‑Antoine, Defossez
BioRxiv.

Classification of non-coding variants with high pathogenic impact
Lambert, Moyon, Camille, Berthelot, Alexandra, Louis, Nga Thi Thuy, Nguyen, Hugues Roest, Crollius
BioRxiv.

METTL8 is required for 3-methylcytosine modification in human mitochondrial tRNAs
Jenna M., Lentini, Rachel, Bargabos, Chen, Chen, Dragony, Fu
BioRxiv.

OTX2 homeoprotein functions in adult choroid plexus
Anabelle, Planques, Vanessa Oliveira, Moreira, David, Benacom, Clémence, Bernard, Laurent, Jourdren, Corinne, Blugeon, Florent, Dingli, Vanessa, Masson, Damarys, Loew, Alain, Prochiantz, Ariel A., Di Nardo
BioRxiv.

Heterogeneous pdgfrβ+ cells regulate coronary vessel development and revascularization during heart regeneration
Subir, Kapuria, Haipeng, Bai, Juancarlos, Fierros, Ying, Huang, Feiyang, Ma, Tyler, Yoshida, Antonio, Aguayo, Fatma, Kok, Katie M., Wiens, Joycelyn K., Yip, Megan L., McCain, Matteo, Pellegrini, Mikiko, Nagashima, Peter F., Hitchcock, Nathan D., Lawson, Michael MR, Harrison, Ching‑Ling, Lien
BioRxiv.

Urgent Brain Vascular Regeneration Occurs via Lymphatic Transdifferentiation
Jingying, Chen, Xiuhua, Li, Rui, Ni, Qi, Chen, Qifen, Yang, Jianbo, He, Lingfei, Luo
BioRxiv.

Single-molecule imaging of chromatin remodelers reveals role of ATPase in promoting fast kinetics of target search and dissociation from chromatin
Jee Min, Kim, Pat, Visanpattanasin, Vivian, Jou, Sheng, Liu, Xiaona, Tang, Qinsi, Zheng, Kai Yu, Li, Jonathan, Snedeker, Luke D., Lavis, Timothée, Lionnet, Carl, Wu
BioRxiv.

HIV-induced membraneless organelles orchestrate post-nuclear entry steps
Viviana, Scoca, Renaud, Morin, Maxence, Collard, Jean‑Yves, Tinevez, Francesca, Di Nunzio
BioRxiv.

Detection of precisely edited CRISPR/Cas9 alleles through co-introduced restriction-fragment length polymorphisms
Chon‑Hwa, Tsai‑Morris, Sydney, Hertafeld, Yvonne, Rosario, James, Iben, Eric, Chang, Ling, Yi, Steven L., Coon, Stephen G., Kaler, Ryan, Dale, Benjamin, Feldman
BioRxiv.

Ligands binding to the cellular prion protein induce its protective proteolytic release with therapeutic potential in neurodegenerative proteinopathies
Luise, Linsenmeier, Behnam, Mohammadi, Mohsin, Shafiq, Karl, Frontzek, Julia, Bär, Amulya N., Shrivastava, Markus, Damme, Alexander, Schwarz, Stefano, Da Vela, Tania, Massignan, Sebastian, Jung, Angela, Correia, Matthias, Schmitz, Berta, Puig, Simone, Hornemann, Inga, Zerr, Jörg, Tatzelt, Emiliano, Biasini, Paul, Saftig, Michaela, Schweizer, Dimitri, Svergun, Ladan, Amin, Federica, Mazzola, Luca, Varani, Simrika, Thapa, Sabine, Gilch, Hermann, Schätzl, David A., Harris, Antoine, Triller, Marina, Mikhaylova, Adriano, Aguzzi, Hermann C., Altmeppen, Markus, Glatzel
BioRxiv.

A complex CTCF binding code defines TAD boundary structure and function
Li‑Hsin, Chang, Sourav, Ghosh, Andrea, Papale, Mélanie, Miranda, Vincent, Piras, Jéril, Degrouard, Mallory, Poncelet, Nathan, Lecouvreur, Sébastien, Bloyer, Amélie, Leforestier, David, Holcman, Daan, Noordermeer
BioRxiv.

Novel anti-repression mechanism of H-NS proteins by a phage “early protein”
Fredj Ben, Bdira, Liang, Qin, Alexander N., Volkov, Andrew M., Lippa, Amanda M., Erkelens, Nicholas, Bowring, Aimee L., Boyle, Marcellus, Ubbink, Simon L., Dove, Remus T., Dame
BioRxiv.

longfin causes cis-ectopic expression of the kcnh2a ether-a-go-go K+ channel to autonomously prolong fin outgrowth
Scott, Stewart, Heather K., Le Bleu, Gabriel A., Yette, Astra L., Henner, Amy E., Robbins, Joshua A., Braunstein, Kryn, Stankunas
BioRxiv.

Global distribution patterns of marine nitrogen-fixers by imaging and molecular methods
Juan José Pierella, Karlusich, Eric, Pelletier, Fabien, Lombard, Madeline, Carsique, Etienne, Dvorak, Sébastien, Colin, Marc, Picheral, Francisco M., Cornejo‑Castillo, Silvia G., Acinas, Rainer, Pepperkok, Eric, Karsenti, Colomban, de Vargas, Patrick, Wincker, Chris, Bowler, Rachel A, Foster
BioRxiv.

Deep learning from phylogenies to uncover the epidemiological dynamics of outbreaks
J, Voznica, A, Zhukova, V, Boskova, E, Saulnier, F, Lemoine, M, Moslonka‑Lefebvre, O, Gascuel
BioRxiv.

The Digital 3D-Atlas MAKER (DAMAKER) : a dynamic and expandable digital 3D-tool for monitoring the temporal changes in tissue growth during hindbrain morphogenesis
Matthias, Blanc, Frederic, Udina, Cristina, Pujades
BioRxiv.

In vivo dissection of Rhoa function in vascular development using zebrafish
Laura M., Pillay, Joseph J., Yano, Andrew E., Davis, Matthew G., Butler, Keith A., Barnes, Vanessa L., Reyes, Daniel, Castranova, Aniket V., Gore, Matthew R., Swift, James R., Iben, Amber N., Stratman, Brant M., Weinstein
BioRxiv.

Heterotrophic bacterial diazotrophs are more abundant than their cyanobacterial counterparts in metagenomes covering most of the sunlit ocean
Tom O., Delmont, Juan José Pierella, Karlusich, Iva, Veseli, Jessika, Fuessel, A. Murat, Eren, Rachel A., Foster, Chris, Bowler, Patrick, Wincker, Eric, Pelletier
BioRxiv.

Uncharted biosynthetic potential of the ocean microbiome
Lucas, Paoli, Hans‑Joachim, Ruscheweyh, Clarissa C., Forneris, Satria, Kautsar, Quentin, Clayssen, Guillem, Salazar, Alessio, Milanese, Daniel, Gehrig, Martin, Larralde, Laura M., Carroll, Pablo, Sánchez, Ahmed A., Zayed, Dylan R., Cronin, Silvia G., Acinas, Peer, Bork, Chris, Bowler, Tom O., Delmont, Matthew B., Sullivan, Patrick, Wincker, Georg, Zeller, Serina L., Robinson, Jörn, Piel, Shinichi, Sunagawa
BioRxiv.

Optimal Transport improves cell-cell similarity inference in single-cell omics data
Geert‑Jan, Huizing, Gabriel, Peyré, Laura, Cantini
BioRxiv.

Natural genetic variation drives microbiome selection in the Caenorhabditis elegans gut
Fan, Zhang, Jessica L., Weckhorst, Adrien, Assié, Ciara, Hosea, Christopher A., Ayoub, Anastasia, Khodakova, Mario Loeza, Cabrera, Daniela, Vidal, Marie‑Anne, Félix, Buck S., Samuel
BioRxiv.

The PPR domain of mitochondrial RNA polymerase is a ribonuclease required for mtDNA replication
Yi, Liu, Zhe, Chen, Zong‑Heng, Wang, Katherine, Delaney, Juanjie, Tang, Mehdi, Pirooznia, Duck‑Yeon, Lee, Yuesheng, Li, Hong, Xu
BioRxiv.

Evidence of post-domestication hybridization and adaptive introgression in Western European grapevine varieties
S., Freitas, M.A., Gazda, M., Rebelo, A.J., Muñoz‑Pajares, C., Vila‑Viçosa, A., Muñoz‑Mérida, L.M., Gonçalves, D., Azevedo‑Silva, S., Afonso, I., Castro, P.H., Castro, M., Sottomayor, A., Beja‑Pereira, J., Tereso, N., Ferrand, E., Gonçalves, A., Martins, M., Carneiro, H., Azevedo
BioRxiv.

Life history tradeoffs, division of labor and evolutionary transitions in individuality
Guilhem, Doulcier, Katrin, Hammerschmidt, Pierrick, Bourrat
BioRxiv.

Sequence-unrelated long noncoding RNAs converged to modulate the activity of conserved epigenetic machineries across kingdoms
Camille, Fonouni‑Farde, Aurélie, Christ, Thomas, Blein, Juan Sebastián, Ramírez‑Prado, María Florencia, Legascue, David, Latrasse, Michaël, Moison, Leandro, Lucero, Lucía, Ferrero, Daniel, Gonzalez, Moussa, Benhamed, Leandro, Quadrana, Martin, Crespi, Federico, Ariel
BioRxiv.

Gene regulatory networks for compatible versus incompatible grafts identify a role for SlWOX4 during junction formation
Hannah, Thomas, Lisa, Van den Broeck, Ryan, Spurney, Rosangela, Sozzani, Margaret, Frank
BioRxiv.

A novel reticular oscillator in the brainstem synchronizes neonatal crying with breathing
Xin Paul, Wei, Matthew, Collie, Bowen, Dempsey, Gilles, Fortin, Kevin, Yackle
BioRxiv.

H3K36 methylation and DNA-binding both promote Ioc4 recruitment and Isw1b remodeller function
Jian, Li, Lena, Bergmann, Andreia Rafael, de Almeida, Kimberly M., Webb, Madelaine M., Gogol, Philipp, Voigt, Yingfang, Liu, Huanhuan, Liang, Michaela M., Smolle
BioRxiv.

Engineering of a fluorescent chemogenetic reporter with tunable color for advanced live-cell imaging
Hela, Benaissa, Karim, Ounoughi, Isabelle, Aujard, Evelyne, Fischer, Rosette, Goïame, Julie, Nguyen, Alison G., Tebo, Chenge, Li, Thomas Le, Saux, Lydia, Danglot, Nicolas, Pietrancosta, Xavier, Morin, Ludovic, Jullien, Arnaud, Gautier
BioRxiv.

The biogenesis and function of nucleosome arrays
Ashish Kumar, Singh, Tamás, Schauer, Lena, Pfaller, Tobias, Straub, Felix, Mueller‑Planitz
BioRxiv.

NMDAR-mediated transcriptional control of gene expression during the development of medial ganglionic eminence-derived interneurons
Vivek, Mahadevan, Apratim, Mitra, Yajun, Zhang, Xiaoqing, Yuan, Areg, Peltekian, Ramesh, Chittajallu, Caroline, Esnault, Dragan, Maric, Christopher, Rhodes, Kenneth A., Pelkey, Ryan, Dale, Timothy J., Petros, Chris J., McBain
BioRxiv.

Targeted knockdown of the PAF49 component of the PAF53/PAF49 heterodimer causes the degradation of PAF53
Rachel, McNamar, Katrina, Rothblum, Lawrence I., Rothblum
BioRxiv.

Organization of DNA replication origin firing in Xenopus egg extracts : the role of intra-S checkpoint
Diletta, Ciardo, Olivier, Haccard, Hemalatha, Narassimprakash, Jean‑Michel, Arbona, Olivier, Hyrien, Benjamin, Audit, Kathrin, Marheineke, Arach, Goldar
BioRxiv.

The CLASSY family controls tissue-specific DNA methylation patterns in Arabidopsis
Ming, Zhou, Ceyda, Coruh, Guanghui, Xu, Clara, Bourbousse, Alice, Lambolez, Julie A., Law
BioRxiv.

Function of the HYDROXYCINNAMOYL-CoA:SHIKIMATE HYDROXYCINNAMOYL TRANSFERASE is evolutionarily conserved in embryophytes
Lucie, Kriegshauser, Samuel, Knosp, Etienne, Grienenberger, Kanade, Tatsumi, Desirée D., Gütle, Iben, Sørensen, Laurence, Herrgott, Julie, Zumsteg, Jocelyn K.C., Rose, Ralf, Reski, Danièle, Werck‑Reichhart, Hugues, Renault
BioRxiv.

Folding and Persistence Time of Intramolecular G-Quadruplexes Transiently Embedded in a DNA duplex
Phong Lan, Thao Tran, Martin, Rieu, Samar, Hodeib, Alexandra, Joubert, Jimmy, Ouellet, Patrizia, Alberti, Anthony, Bugaut, Jean‑François, Allemand, Jean‑Baptiste, Boulé, Vincent, Croquette
BioRxiv.

Spatio-Temporal Coordination of Transcription Preinitiation Complex Assembly in Live Cells
Vu Q., Nguyen, Anand, Ranjan, Sheng, Liu, Xiaona, Tang, Yick Hin, Ling, Jan, Wisniewski, Gaku, Mizuguchi, Kai Yu, Li, Vivian, Jou, Qinsi, Zheng, Luke D., Lavis, Timothée, Lionnet, Carl, Wu
BioRxiv.

Bioinformatics Analysis of Key Genes and Pathways for Obesity Associated Type 2 Diabetes Mellitus as a Therapeutic Target
Basavaraj, Vastrad, Anandkumar, Tengli, Chanabasayya, Vastrad, Iranna, Kotturshetti
BioRxiv.

Global drivers of eukaryotic plankton biogeography in the sunlit ocean
Sommeria‑Klein, Guilhem, Watteaux, Romain, Iudicone, Daniele, Bowler, Chris, Morlon, Hélène
BioRxiv.

Genomic evidence for global ocean plankton biogeography shaped by large-scale current systems
Daniel J., Richter, Romain, Watteaux, Thomas, Vannier, Jade, Leconte, Paul, Frémont, Gabriel, Reygondeau, Nicolas, Maillet, Nicolas, Henry, Gaëtan, Benoit, Ophélie Da, Silva, Tom O., Delmont, Antonio, Fernàndez‑Guerra, Samir, Suweis, Romain, Narci, Cédric, Berney, Damien, Eveillard, Frederick, Gavory, Lionel, Guidi, Karine, Labadie, Eric, Mahieu, Julie, Poulain, Sarah, Romac, Simon, Roux, Céline, Dimier, Stefanie, Kandels, Marc, Picheral, Sarah, Searson, Stéphane, Pesant, Jean‑Marc, Aury, Jennifer R., Brum, Claire, Lemaitre, Eric, Pelletier, Peer, Bork, Shinichi, Sunagawa, Fabien, Lombard, Lee, Karp‑Boss, Chris, Bowler, Matthew B., Sullivan, Eric, Karsenti, Mahendra, Mariadassou, Ian, Probert, Pierre, Peterlongo, Patrick, Wincker, Colomban, de Vargas, Maurizio Ribera, d’Alcalà, Daniele, Iudicone, Olivier, Jaillon
BioRxiv.

The RSC complex remodels nucleosomes in transcribed coding sequences and promotes transcription in Saccharomyces cerevisiae
Emily, Biernat, Jeena, Kinney, Kyle, Dunlap, Christian, Rizza, Chhabi K., Govind
BioRxiv.

Phospho-IWS1-dependent U2AF2 splicing is cell-cycle-regulated, promotes proliferation and predicts poor prognosis of EGFR- mutant lung adenocarcinoma
Georgios I., Laliotis, Evangelia, Chavdoula, Maria D., Paraskevopoulou, Abdul D., Kaba, Alessandro, La Ferlita, Satishkumar, Singh, Vollter, Anastas, Salvatore, Alaimo, Arturo, Orlacchio, Keith A., Nair, Vasiliki, Taraslia, Ioannis, Vlachos, Marina, Capece, Artemis, Hatzigeorgiou, Dario, Palmieri, Christos, Tsatsanis, Lalit, Sehgal, David P., Carbone, Vincenzo, Coppola, Philip N., Tsichlis
BioRxiv.

SUSD4 controls GLUA2 degradation, synaptic plasticity and motor learning
I., González‑Calvo, K., Iyer, M., Carquin, A., Khayachi, F.A., Giuliani, J., Vincent, M., Séveno, S.M., Sigoillot, M., Veleanu, S., Tahraoui, M., Albert, O., Vigy, C., Bosso‑Lefèvre, Y., Nadjar, A., Dumoulin, A., Triller, J.‑L., Bessereau, L., Rondi‑Reig, P., Isope, F., Selimi
BioRxiv.

Nucleolar TFIIE plays a role in ribosomal biogenesis and performance
Tamara, Phan, Pallab, Maity, Christina, Ludwig, Lisa, Streit, Jens, Michaelis, Karin, Scharffetter‑Kochanek, Sebastian, Iben
BioRxiv.

Reciprocal stabilisation of glycine receptors and gephyrin scaffold proteins at inhibitory synapses
Thomas, Chapdelaine, Vincent, Hakim, Antoine, Triller, Jonas, Ranft, Christian G, Specht
BioRxiv.

Population genomics of the emerging forest pathogen Neonectria neomacrospora
Knud Nor, Nielsen, Shyam, Gopalakrishnan, Thorfinn Sand, Korneliussen, Mikkel, Skovrind, Kimmo, Sirén, Bent, Petersen, Thomas, Sicheritz‑Pontén, Iben M., Thomsen, M. Thomas P., Gilbert, Ole Kim, Hansen
BioRxiv.

Genome wide natural variation of H3K27me3 selectively marks genes predicted to be important for cell differentiation in Phaeodactylum tricornutum
Xue, Zhao, Achal, Rastogi, Anne Flore Deton, Cabanillas, Ouardia Ait, Mohamed, Catherine, Cantrel, Berangère, Lombard, Omer, Murik, Auguste, Genovesio, Chris, Bowler, Daniel, Bouyer, Damarys, Loew, Xin, Lin, Alaguraj, Veluchamy, Fabio Rocha Jimenez, Vieira, Leila, Tirichine
BioRxiv.

Chromatin stability generated by stochastic binding and unbinding of cross-linkers at looping sites revealed by Markov models
Andrea, Papale, David, Holcman
BioRxiv.

Histone H1 protects telomeric repeats from H3K27me3 invasion in Arabidopsis
Gianluca, Teano, Lorenzo, Concia, Léa, Wolff, Léopold, Carron, Ivona, Biocanin, Kateřina, Adamusová, Miloslava, Fojtová, Michael, Bourge, Amira, Kramdi, Vincent, Colot, Ueli, Grossniklaus, Chris, Bowler, Célia, Baroux, Alessandra, Carbone, Aline V., Probst, Petra, Procházková Schrumpfová, Jiří, Fajkus, Simon, Amiard, Stefan, Grob, Clara, Bourbousse, Fredy, Barneche
BioRxiv.

Single-cell transcriptomics of the early developing mouse cerebral cortex disentangles the spatial and temporal components of neuronal fate acquisition
Matthieu X., Moreau, Yoann, Saillour, Andrzej W., Cwetsch, Alessandra, Pierani, Frédéric, Causeret
BioRxiv.

Integration in or Near Oncogenes Plays Only a Minor Role in Determining the in Vivo Distribution of HIV Integration Sites Before or During Suppressive Antiretroviral Therapy
John M., Coffin, Michael J., Bale, Daria, Wells, Shuang, Guo, Brian, Luke, Jennifer M., Zerbato, Michele D., Sobolewskii, Twan, Sia, Wei, Shao, Xiaolin, Wu, Frank, Maldarelli, Mary F., Kearney, John W., Mellors, Stephen H., Hughes
BioRxiv.

Differential homeostatic regulation of glycinergic and GABAergic nanocolumns at mixed inhibitory synapses
Xiaojuan, Yang, Hervé, Le Corronc, Pascal, Legendre, Antoine, Triller, Christian G, Specht
BioRxiv.

Evaluating the reproducibility of single-cell gene regulatory network inference algorithms
Yoonjee, Kang, Denis, Thieffry, Laura, Cantini
BioRxiv.

Environmental vulnerability of the global ocean plankton community interactome
S., Chaffron, E., Delage, M., Budinich, D., Vintache, N., Henry, C., Nef, M., Ardyna, A.A., Zayed, P.C., Junger, P.E., Galand, C., Lovejoy, A., Murray, H., Sarmento, S., Acinas, M., Babin, D., Iudicone, O., Jaillon, E., Karsenti, P., Wincker, L., Karp‑Boss, M.B., Sullivan, C., Bowler, C., de Vargas, D., Eveillard
BioRxiv.

Glymphatic function in the gyrencephalic brain
Nicholas Burdon, Bèchet, Nagesh C., Shanbhag, Iben, Lundgaard
BioRxiv.

Mitotic interhomolog recombination drives genomic diversity in diatoms
Petra, Bulánková, Mirna, Sekulić, Denis, Jallet, Charlotte, Nef, Tom, Delmont, Cock, van Oosterhout, Ilse, Vercauteren, Cristina Maria, Osuna‑Cruz, Emmelien, Vancaester, Thomas, Mock, Koen, Sabbe, Fayza, Daboussi, Chris, Bowler, Wim, Vyverman, Klaas, Vandepoele, Lieven, De Veylder
BioRxiv.

Olfactory rod cells : a rare cell type in the larval zebrafish olfactory epithelium with an actin-rich apical projection
King Yee, Cheung, Suresh J., Jesuthasan, Sarah, Baxendale, Nicholas J., van Hateren, Mar, Marzo, Christopher J., Hill, Tanya T., Whitfield
BioRxiv.

Fast and accurate estimation of species-specific diversification rates using data augmentation
Odile, Maliet, Hélène, Morlon
BioRxiv.

Exon Junction Complex dependent mRNA localization is linked to centrosome organization during ciliogenesis
Oh Sung, Kwon, Rahul, Mishra, Adham, Safieddine, Emeline, Coleno, Quentin, Alasseur, Marion, Faucourt, Isabelle, Barbosa, Edouard, Bertrand, Nathalie, Spassky, Hervé Le, Hir
BioRxiv.

Large, stable spikes exhibit differential broadening in excitatory and inhibitory neocortical boutons
Andreas, Ritzau‑Jost, Timur, Tsintsadze, Martin, Krueger, Jonas, Ader, Ingo, Bechmann, Jens, Eilers, Boris, Barbour, Stephen M., Smith, Stefan, Hallermann
BioRxiv.

AIBP-CAV1-VEGFR3 axis dictates lymphatic cell fate and controls lymphangiogenesis
Xiaojie, Yang, Jun‑dae, Kim, Qilin, Gu, Qing, Yan, Jonathan, Astin, Philip S, Crosier, Pengchun, Yu, Stanley G, Rockson, Longhou, Fang
BioRxiv.

Morphologically constrained modeling of spinous inhibition in the somato-sensory cortex
Olivier, Gemin, Pablo, Serna, Nora, Assendorp, Matteo, Fossati, Philippe, Rostaing, Antoine, Triller, Cécile, Charrier
BioRxiv.

The yeast ISW1b ATP-dependent chromatin remodeler is critical for nucleosome spacing and dinucleosome resolution
Peter R., Eriksson, David J., Clark
BioRxiv.

Glucose-lactose mixture feeds in industry-like conditions : a gene regulatory network analysis on the hyperproducing Trichoderma reesei strain Rut-C30
Aurélie, Pirayre, Laurent, Duval, Corinne, Blugeon, Cyril, Firmo, Sandrine, Perrin, Etienne, Jourdier, Antoine, Margeot, Frédérique, Bidard
BioRxiv.

The Arabidopsis active demethylase ROS1 cis-regulates immune-responsive genes by pruning DNA methylation at promoter-regulatory regions
Thierry, Halter, Jingyu, Wang, Delase, Amesefe, Emmanuelle, Lastrucci, Magali, Charvin, Meenu Singla, Rastogi, Lionel, Navarro
BioRxiv.

DET1-mediated COP1 regulation avoids HY5 activity over second-site targets to tune plant photomorphogenesis
Esther, Cañibano, Clara, Bourbousse, Marta, Garcia‑Leon, Lea, Wolff, Camila, Garcia‑Baudino, Fredy, Barneche, Vicente, Rubio, Sandra, Fonseca
BioRxiv.

Structural Analysis of Simultaneous Activation and Inhibition of γ-Secretase Activity in Development of Drugs for Alzheimer’s disease
Željko M., Svedružić, Katarina, Vrbnjak, Manuel, Martinović, Vedran, Miletić
BioRxiv.

Early Emergence and Long-Term Persistence of HIV-Infected T Cell Clones in Children
Michael J., Bale, Mary Grace, Katusiime, Daria, Wells, Xiaolin, Wu, Jonathan, Spindler, Elias K., Halvas, Joshua C., Cyktor, Ann, Wiegand, Wei, Shao, Mark F., Cotton, Stephen H., Hughes, John W., Mellors, John M., Coffin, Gert U., Van Zyl, Mary F., Kearney
BioRxiv.

New insights into homoeologous copy number variations in the hexaploid wheat genome
Caroline, Juery, Lorenzo, Concia, Romain, De Oliveira, Nathan, Papon, Ricardo, Ramírez‑González, Moussa, Benhamed, Cristobal, Uauy, Frédéric, Choulet, Etienne, Paux
BioRxiv.

A conserved choreography of mRNAs at centrosomes reveals a localization mechanism involving active polysome transport
Adham, Safieddine, Emeline, Coleno, Abdel‑Meneem, Traboulsi, Oh Sung, Kwon, Frederic, Lionneton, Virginie, Georget, Marie‑Cécile, Robert, Thierry, Gostan, Charles, Lecellier, Soha, Salloum, Racha, Chouaib, Xavier, Pichon, Hervé, Le Hir, Kazem, Zibara, Marion, Peter, Edouard, Bertrand
BioRxiv.

A stress-induced Tyrosine tRNA depletion response mediates codon-based translational repression and growth suppression
Doowon, Huh, Maria C., Passarelli, Jenny, Gao, Shahnoza N, Dusmatova, Clara, Goin, Lisa, Fish, Alexandra M., Pinzaru, Henrik, Molina, Elizabeth A., McMillan, Hosseinali, Asgharian, Hani, Goodarzi, Sohail F., Tavazoie
BioRxiv.

Alteration of the premature tRNA landscape by gammaherpesvirus infection
Jessica, Tucker, Aaron M., Schaller, Ian, Willis, Britt A., Glaunsinger
BioRxiv.

metabaR : an R package for the evaluation and improvement of DNA metabarcoding data quality
Lucie, Zinger, Clément, Lionnet, Anne‑Sophie, Benoiston, Julian, Donald, Céline, Mercier, Frédéric, Boyer
BioRxiv.

Reduced Gene Dosage of Histone H4 Prevents CENP-A Mislocalization in Saccharomyces cerevisiae
Jessica R., Eisenstatt, Kentaro, Ohkuni, Wei‑Chun, Au, Olivia, Preston, Evelyn, Suva, Michael, Costanzo, Charles, Boone, Munira A., Basrai
BioRxiv.

Dual contributions of cerebellar-thalamic networks to learning and offline consolidation of a complex motor task
Andres P, Varani, Romain W, Sala, Caroline, Mailhes‑Hamon, Jimena L, Frontera, Clément, Léna, Daniela, Popa
BioRxiv.

Emergence of Non-Canonical Parvalbumin-Containing Interneurons in Hippocampus of a Murine Model of Type I Lissencephaly
Tyler G., Ekins, Vivek, Mahadevan, Yajun, Zhang, James A., D’Amour, Timothy, Petros, Chris J., McBain
BioRxiv.

Deciphering and modelling the TGF-β signalling interplays specifying the dorsal-ventral axis of the sea urchin embryo
Swann, Floc’hlay, Maria Dolores, Molina, Céline, Hernandez, Emmanuel, Haillot, Morgane, Thomas‑Chollier, Thierry, Lepage, Denis, Thieffry
BioRxiv.

Computational verification of large logical models – application to the prediction of T cell response to checkpoint inhibitors
Céline, Hernandez, Morgane, Thomas‑Chollier, Aurélien, Naldi, Denis, Thieffry
BioRxiv.

Human ORC/MCM density is low in active genes and correlates with replication time but does not solely define replication initiation zones
Nina, Kirstein, Alexander, Buschle, Xia, Wu, Stefan, Krebs, Helmut, Blum, Wolfgang, Hammerschmidt, Laurent, Lacroix, Olivier, Hyrien, Benjamin, Audit, Aloys, Schepers
BioRxiv.

Identification and characterization of phlorizin transporter from Arabidopsis thaliana and its application for phlorizin production in Saccharomyces cerevisiae
Zeinu Mussa, Belew, Christoph, Crocoll, Iben, Møller‑Hansen, Michael, Naesby, Irina, Borodina, Hussam Hassan, Nour‑Eldin
BioRxiv.

Independent respiratory and locomotor rhythms in running mice
Coralie, Hérent, Séverine, Diem, Gilles, Fortin, Julien, Bouvier
BioRxiv.

Hyperprolactinemia in a male pituitary androgen receptor knockout mouse model is associated with a female-like pattern of lactotroph development
Laura, O’Hara, Helen C., Christian, Paul, Le Tissier, Lee B., Smith
BioRxiv.

Functional Predictors of Causative Cis-Regulatory Mutations in Mendelian Disease
Hemant, Bengani, Detelina, Grozeva, Lambert, Moyon, Shipra, Bhatia, Susana R, Louros, Jilly, Hope, Adam, Jackson, James G, Prendergast, Liusaidh J., Owen, Magali, Naville, Jacqueline, Rainger, Graeme, Grimes, Mihail, Halachev, Laura C, Murphy, Olivera, Spasic‑Boskovic, Veronica, van Heyningen, Peter, Kind, Catherine M, Abbott, Emily, Osterweil, F Lucy, Raymond, Hugues Roest, Crollius, David R, FitzPatrick
BioRxiv.

Developing methods for measuring national distributions and densities of wild mammals using camera traps : A Kosovo study
Sarah E., Beatham, Alastair I., Ward, David, Fouracre, Jeton, Muhaxhiri, Michael, Sallmann, Besim, Zogu, Valdet, Gjinovci, Anthony J., Wilsmore, Graham C., Smith
BioRxiv.

tRNA-modifying enzyme mutations induce codon-specific mistranslation and protein aggregation in yeast
Joana F, Tavares, Nick K., Davis, Ana, Poim, Andreia, Reis, Stefanie, Kellner, Inês, Sousa, Ana R., Soares, Gabriela M R, Moura, Peter C, Dedon, Manuel A S, Santos
BioRxiv.

Pregnancy data enable identification of relevant biomarkers and a partial prognosis of autism at birth
Hugues, Caly, Hamed, Rabiei, Perrine, Coste‑Mazeau, Sebastien, Hantz, Sophie, Alain, Jean‑Luc, Eyraud, Thierry, Chianea, Catherine, Caly, David, Makowski, Nouchine, Hadjikhani, Eric, Lemonnier, Yehezkel, Ben‑Ari
BioRxiv.

Post-replicative pairing of sister ter regions in Escherichia coli involves multiple activities of MatP
Estelle, Crozat, Catherine, Tardin, Maya, Salhi, Philippe, Rousseau, Armand, Lablaine, Tommaso, Bertoni, David, Holcman, Bianca, Sclavi, Pietro, Cicuta, François, Cornet
BioRxiv.

NCBP3 is a productive mRNP component
Yuhui, Dou, Isabelle, Barbosa, Hua, Jiang, Claudia, Iasillo, Kelly R., Molloy, Wiebke Manuela, Schulze, Stephen, Cusack, Manfred, Schmid, Hervé, Le Hir, John, LaCava, Torben Heick, Jensen
BioRxiv.

Prior hypotheses or regularization allow inference of diversification histories from extant timetrees
Hélène, Morlon, Florian, Hartig, Stéphane, Robin
BioRxiv.

Functional characterization of Polr3a hypomyelinating leukodystrophy mutations in the S. cerevisiae homolog, RPC160
Robyn D., Moir, Christian, Lavados, JaeHoon, Lee, Ian M., Willis
BioRxiv.

Cryo-EM structures of human RNA polymerase III in its unbound and transcribing states
Mathias, Girbig, Agata D., Misiaszek, Matthias K., Vorländer, Aleix, Lafita, Helga, Grötsch, Florence, Baudin, Alex, Bateman, Christoph W., Müller
BioRxiv.

A single nucleotide change underlies the genetic assimilation of a plastic trait
Paul, Vigne, Clotilde, Gimond, Céline, Ferrari, Anne, Vielle, Johan, Hallin, Ania, Pino‑Querido, Sonia El, Mouridi, Christian, Frøkjær‑Jensen, Thomas, Boulin, Henrique, Teotónio, Christian, Braendle
BioRxiv.

Ecogenomics of key prokaryotes in the arctic ocean
Marta, Royo‑Llonch, Pablo, Sánchez, Clara, Ruiz‑González, Guillem, Salazar, Carlos, Pedrós‑Alió, Karine, Labadie, Lucas, Paoli, Samuel, Chaffron, Damien, Eveillard, Eric, Karsenti, Shinichi, Sunagawa, Patrick, Wincker, Lee, Karp‑Boss, Chris, Bowler, Silvia G, Acinas
BioRxiv.

Synchronization, stochasticity and phase waves in neuronal networks with spatially-structured connectivity
Anirudh, Kulkarni, Jonas, Ranft, Vincent, Hakim
BioRxiv.

The impact of transposable elements on tomato diversity
Marisol, Domínguez, Elise, Dugas, Médine, Benchouaia, Basile, Leduque, José, Jimenez‑Gomez, Vincent, Colot, Leandro, Quadrana
BioRxiv.

Altering Polycomb Repressive Complex 2 activity partially suppresses ddm1 mutant phenotypes in Arabidopsis
Martin, Rougée, Leandro, Quadrana, Jérôme, Zervudacki, Vincent, Colot, Lionel, Navarro, Angélique, Deleris
BioRxiv.

The Genomic Loci of Specific Human tRNA Genes Exhibit Ageing-Related DNA Hypermethylation
Richard J., Acton, Wei, Yuan, Fei, Gao, Yudong, Xia, Emma, Bourne, Eva, Wozniak, Jordana, Bell, Karen, Lillycrop, Jun, Wang, Elaine, Dennison, Nicholas, Harvey, Charles A., Mein, Tim D., Spector, Pirro G., Hysi, Cyrus, Cooper, Christopher G., Bell
BioRxiv.

UPMaBoSS : a novel framework for dynamic cell population modeling
Gautier, Stoll, Aurélien, Naldi, Vincent, Noël, Eric, Viara, Emmanuel, Barillot, Guido, Kroemer, Denis, Thieffry, Laurence, Calzone
BioRxiv.

A minimally disruptive method for measuring water potential in-planta using hydrogel nanoreporters
Piyush, Jain, Weizhen, Liu, Siyu, Zhu, Jeff, Melkonian, Duke, Pauli, Susan Jean, Riha, Michael A., Gore, Abraham D., Stroock
BioRxiv.

Callose deposition is essential for the completion of cytokinesis in the unicellular alga, Penium margaritaceum
Destiny J., Davis, Minmin, Wang, Iben, Sørensen, Jocelyn K.C., Rose, David S., Domozych, Georgia, Drakakaki
BioRxiv.

Hypomodified tRNA in evolutionarily distant yeasts can trigger rapid tRNA decay to activate the general amino acid control response, but with different consequences
Thareendra, De Zoysa, Eric M., Phizicky
BioRxiv.

Fluorescent secreted bacterial effectors reveal active intravacuolar proliferation of Listeria monocytogenes in epithelial cells
Caroline, Peron‑Cane, José‑Carlos, Fernandez, Julien, Leblanc, Laure, Wingertsmann, Arnaud, Gautier, Nicolas, Desprat, Alice, Lebreton
BioRxiv.

One enzyme many faces : alkaline phosphatase-based phosphorus-nutrient strategies and the regulatory cascade revealed by CRISPR/Cas9 gene knockout
Kaidian, Zhang, Zhi, Zhou, Jierui, Wang, Jiashun, Li, Xin, Lin, Ling, Li, Xiaomei, Wu, Yanchun, You, Senjie, Lin
BioRxiv.

Altered Capicua expression drives regional Purkinje neuron vulnerability through ion channel gene dysregulation in Spinocerebellar ataxia type 1
Ravi, Chopra, David D, Bushart, John P, Cooper, Dhananjay, Yellajoshyula, Logan M, Morrison, Haoran, Huang, Daniel R, Scoles, Stefan M, Pulst, Harry T, Orr, Vikram G, Shakkottai
BioRxiv.

Cis acting variation is common, can propagates across multiple regulatory layers, but is often buffered in developmental programs
Swann, Floc’hlay, Emily, Wong, Bingqing, Zhao, Rebecca R., Viales, Morgane, Thomas‑Chollier, Denis, Thieffry, David A., Garfield, Eileen EM, Furlong
BioRxiv.

A localization screen reveals translation factories and widespread co-translational RNA targeting
Racha, Chouaib, Adham, Safieddine, Xavier, Pichon, Arthur, Imbert, Oh Sung, Kwon, Aubin, Samacoits, Abdel‑Meneem, Traboulsi, Marie‑Cécile, Robert, Nikolay, Tsanov, Emeline, Coleno, Ina, Poser, Christophe, Zimmer, Anthony, Hyman, Hervé Le, Hir, Kazem, Zibara, Marion, Peter, Florian, Mueller, Thomas, Walter, Edouard, Bertrand
BioRxiv.

OTTER, a new method quantifying absolute amounts of tRNAs
Akihisa, Nagai, Kohei, Mori, Yuma, Shiomi, Tohru, Yoshihisa
BioRxiv.

Evolutionary Changes in Left-Right Visceral Asymmetry in Astyanax Cavefish
Li, Ma, Mandy, Ng, Janet, Shi, Aniket V., Gore, Daniel, Castranova, Brant M., Weinstein, William R., Jeffery
BioRxiv.

Live Imaging of Intracranial Lymphatics in the Zebrafish
Daniel, Castranova, Bakary, Samasa, Marina Venero, Galanternik, Hyun Min, Jung, Van N., Pham, Brant M., Weinstein
BioRxiv.

Visualizing the dynamics of exported bacterial proteins with the chemogenetic fluorescent reporter FAST
Yankel, Chekli, Caroline, Peron‑Cane, Dario, Dell’Arciprete, Jean‑François, Allemand, Chenge, Li, Jean‑Marc, Ghigo, Arnaud, Gautier, Alice, Lebreton, Nicolas, Desprat, Christophe, Beloin
BioRxiv.

In-depth characterization of layer 5 output neurons of the primary somatosensory cortex innervating the mouse dorsal spinal cord
N., Frezel, E., Platonova, F.F., Voigt, J.M., Mateos, R., Kastli, U., Ziegler, T., Karayannis, F., Helmchen, H., Wildner, H.U., Zeilhofer
BioRxiv.

Allochronic Divergence Driven by Spatial Asynchrony in Precipitation in Neotropical Frogs ?
Carlos E., Guarnizo, Paola, Montoya, Ignacio, Quintero, Carlos Daniel, Cadena
BioRxiv.

Kingdom-wide analysis of the evolution of the plant type III polyketide synthase superfamily
Thomas, Naake, Hiroshi A., Maeda, Sebastian, Proost, Takayuki, Tohge, Alisdair R., Fernie
BioRxiv.

Eco-evolutionary dynamics of nested Darwinian populations and the emergence of community-level heredity
Guilhem, Doulcier, Amaury, Lambert, Silvia, De Monte, Paul B., Rainey
BioRxiv.

FORK-seq : replication landscape of the Saccharomyces cerevisiae genome by nanopore sequencing
Magali, Hennion, Jean‑Michel, Arbona, Laurent, Lacroix, Corinne, Cruaud, Bertrand, Theulot, Benoît Le, Tallec, Florence, Proux, Xia, Wu, Elizaveta, Novikova, Stefan, Engelen, Arnaud, Lemainque, Benjamin, Audit, Olivier, Hyrien
BioRxiv.

Testing the ‘caves as islands’ model in two cave-obligate invertebrates with a genomic approach
Andras, Balogh, Lam, Ngo, Kirk S., Zigler, Groves, Dixon
BioRxiv.

Genetic tool development in marine protists : Emerging model organisms for experimental cell biology
Drahomíra, Faktorová, R. Ellen R., Nisbet, José A. Fernández, Robledo, Elena, Casacuberta, Lisa, Sudek, Andrew E., Allen, Manuel, Ares, Cristina, Aresté, Cecilia, Balestreri, Adrian C., Barbrook, Patrick, Beardslee, Sara, Bender, David S., Booth, François‑Yves, Bouget, Chris, Bowler, Susana A., Breglia, Colin, Brownlee, Gertraud, Burger, Heriberto, Cerutti, Rachele, Cesaroni, Miguel A., Chiurillo, Thomas, Clemente, Duncan B., Coles, Jackie L., Collier, Elizabeth C., Cooney, Kathryn, Coyne, Roberto, Docampo, Christopher L., Dupont, Virginia, Edgcomb, Elin, Einarsson, Pía A., Elustondo, Fernan, Federici, Veronica, Freire‑Beneitez, Nastasia J., Freyria, Kodai, Fukuda, Paulo A., García, Peter R., Girguis, Fatma, Gomaa, Sebastian G., Gornik, Jian, Guo, Vladimír, Hampl, Yutaka, Hanawa, Esteban R., Haro‑Contreras, Elisabeth, Hehenberger, Andrea, Highfield, Yoshihisa, Hirakawa, Amanda, Hopes, Christopher J., Howe, Ian, Hu, Jorge, Ibañez, Nicholas A.T., Irwin, Yuu, Ishii, Natalia Ewa, Janowicz, Adam C., Jones, Ambar, Kachale, Konomi, Fujimura‑Kamada, Binnypreet, Kaur, Jonathan Z., Kaye, Eleanna, Kazana, Patrick J., Keeling, Nicole, King, Lawrence A., Klobutcher, Noelia, Lander, Imen, Lassadi, Zhuhong, Li, Senjie, Lin, Jean‑Claude, Lozano, Fulei, Luan, Shinichiro, Maruyama, Tamara, Matute, Cristina, Miceli, Jun, Minagawa, Mark, Moosburner, Sebastián R., Najle, Deepak, Nanjappa, Isabel C., Nimmo, Luke, Noble, Anna M.G. Novák, Vanclová, Mariusz, Nowacki, Isaac, Nuñez, Arnab, Pain, Angela, Piersanti, Sandra, Pucciarelli, Jan, Pyrih, Joshua S., Rest, Mariana, Rius, Deborah, Robertson, Albane, Ruaud, Iñaki, Ruiz‑Trillo, Monika A., Sigg, Pamela A., Silver, Claudio H., Slamovits, G. Jason, Smith, Brittany N., Sprecher, Rowena, Stern, Estienne C., Swart, Anastasios D., Tsaousis, Lev, Tsypin, Aaron, Turkewitz, Jernej, Turnšek, Matus, Valach, Valérie, Vergé, Peter, von Dassow, Tobias, von der Haar, Ross F., Waller, Lu, Wang, Xiaoxue, Wen, Glen, Wheeler, April, Woods, Huan, Zhang, Thomas, Mock, Alexandra Z., Worden, Julius, Lukeš
BioRxiv.

A far-red fluorescent chemogenetic reporter for in vivo molecular imaging
Chenge, Li, Alison G., Tebo, Marion, Thauvin, Marie‑Aude, Plamont, Michel, Volovitch, Xavier, Morin, Sophie, Vriz, Arnaud, Gautier
BioRxiv.

Detecting genetic variation and base modifications together in the same single molecules of DNA and RNA at base pair resolution using a magnetic tweezer platform
Zhen, Wang, Jérôme, Maluenda, Laurène, Giraut, Thibault, Vieille, Andréas, Lefevre, David, Salthouse, Gaël, Radou, Rémi, Moulinas, Sandra, Astete‑Morales, Pol, d’Avezac, Geoff, Smith, Charles, André, Jean‑François, Allemand, David, Bensimon, Vincent, Croquette, Jimmy, Ouellet, Gordon, Hamilton
BioRxiv.

Caenorhabditis elegans dauers vary recovery in response to bacteria from natural habitat
Louis T., Bubrig, John M., Sutton, Janna L., Fierst
BioRxiv.

Potential role of the X circular code in the regulation of gene expression
Julie D., Thompson, Raymond, Ripp, Claudine, Mayer, Olivier, Poch, Christian J., Michel
BioRxiv.

Ruler elements in chromatin remodelers set nucleosome array spacing and phasing
Elisa, Oberbeckmann, Vanessa, Niebauer, Shinya, Watanabe, Lucas, Farnung, Manuela, Moldt, Andrea, Schmid, Patrick, Cramer, Craig L., Peterson, Sebastian, Eustermann, Karl‑Peter, Hopfner, Philipp, Korber
BioRxiv.

Rerouting of ribosomal proteins into splicing in plant organelles
Chuande, Wang, Rachel, Fourdin, Martine, Quadrado, Céline, Dargel‑Graffin, Dimitri, Tolleter, David, Macherel, Hakim, Mireau
BioRxiv.

Repeated colonization of caves leads to phenotypic convergence in catfishes (Siluriformes : Trichomycterus) at a small geographical scale
Juan Sebastián, Flórez, Carlos Daniel, Cadena, Carlos, DoNascimiento, Mauricio, Torres
BioRxiv.

Conserved small nucleotidic elements at the origin of concerted piRNA biogenesis from genes and lncRNAs
Silke, Jensen, Emilie, Brasset, Elise, Parey, Hugues, Roest‑Crollius, Igor V., Sharakhov, Chantal, Vaury
BioRxiv.

Testing the adaptive value of sporulation in budding yeast using experimental evolution
Kelly M., Thomasson, Alexander, Franks, Henrique, Teotónio, Stephen R., Proulx
BioRxiv.

Bidirectional control of fear memories by the cerebellum through the ventrolateral periaqueductal grey
Jimena L., Frontera, Hind Baba, Aissa, Romain William, Sala, Caroline, Mailhes‑Hamon, Ioana Antoaneta, Georgescu, Clément, Léna, Daniela, Popa
BioRxiv.

Functional abnormalities in the cerebello-thalamic pathways in an animal model of dystonia
Elena Laura, Margarint, Hind Baba, Aïssa, Andrés Pablo, Varani, Romain, Sala, Fabien, Menardy, Assunta, Pelosi, Denis, Hervé, Clément, Léna, Daniela, Popa
BioRxiv.

Synteny-guided resolution of gene trees clarifies the functional impact of whole genome duplications
Elise, Parey, Alexandra, Louis, Cédric, Cabau, Yann, Guiguen, Hugues Roest, Crollius, Camille, Berthelot
BioRxiv.

Low ribosomal RNA genes copy number provoke genomic instability and chromosomal segment duplication events that modify global gene expression and plant-pathogen response
Ariadna, Picart‑Picolo, Stefan, Grob, Nathalie, Picault, Michal, Franek, Thierry, halter, Tom R., Maier, Christel, Llauro, Edouard, Jobet, Panpan, Zhang, Paramasivan, Vijayapalani, Thomas J., Baum, Lionel, Navarro, Martina, Dvorackova, Marie, Mirouze, Frederic, Pontvianne
BioRxiv.

Local translation in perisynaptic astrocytic processes is specific and regulated by fear conditioning
Noémie, Mazaré, Marc, Oudart, Julien, Moulard, Giselle, Cheung, Romain, Tortuyaux, Philippe, Mailly, David, Mazaud, Alexis‑Pierre, Bemelmans, Anne‑Cécile, Boulay, Corinne, Blugeon, Laurent, Jourdren, Stéphane, Le Crom, Nathalie, Rouach, Martine, Cohen‑Salmon
BioRxiv.

Non-essential function of KRAB zinc finger gene clusters in retrotransposon suppression
Gernot, Wolf, Alberto, de Iaco, Ming‑An, Sun, Melania, Bruno, Matthew, Tinkham, Don, Hoang, Apratim, Mitra, Sherry, Ralls, Didier, Trono, Todd S., Macfarlan
BioRxiv.

Akt/Foxo pathway activation switches apoptosis to senescence in short telomere zebrafish
Mounir, El‑Maï, Marta, Marzullo, Inês Pimenta, de Castro, Miguel Godinho, Ferreira
BioRxiv.

Engineering E. coli for magnetic control and the spatial localization of functions
Mary, Aubry, Wei‑An, Wang, Yohan, Guyodo, Eugénia, Delacou, Jean Michel, Guignier, Olivier, Espeli, Alice, Lebreton, François, Guyot, Zoher, Gueroui
BioRxiv.

Lifetime of a structure evolving by cluster aggregation and particle loss, and application to postsynaptic scaffold domains
Vincent, Hakim, Jonas, Ranft
BioRxiv.

The Ty1 integrase nuclear localization signal is necessary and sufficient for retrotransposon targeting to tRNA genes
Amna, Asif‑Laidin, Christine, Conesa, Amandine, Bonnet, Camille, Grison, Indranil, Adhya, Rachid, Menouni, Hélène, Fayol, Noé, Palmic, Joël, Acker, Pascale, Lesage
BioRxiv.

Glial cell mechanosensitivity is reversed by adhesion cues
C., Tomba, C., Migdal, D., Fuard, C., Villard, A., Nicolas
BioRxiv.

Plant Small RNA Species Direct Gene Silencing in Pathogenic Bacteria as well as Disease Protection
Meenu, Singla‑Rastogi, Magali, Charvin, Odon, Thiébeauld, Alvaro L, Perez‑Quintero, Antinéa, Ravet, Antonio, Emidio‑Fortunato, Venugopal, Mendu, Lionel, Navarro
BioRxiv.

Model-based inference of punctuated molecular evolution
Marc, Manceau, Julie, Marin, Hélène, Morlon, Amaury, Lambert
BioRxiv.

Feasibility analysis of semiconductor voltage nanosensors for neuronal membrane potential sensing
Anastasia, Ludwig, Pablo, Serna, Lion, Morgenstein, Gaoling, Yang, Omri, Bar‑Elli, Gloria, Ortiz, Evan, Miller, Dan, Oron, Asaf, Grupi, Shimon, Weiss, Antoine, Triller
BioRxiv.

Aire-dependent genes undergo Clp1-mediated 3’UTR shortening associated with higher transcript stability in the thymus
Clotilde, Guyon, Nada, Jmari, Francine, Padonou, Yen‑Chin, Li, Olga, Ucar, Noriyuki, Fujikado, Fanny, Coulpier, Christophe, Blanchet, David E., Root, Matthieu, Giraud
BioRxiv.

The Genome of the Charophyte Alga Penium margaritaceum Bears Footprints of the Evolutionary Origins of Land Plants
Chen, Jiao, Iben, Sørensen, Xuepeng, Sun, Honghe, Sun, Hila, Behar, Saleh, Alseekh, Glenn, Philippe, Kattia Palacio, Lopez, Li, Sun, Reagan, Reed, Susan, Jeon, Reiko, Kiyonami, Sheng, Zhang, Alisdair R., Fernie, Harry, Brumer, David S., Domozych, Zhangjun, Fei, Jocelyn K. C., Rose
BioRxiv.

Cavefish brain atlases reveal functional and anatomical convergence across independently evolved populations
James, Jaggard, Evan, Lloyd, Anders, Yuiska, Adam, Patch, Yaouen, Fily, Johanna E., Kowalko, Lior, Appelbaum, Erik R., Duboue, Alex C., Keene
BioRxiv.

Topoisomerase VI participates in an insulator-like function that prevents H3K9me2 spreading into euchromatic islands
Louis‑Valentin, Méteignier, Cécile, Lecampion, Florent, Velay, Cécile, Vriet, Laura, Dimnet, Michel, Térèse, Martin, Rougée, Christian, Breuer, Ludivine, Soubigou‑Taconnat, Keiko, Sugimoto, Fredy, Barneche, Christophe, Laloi
BioRxiv.

Suppressor mutations in Mecp2-null mice reveal that the DNA damage response is key to Rett syndrome pathology
Adebola, Enikanolaiye, Julie, Ruston, Rong, Zeng, Christine, Taylor, Marijke, Shrock, Christie M., Buchovecky, Jay, Shendure, Elif, Acar, Monica J., Justice
BioRxiv.

Modelling Niemann-Pick disease type C in a human haploid cell line allows for patient variant characterization and clinical interpretation
Steven, Erwood, Reid A., Brewer, Teija M.I., Bily, Eleonora, Maino, Liangchi, Zhou, Ronald D., Cohn, Evgueni A., Ivakine
BioRxiv.

Combining tRNA sequencing methods to characterize plant tRNA expression and post-transcriptional modification
Jessica M., Warren, Thalia, Salinas‑Giegé, Guillaume, Hummel, Nicole L., Coots, Joshua M., Svendsen, Kristen C., Brown, Laurence, Maréchal‑Drouard, Daniel B., Sloan
BioRxiv.

Genetic architecture underlying changes in carotenoid accumulation during the evolution of the Blind Mexican cavefish, Astyanax mexicanus
Misty R., Riddle, Ariel, Aspiras, Fleur, Damen, John N., Hutchinson, Daniel, Chinnapen, Clifford J., Tabin
BioRxiv.

Loss of NPC1 enhances phagocytic uptake and impairs lipid trafficking in microglia
Alessio, Colombo, Lina, Dinkel, Stephan A., Müller, Laura Sebastian, Monasor, Martina, Schifferer, Ludovico, Cantuti‑Castelvetri, Jasmin, König, Lea, Vidatic, Tatiana, Bremova‑Ertl, Silva, Hecimovic, Mikael, Simons, Stefan F., Lichtenthaler, Michael, Strupp, Susanne A., Schneider, Sabina, Tahirovic
BioRxiv.

Defective excitatory/inhibitory synaptic balance and increased neuron apoptosis in a zebrafish model of Dravet syndrome
Alexandre, Brenet, Rahma, Hassan‑Abdi, Julie, Somkhit, Constantin, Yanicostas, Nadia, Soussi‑Yanicostas
BioRxiv.

Translational efficiency across healthy and tumor tissues is proliferation-related
Xavier, Hernandez‑Alias, Hannah, Benisty, Martin H., Schaefer, Luis, Serrano
BioRxiv.

Inducible degron-dependent depletion of the RNA polymerase I associated factor PAF53 demonstrates it is essential for cell growth and allows for the analysis of functional domains
Rachel, McNamar, Zakaria, Abu‑Adas, Katrina, Rothblum, Lawrence I., Rothblum
BioRxiv.

Active transcription regulates ORC/MCM distribution whereas replication timing correlates with ORC density in human cells
Nina, Kirstein, Alexander, Buschle, Xia, Wu, Stefan, Krebs, Helmut, Blum, Wolfgang, Hammerschmidt, Olivier, Hyrien, Benjamin, Audit, Aloys, Schepers
BioRxiv.

A streamlined mass spectrometry-based proteomics workflow for large scale FFPE tissue analysis
Fabian, Coscia, Sophia, Doll, Jacob Mathias, Bech, Andreas, Mund, Ernst, Lengyel, Jan, Lindebjerg, Gunvor Iben, Madsen, José M. A., Moreira, Matthias, Mann
BioRxiv.

Natural Epiallelic Variation is Associated with Quantitative Resistance to the Pathogen Plasmodiophora Brassicae
Benjamin, Liégard, Antoine, Gravot, Leandro, Quadrana, Yoann, Aigu, Juliette, Bénéjam, Christine, Lariagon, Jocelyne, Lemoine, Vincent, Colot, Maria J., Manzanares‑Dauleux, Mélanie, Jubault
BioRxiv.

Coordination of transcriptional and translational regulations in human epithelial cells infected by Listeria monocytogenes
Vinko, Besic, Fatemeh, Habibolahi, Benoît, Noël, Sebastian, Rupp, Auguste, Genovesio, Alice, Lebreton
BioRxiv.

Gain modulation and odor concentration invariance in early olfactory networks
Emiliano, Marachlian, Ramon, Huerta, Fernando F., Locatelli
BioRxiv.

Phenotypic plasticity as a mechanism of cave colonization and adaptation
Helena, Bilandžija, Breanna, Hollifield, Mireille, Steck, Guanliang, Meng, Mandy, Ng, Andrew D., Koch, Romana, Gračan, Helena, Ćetković, Megan L., Porter, Kenneth J., Renner, William R., Jeffery
BioRxiv.

Cheating emergences in the arbuscular mycorrhizal mutualism : a network and phylogenetic analysis
Benoît, Perez‑Lamarque, Marc‑André, Selosse, Maarja, Öpik, Hélène, Morlon, Florent, Martos
BioRxiv.

Disruption to NKCC1 impairs the response of myelinating Schwann cells to neuronal activity and leads to severe peripheral nerve pathology
Linde, Kegel, Katy LH, Marshall‑Phelps, Marion, Baraban, Rafael G, Almeida, Maria, Rubio‑Brotons, Anna, Klingseisen, Silvia, Benito‑Kwiecinski, Jason J, Early, Jenea, Bin, Matthew R, Livesey, Richard J, Poole, David A, Lyons
BioRxiv.

METTL2 forms a complex with the DALRD3 anticodon-domain binding protein to catalyze formation of 3-methylcytosine in specific arginine tRNA isoacceptors
Jenna M., Lentini, Dragony, Fu
BioRxiv.

A genomics approach reveals the global genetic polymorphism, structure and functional diversity of ten accessions of the marine model diatom Phaeodactylum tricornutum
Achal, Rastogi, FRJ, Vieira, Anne‑Flore, Deton‑Cabanillas, Alaguraj, Veluchamy, Catherine, Cantrel, Gaohong, Wang, Pieter, Vanormelingen, Chris, Bowler, Gwenael, Piganeau, Hanhua, Hu, Leila, Tirichine
BioRxiv.

TPR is required for the nuclear export of mRNAs and lncRNAs from intronless and intron-poor genes
Eliza S., Lee, Eric J., Wolf, Harrison W., Smith, Andrew, Emili, Alexander F., Palazzo
BioRxiv.

Chemotaxis and topotaxis add vectorially for amoeboid cell migration
Joeri A. J., Wondergem, Maria, Mytiliniou, Falko C. H. de, Wit, Thom G. A., Reuvers, David, Holcman, Doris, Heinrich
BioRxiv.

An altered metabolism could contribute to the low activation of neonatal CD8+T cells
Sánchez‑Villanueva José, Antonio, Rodríguez‑Jorge, Otoniel, Ramírez‑Pliego, Oscar, Rosas Salgado, Gabriela, Abou‑Jaoudé, Wassim, Hernandez, Céline, Naldi, Aurélien, Thieffry, Denis, Santana María, Angélica
BioRxiv.

SIRT6 as a transcriptional coactivator of GATA4 prevents doxorubicin cardiotoxicity independently of its deacylase activity
Minxian, Qian, Linyuan, Peng, Zuojun, Liu, Xiaolong, Tang, Zimei, Wang, Baohua, Liu
BioRxiv.

Microbial evolution reshapes soil carbon feedbacks to climate change
Elsa, Abs, Scott R., Saleska, Regis, Ferriere
BioRxiv.

Targeting of mitochondrial and cytosolic substrates of tRNA isopentenyltransferases : selection of differential tRNA-i6A37 identity subsets
Abdul, Khalique, Sandy, Mattijssen, Alexander F., Haddad, Richard J., Maraia
BioRxiv.

Development of vascular myogenic responses in zebrafish
Nabila, Bahrami, Sarah J., Childs
BioRxiv.

The laboratory domestication of zebrafish : from diverse populations to inbred substrains
Jaanus, Suurväli, Andrew R, Whiteley, Yichen, Zheng, Karim, Gharbi, Maria, Leptin, Thomas, Wiehe
BioRxiv.

Functional community assembly and turnover along elevation and latitude
Marta A., Jarzyna, Ignacio, Quintero, Walter, Jetz
BioRxiv.

Diatoms structure the plankton community based on selective segregation in the world’s ocean
Flora, Vincent, Chris, Bowler
BioRxiv.

Intraspecific diversity of fission yeast mitochondrial genomes
Yu‑Tian, Tao, Fang, Suo, Sergio, Tusso, Yan‑Kai, Wang, Song, Huang, Jochen B. W., Wolf, Li‑Lin, Du
BioRxiv.

An HSP90-regulated reduced-eye phenotype in Tribolium shows fitness benefits and thus provides evidence for evolutionary capacitance
Rasha, Aboelsoud, Joachim, Kurtz
BioRxiv.

Meningeal lymphatic endothelial cells fulfill scavenger endothelial cell function and employ Mrc1a for cargo uptake
Yvonne, Padberg, Andreas, van Impel, Max, van Lessen, Jeroen, Bussmann, Stefan, Schulte‑Merker
BioRxiv.

Distinct Basket Nucleoporins roles in Nuclear Pore Function and Gene Expression : Tpr is an integral component of the TREX-2 mRNA export pathway
Vasilisa, Aksenova, Hang Noh, Lee, Alexandra, Smith, Shane, Chen, Prasanna, Bhat, James, Iben, Carlos, Echeverria, Beatriz, Fontoura, Alexei, Arnaoutov, Mary, Dasso
BioRxiv.

GC content shapes mRNA decay and storage in human cells
Maïté, Courel, Yves, Clément, Dominika, Foretek, Olivia Vidal, Cruchez, Zhou, Yi, Marie‑Noëlle, Benassy, Michel, Kress, Caroline, Vindry, Marianne, Bénard, Clémentine, Bossevain, Christophe, Antoniewski, Antonin, Morillon, Patrick, Brest, Arnaud, Hubstenberger, Hugues Roest, Crollius, Nancy, Standart, Dominique, Weil
BioRxiv.

Biphasic impact of prenatal inflammation and macrophage depletion on the wiring of neocortical inhibitory circuits
Morgane Sonia, Thion, Coralie‑Anne, Mosser, Isabelle, Férézou, Pauline, Grisel, Sofia, Baptista, Donovan, Low, Florent, Ginhoux, Sonia, Garel, Etienne, Audinat
BioRxiv.

Synaptic mechanisms underlying the network state-dependent recruitment of VIP-expressing interneuron-specific interneurons in the CA1 hippocampus
Xiao, Luo, Alexandre, Guet‑McCreight, Vincent, Villette, Ruggiero, Francavilla, Beatrice, Marino, Simon, Chamberland, Frances K, Skinner, Lisa, Topolnik
BioRxiv.

Synchronization of mammalian motile cilia in the brain with hydrodynamic forces
Nicola, Pellicciotta, Evelyn, Hamilton, Jurij, Kotar, Marion, Faucourt, Nathalie, Degehyr, Nathalie, Spassky, Pietro, Cicuta
BioRxiv.

Characterizing and comparing phylogenetic trait data from their normalized Laplacian spectrum
Eric, Lewitus, Leandro, Aristide, Helene, Morlon
BioRxiv.

DNA sequence is a major determinant of tetrasome dynamics
O., Ordu, A., Lusser, N. H., Dekker
BioRxiv.

2dSS : a web server for protein secondary structure visualization
Diksha Priya, Lotun, Charlotte, Cochard, Fabio R.J, Vieira, Juliana Silva, Bernardes
BioRxiv.

Reconstructing wells from high density regions extracted from super-resolution single particle trajectories
P., Parutto, J., Heck, M., Heine, D., Holcman
BioRxiv.

DNA accessibility is not the primary determinant of chromatin-mediated gene regulation
Răzvan V., Chereji, Peter R., Eriksson, Josefina, Ocampo, David J., Clark
BioRxiv.

RSAT Var-tools : an accessible and flexible framework to predict the impact of regulatory variants on transcription factor binding
Walter, Santana‑Garcia, Maria, Rocha‑Acevedo, Lucia, Ramirez‑Navarro, Yvon, Mbouamboua, Denis, Thieffry, Morgane, Thomas‑Chollier, Bruno, Contreras‑Moreira, Jacques, van Helden, Alejandra, Medina‑Rivera
BioRxiv.

Cell-type specific concentration regulation of the basal transcription factor TFIIH
Lise‑Marie, Donnio, Catherine, Miquel, Wim, Vermeulen, Giuseppina, Giglia‑Mari, Pierre‑Olivier, Mari
BioRxiv.

Reliable Phylogenetic Regressions for Multivariate Comparative Data : Illustration with the MANOVA and Application to the Effect of Diet on Mandible Morphology in Phyllostomid Bats
Julien, Clavel, Hélène, Morlon
BioRxiv.

Noda-like RNA viruses infecting Caenorhabditis nematodes : sympatry, diversity and reassortment
Lise, Frézal, Hyeim, Jung, Stephen, Tahan, David, Wang, Marie‑Anne, Félix
BioRxiv.

Suppression of transcytosis regulates zebrafish blood-brain barrier development
Natasha M., O’Brown, Sean G., Megason, Chenghua, Gu
BioRxiv.

Opposing chromatin remodelers control transcription initiation frequency and start site selection
Slawomir, Kubik, Drice, Challal, Maria Jessica, Bruzzone, René, Dreos, Stefano, Mattarocci, Philipp, Bucher, Domenico, Libri, David, Shore
BioRxiv.

Gene-level quantitative trait mapping in an expanded C. elegans multiparent experimental evolution panel
Luke M., Noble, Matthew V., Rockman, Henrique, Teotónio
BioRxiv.

Characterization of pathology-inducing α-synuclein species from human diseased brain tissue
John D., Graef, Nina, Hoque, Craig, Polson, Ling, Yang, Lawrence, Iben, Yang, Cao, Nino, Devidze, Michael K., Ahlijanian, Jere E., Meredith
BioRxiv.

Estimating Diversity Through Time using Molecular Phylogenies : Old and Species-Poor Frog Families are the Remnants of a Diverse Past
O., Billaud, D. S., Moen, T. L., Parsons, H., Morion
BioRxiv.

Arabidopsis S2Lb links AtCOMPASS-like and SDG2 activity in histone H3 Lys-4 trimethylation independently from histone H2B monoubiquitination
Anne‑Sophie, Fiorucci, Clara, Bourbousse, Lorenzo, Concia, Martin, Rougée, Anne‑Flore, Deton‑Cabanillas, Gérald, Zabulon, Elodie, Layat, David, Latrasse, SoonKap, Kim, Nicole, Chaumont, Bérangère, Lombard, David, Stroebel, Sophie, Lemoine, Ammara, Mohammad, Corinne, Blugeon, Damarys, Loew, Christophe, Bailly, Chris, Bowler, Moussa, Benhamed, Fredy, Barneche
BioRxiv.

An RNA-binding protein secreted by Listeria monocytogenes activates RIG-I signaling
Alessandro, Pagliuso, To Nam, Tham, Eric, Allemand, Stevens, Robertin, Bruno, Dupuy, Quentin, Bertrand, Christophe, Bécavin, Mikael, Koutero, Valérie, Najburg, Marie‑Anne, Nahori, Fabrizia, Stavru, Andréa, Dessen, Christian, Muchard, Alice, Lebreton, Anastassia V., Komarova, Pascale, Cossart
BioRxiv.

Non-coding AUG circRNAs constitute an abundant and conserved subclass of circles
Lotte VW, Stagsted, Katrine M, Nielsen, Iben, Daugaard, Thomas B, Hansen
BioRxiv.

An open-source and low-cost feeding system for zebrafish facilities
Astou, Tangara, Gérard, Paresys, Firas, Bouallague, Yvon, Cabirou, Jozsua, Fodor, Victor, Llobet, Germán, Sumbre
BioRxiv.

Sen1 is required for RNA Polymerase III transcription termination in an R-loop independent manner
Julieta, Rivosecchi, Marc, Larochelle, Camille, Teste, Frédéric, Grenier, Amélie, Malapert, Emiliano P., Ricci, Pascal, Bernard, François, Bachand, Vincent, Vanoosthuyse
BioRxiv.

Universal trends of post-duplication evolution revealed by the genomes of 13 Paramecium species sharing an ancestral whole-genome duplication
Jean‑Francois, Gout, Parul, Johri, Olivier, Arnaiz, Thomas G., Doak, Simran, Bhullar, Arnaud, Couloux, Fréderic, Guérin, Sophie, Malinsky, Linda, Sperling, Karine, Labadie, Eric, Meyer, Sandra, Duharcourt, Michael, Lynch
BioRxiv.

Interdependent Phenotypic and Biogeographic Evolution Driven by Biotic Interactions
Ignacio, Quintero, Michael J., Landis
BioRxiv.

RASSF1A is required for the maintenance of nuclear actin levels
Maria, Chatzifrangkeskou, Dafni‑Eleftheria, Pefani, Michael, Eyres, Iolanda, Vendrell, Roman, Fischer, Daniela, Pankova, Eric, O’Neill
BioRxiv.

An unusual nucleosomal sequence pattern is enriched in mammalian genes
Gregory M., Wright, Feng, Cui
BioRxiv.

Blood vessels guide Schwann cell migration in the adult demyelinated CNS through Eph/ephrin signaling
Beatriz, Garcia‑Diaz, Corinne, Bachelin, Fanny, Coulpier, Gaspard, Gerschenfeld, Cyrille, Deboux, Violetta, Zujovic, Patrick, Charnay, Piotr, Topilko, Anne Baron‑Van, Evercooren
BioRxiv.

Evolution of the D. melanogaster chromatin landscape and its associated proteins
Elise, Parey, Anton, Crombach
BioRxiv.

From individuals to populations : How intraspecific competition shapes thermal reaction norms
François, Mallard, Vincent Le, Bourlot, Christie Le, Coeur, Monique, Avnaim, Romain, Péronnet, David, Claessen, Thomas, Tully
BioRxiv.

The Largest Subunit of Human TFIIIC Complex, TFIIIC220, a Lysine Acetyltransferase Targets Histone H3K18
Moumita, Basu, Ramachandran, Boopathi, Sadhan, Das, Tapas K, Kundu
BioRxiv.

Dynamics of centriole amplification in centrosome-depleted brain multiciliated progenitors
Olivier, Mercey, Adel Al, Jord, Philippe, Rostaing, Alexia, Mahuzier, Aurélien, Fortoul, Amélie‑Rose, Boudjema, Marion, Faucourt, Nathalie, Spassky, Alice, Meunier
BioRxiv.

Genome wide screen reveals a specific interaction between autosome and X that is essential for hybrid male sterility
Yu, Bi, Xiaoliang, Ren, Runsheng, Li, Qiutao, Ding, Dongying, Xie, Zhongying, Zhao
BioRxiv.

Mapping the bacterial ecology on the phyllosphere of grass hay and the potential hazards of soaking fodder for horse gut health
Meriel JS, Moore‑Colyer, Annette, Longland, Patricia, Harris, Susan, Crosthwaite
BioRxiv.

Codon usage and amino acid identity are major determinants of mRNA stability in humans
Megan E., Forrest, Ashrut, Narula, Thomas J., Sweet, Daniel, Arango, Gavin, Hanson, James, Ellis, Shalini, Oberdoerffer, Jeff, Coller, Olivia S., Rissland
BioRxiv.

Super-resolution Molecular Map of Basal Foot Reveals Novel Cilium in Airway Multiciliated Cells
Quynh P.H., Nguyen, Zhen, Liu, Rashmi, Nanjundappa, Alexandre, Megherbi, Nathalie, Delgehyr, Hong, Ouyang, Lorna, Zlock, Etienne, Coyaud, Estelle, Laurent, Sharon, Dell, Walter, Finkbeiner, Theo, Moraes, Brian, Raught, Kirk, Czymmek, Alice, Munier, Moe R., Mahjoub, Vito, Mennella
BioRxiv.

Enhancer-gene maps in the human and zebrafish genomes using evolutionary linkage conservation
Yves, Clément, Patrick, Torbey, Pascale, Gilardi‑Hebenstreit, Hugues Roest, Crollius
BioRxiv.

Linker histones regulate fine-scale chromatin organization and modulate developmental decisions in Arabidopsis
Kinga, Rutowicz, Maciej, Lirski, Benoît, Mermaz, Jasmin, Schubert, Gianluca, Teano, Imen, Mestiri, Magdalena A., Kroteń, Tohnyui Ndinyanka, Fabrice, Simon, Fritz, Stefan, Grob, Christoph, Ringli, Lusik, Cherkezyan, Fredy, Barneche, Andrzej, Jerzmanowski, Célia, Baroux
BioRxiv.

Glycerol phosphate acyltransferase 6 controls filamentous pathogen interactions and cell wall properties of the tomato and Nicotiana benthamiana leaf epidermis
Stuart, Fawke, Thomas A., Torode, Anna, Gogleva, Eric A., Fich, Iben, Sørensen, Temur, Yunusov, Jocelyn K.C., Rose, Sebastian, Schornack
BioRxiv.

Why would parthenogenetic females systematically produce males who never transmit their genes to females ?
Manon, Grosmaire, Caroline, Launay, Marion, Siegwald, Marie‑Anne, Félix, Pierre‑Henri, Gouyon, Marie, Delattre
BioRxiv.

Transposon accumulation lines uncover histone H2A.Z-driven integration bias towards environmentally responsive genes
Leandro, Quadrana, Mathilde, Etcheverry, Arthur, Gilly, Erwann, Caillieux, Mohammed‑Amin, Madoui, Julie, Guy, Amanda Bortolini, Silveira, Stefan, Engelen, Victoire, Baillet, Patrick, Wincke, Jean‑Marc, Aury, Vincent, Colot
BioRxiv.