Publications
2025
Dynamics of gut colonization by commensal and pathogenic bacteria that attach to the intestinal epithelium.
Rivera DE, Poirier K, Moore S, Nicolle O, Morgan E, Longares JF, Singh A, Michaux G, Félix MA, Luallen RJ
NPJ Biofilms Microbiomes. 2025 May 3. 11(1):70.
Relationship between high-density lipoprotein cholesterol (HDL-C) concentration and ventilator-associated pneumonia in ICU COVID-19 patients.
Andrei S, Olivier M, De Tymowski C, Snauwaert A, Stern J, Robert T, Lortat‑Jacob B, Atchade E, Kantor E, Begue F, Montravers P, Tanaka S
Anaesth Crit Care Pain Med. 2025 May 1:101535.
The diffused evolutionary dynamics of morphological novelty.
Quintero I
Proc Natl Acad Sci U S A. 2025 May 6. 122(18):e2425573122.
mTOR controls ependymal cell differentiation by targeting the alternative cell cycle and centrosomal proteins.
Bankolé A, Srivastava A, Shihavuddin A, Tighanimine K, Faucourt M, Koka V, Weill S, Nemazanyy I, Nelson AJ, Stokes MP, Delgehyr N, Genovesio A, Meunier A, Fumagalli S, Pende M, Spassky N
EMBO Rep. 2025 Apr 30.
Imaging and Quantifying the Diversity of Native NMDA Receptors.
Shi S, Stroebel D, Mony L, Paoletti P
Neurosci Bull. 2025 Apr 30.
Intravital Longitudinal Imaging of Vascular Dynamics in the Calvarial Bone Marrow.
Duperray‑Susini A, Guilbert T, Fodor J, Lesieur J, Sandhow L, Bourdoncle P, Passaro D
J Vis Exp. 2025 Apr 11. (218).
Editorial - Philippe Ascher (1936-2022).
Johnson JW, Paoletti P
Neuroscience. 2025 Apr 24.
Deciphering the human TopIIIα activity modulated by Rmi1 using magnetic tweezers.
Yun L, Garnier F, Strick TR, Nadal M
Nucleic Acids Res. 2025 Apr 22. 53(8).
Experimental tests on the evolution of sex and recombination and their adaptive significance.
Parée T, Teotónio H
J Evol Biol. 2025 Apr 17.
Vesicular and non-vesicular extracellular small RNAs direct gene silencing in a plant-interacting bacterium.
Ravet A, Zervudacki J, Singla‑Rastogi M, Charvin M, Thiebeauld O, Perez‑Quintero AL, Courgeon L, Candat A, Lebeau L, Fortunato AE, Mendu V, Navarro L
Nat Commun. 2025 Apr 14. 16(1):3533.
Optical Sectioning for Reflection Interference Microscopy : Quantitative Imaging at Soft Interfaces.
Ventalon C, Kirichuk O, Navon Y, Chastagnier Y, Heux L, Richter RP, Bureau L, Débarre D
Langmuir. 2025 Apr 22. 41(15):10040-10051.
Patterns and drivers of diatom diversity and abundance in the global ocean.
Pierella Karlusich JJ, Cosnier K, Zinger L, Henry N, Nef C, Bernard G, Scalco E, Dvorak E, Rocha Jimenez Vieira F, Delage E, Chaffron S, Ovchinnikov S, Zingone A, Bowler C
Nat Commun. 2025 Apr 11. 16(1):3452.
Differential contribution of P73+ Cajal-Retzius cells and Reelin to cortical morphogenesis.
Elorriaga V, Bouloudi B, Delberghe E, Saillour Y, Morel JS, Azzam P, Moreau MX, Stottmann R, Bahi‑Buisson N, Pierani A, Spassky N, Causeret F
Development. 2025 May 1. 152(9).
How should clinicians interpret these results ?
Longrois D, Kubis N, Holcman D
Eur J Anaesthesiol. 2025 May 1. 42(5):385-388.
Evolutionary rescue of spherical mreB deletion mutants of the rod-shape bacterium Pseudomonas fluorescens SBW25.
Yulo PRJ, Desprat N, Gerth ML, Ritzl‑Rinkenberger B, Farr AD, Liu Y, Zhang XX, Miller M, Cava F, Rainey PB, Hendrickson HL
Elife. 2025 Mar 31. 13.
Sex and environment shape cochlear sensitivity in human populations worldwide.
Balaresque P, Delmotte S, Delehelle F, Moreira A, Saenz‑Oyhéréguy N, Croze M, Hegay T, Aripova T, Le Bomin S, Mennecier P, Descouens D, Cussat‑Blanc S, Luga H, Guevara A, D’Amato ME, King T, Mollereau C, Heyer E
Sci Rep. 2025 Mar 26. 15(1):10475.
In vivo targeted and deterministic single-cell malignant transformation.
Scerbo P, Tisserand B, Delagrange M, Debare H, Bensimon D, Ducos B
Elife. 2025 Mar 25. 13.
A tunable and versatile chemogenetic near-infrared fluorescent reporter.
El Hajji L, Bunel B, Joliot O, Li C, Tebo AG, Rampon C, Volovitch M, Fischer E, Pietrancosta N, Perez F, Morin X, Vriz S, Gautier A
Nat Commun. 2025 Mar 16. 16(1):2594.
DiatOmicBase : a versatile gene-centered platform for mining functional omics data in diatom research.
Villar E, Zweig N, Vincens P, Cruz de Carvalho H, Duchene C, Liu S, Monteil R, Dorrell RG, Fabris M, Vandepoele K, Bowler C, Falciatore A
Plant J. 2025 Mar. 121(6):e70061.
Gaskell, Langley, and the "para-sympathetic" idea.
Brunet JF
Elife. 2025 Mar 14. 14.
RNA anchoring of Upf1 facilitates recruitment of Dcp2 in the NMD decapping complex.
Ruiz‑Gutierrez N, Dupas J, Auquier E, Barbarin‑Bocahu I, Gaudon‑Plesse C, Saveanu C, Graille M, Le Hir H
Nucleic Acids Res. 2025 Feb 27. 53(5).
Parasitic plasmids are anchored to inactive regions of eukaryotic chromosomes through a nucleosome signal.
Girard F, Even A, Thierry A, Ruault M, Meneu L, Larrous P, Garnier M, Adiba S, Taddei A, Koszul R, Cournac A
EMBO J. 2025 Apr. 44(7):2134-2156.
An agent-based model to simulate the transmission dynamics of bloodborne pathogens within hospitals.
Henriot P, El‑Kassas M, Anwar W, Girgis SA, El Gaafary M, Jean K, Temime L
PLoS Comput Biol. 2025 Feb. 21(2):e1012850.
AsaruSim : a single-cell and spatial RNA-Seq Nanopore long-reads simulation workflow.
Hamraoui A, Jourdren L, Thomas‑Chollier M
Bioinformatics. 2025 Mar 4. 41(3).
Negative global-scale association between genetic diversity and speciation rates in mammals.
Afonso Silva AC, Maliet O, Aristide L, Nogués‑Bravo D, Upham N, Jetz W, Morlon H
Nat Commun. 2025 Feb 20. 16(1):1796.
Ages, sizes and (trees within) trees of taxa and of urns, from Yule to today.
Lambert A
Philos Trans R Soc Lond B Biol Sci. 2025 Feb 13. 380(1919):20230305.
Symmetry-based approach to species-rich ecological communities.
Giral Martínez J
Phys Rev E. 2025 Jan. 111(1-1):014415.
The public health co-benefits of strategies consistent with net-zero emissions : a systematic review.
Moutet L, Bernard P, Green R, Milner J, Haines A, Slama R, Temime L, Jean K
Lancet Planet Health. 2025 Feb. 9(2):e145-e156.
Unraveling microglial spatial organization in the developing human brain with DeepCellMap, a deep learning approach coupled with spatial statistics.
Perochon T, Krsnik Z, Massimo M, Ruchiy Y, Romero AL, Mohammadi E, Li X, Long KR, Parkkinen L, Blomgren K, Lagache T, Menassa DA, Holcman D
Nat Commun. 2025 Feb 13. 16(1):1577.
Author Correction : 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. 2025 Apr. 31(4):1364.
The double life of mammalian DNA replication origins.
Hyrien O, Guilbaud G, Krude T
Genes Dev. 2025 Mar 3. 39(5-6):304-324.
Dual DNA replication modes : varying fork speeds and initiation rates within the spatial replication program in Xenopus.
Ciardo D, Haccard O, de Carli F, Hyrien O, Goldar A, Marheineke K
Nucleic Acids Res. 2025 Jan 24. 53(3).
Unveiling the functional connectivity of astrocytic networks with AstroNet, a graph reconstruction algorithm coupled to image processing.
Zonca L, Bellier FC, Milior G, Aymard P, Visser J, Rancillac A, Rouach N, Holcman D
Commun Biol. 2025 Jan 24. 8(1):114.
Persistent, Private, and Mobile Genes : A Model for Gene Dynamics in Evolving Pangenomes.
Gamblin J, Lambert A, Blanquart F
Mol Biol Evol. 2025 Jan 6. 42(1).
Selection Can Favor a Recombination Landscape That Limits Polygenic Adaptation.
Parée T, Noble L, Roze D, Teotónio H
Mol Biol Evol. 2025 Jan 6. 42(1).
Telomere-to-telomere DNA replication timing profiling using single-molecule sequencing with Nanotiming.
Theulot B, Tourancheau A, Simonin Chavignier E, Jean E, Arbona JM, Audit B, Hyrien O, Lacroix L, Le Tallec B
Nat Commun. 2025 Jan 2. 16(1):242.
Cyclin switch tailors a cell cycle variant to orchestrate multiciliogenesis.
Serizay J, Khoury Damaa M, Boudjema AR, Balagué R, Faucourt M, Delgehyr N, Noûs C, Zaragosi LE, Barbry P, Spassky N, Koszul R, Meunier A
Cell Rep. 2025 Jan 28. 44(1):115103.
Cyclin O controls entry into the cell-cycle variant required for multiciliated cell differentiation.
Khoury Damaa M, Serizay J, Balagué R, Boudjema AR, Faucourt M, Delgehyr N, Goh KJ, Lu H, Tan EK, James CT, Faucon C, Mitri R, Bracht DC, Bingle CD, Dunn NR, Arnold SJ, Zaragosi LE, Barbry P, Koszul R, Omran H, Gil‑Gómez G, Escudier E, Legendre M, Roy S, Spassky N, Meunier A
Cell Rep. 2025 Jan 28. 44(1):115117.
Diatom phytochromes integrate the underwater light spectrum to sense depth.
Duchêne C, Bouly JP, Pierella Karlusich JJ, Vernay E, Sellés J, Bailleul B, Bowler C, Ribera d’Alcalà M, Falciatore A, Jaubert M
Nature. 2025 Jan. 637(8046):691-697.
Portal vein pulsatility is associated with the cumulative fluid balance : A post hoc longitudinal analysis of a prospective, general intensive care unit cohort.
Andrei S, Longrois D, Nguyen M, Bouhemad B, Guinot PG
Eur J Anaesthesiol. 2025 Apr 1. 42(4):324-331.
Actin-based deformations of the nucleus control mouse multiciliated ependymal cell differentiation.
Basso M, Mahuzier A, Ali SK, Marty A, Faucourt M, Lennon‑Duménil AM, Srivastava A, Khoury Damaa M, Bankolé A, Meunier A, Yamada A, Plastino J, Spassky N, Delgehyr N
Dev Cell. 2025 Mar 10. 60(5):749-761.e5.
Stepwise molecular specification of excitatory synapse diversity onto cerebellar Purkinje cells.
Paul MA, Sigoillot SM, Marti L, Urra Quiroz FJ, Delagrange M, Cheung HW, Martinelli DC, Oriol E, Hakim V, Mailly P, Selimi F
Nat Neurosci. 2025 Feb. 28(2):308-319.
A Pan-European study of the bacterial plastisphere diversity along river-to-sea continuums.
Philip L, Chapron L, Barbe V, Burgaud G, Calvès I, Paul‑Pont I, Thiébeauld O, Sperandio B, Navarro L, Ter Halle A, Eyheraguibel B, Ludwig W, Palazot M, Kedzierski M, Meistertzheim AL, Ghiglione JF
Environ Sci Pollut Res Int. 2025 Apr. 32(16):10164-10180.
Tubulin glutamylation regulates axon guidance via the selective tuning of microtubule-severing enzymes.
Ten Martin D, Jardin N, Vougny J, Giudicelli F, Gasmi L, Berbée N, Henriot V, Lebrun L, Haumaître C, Kneussel M, Nicol X, Janke C, Magiera MM, Hazan J, Fassier C
EMBO J. 2025 Jan. 44(1):107-140.
Vascular dysfunction is at the onset of oxaliplatin-induced peripheral neuropathy symptoms in mice.
Taïb S, Durand J, Dehais V, Boulay AC, Martin S, Blugeon C, Jourdren L, Freydier R, Cohen‑Salmon M, Hazan J, Brunet I
Life Sci Alliance. 2025 Feb. 8(2).
ChIP-Rx : Arabidopsis Chromatin Profiling Using Quantitative ChIP-Seq.
Vidal A, Concia L, Rougée M, Bourbousse C, Barneche F
Methods Mol Biol. 2025. 2873:71-92.
Anthropogenic land consolidation intensifies zoonotic host diversity loss and disease transmission in human habitats.
Pei S, Yu P, Raghwani J, Wang Y, Liu Z, Li Y, Cheng Y, Lin Q, Song C, Dharmarajan G, Faust CL, Tian Y, Xu Y, Liang Y, Qu J, Wei J, Li S, Zhang T, Ma C, Bharti N, Cazelles B, Yang R, Pybus OG, Dobson AP, Stenseth NC, Tian H
Nat Ecol Evol. 2025 Jan. 9(1):99-110.
High VExUS grades are linked to cardiac function in general intensive care unit patients.
Andrei S, Nguyen M, Bouhemad B, Guinot PG
Eur Heart J Acute Cardiovasc Care. 2025 Jan 31. 14(1):24-30.
DIONYSUS : a database of protein-carbohydrate interfaces.
Gheeraert A, Bailly T, Ren Y, Hamraoui A, Te J, Vander Meersche Y, Cretin G, Leon Foun Lin R, Gelly JC, Pérez S, Guyon F, Galochkina T
Nucleic Acids Res. 2025 Jan 6. 53(D1):D387-D395.
Both GEF domains of the autism and developmental epileptic encephalopathy-associated Trio protein are required for proper tangential migration of GABAergic interneurons.
Eid L, Lokmane L, Raju PK, Tene Tadoum SB, Jiang X, Toulouse K, Lupien‑Meilleur A, Charron‑Ligez F, Toumi A, Backer S, Lachance M, Lavertu‑Jolin M, Montseny M, Lacaille JC, Bloch‑Gallego E, Rossignol E
Mol Psychiatry. 2025 Apr. 30(4):1338-1358.
