• 2025
  Chapard C, Bastié N, Cournac A, Chaptal L, Mboumba H, Queille S, Thierry A, Gadal O, Lengronne A, Koszul R, Beckouët F, RNA Pol II-based regulations of chromosome folding., Cell Genom 2025 Aug; (): 100970.
• 2025
  Parul Singh, Justine Couble, Jacques Serizay, Maureen D Cabahug, Catarina Rosa, Patty Chen, Artur Scherf, Romain Koszul, Sebastian Baumgarten, Jessica M Bryant, High-resolution map of the Plasmodium falciparum genome reveals MORC/ ApiAP2-mediated links between distant, functionally related genes, Nature Microbiology, 2025, 10 (7), pp.1665-1683. ⟨10.1038/s41564-025-02038-z⟩.
• 2025
  Mazzuoli MV, van Raaphorst R, Martin LS, Bock FP, Thierry A, Marbouty M, Waclawiková B, Stinenbosch J, Koszul R, Veening JW, HU promotes higher order chromosome organization and influences DNA replication rates in Streptococcus pneumoniae., Nucleic Acids Res 2025 Apr; 53(8): .
• 2025
  Girard F, Even A, Thierry A, Ruault M, Meneu L, Larrous P, Garnier M, Adiba S, Taddei A, Koszul R, Cournac A, Parasitic plasmids are anchored to inactive regions of eukaryotic chromosomes through a nucleosome signal., EMBO J 2025 Feb; (): .
• 2025
  Léa Meneu, Christophe Chapard, Jacques Serizay, Alex Westbrook, Etienne Routhier, Myriam Ruault, Manon Perrot, Alexandros Minakakis, Fabien Girard, Amaury Bignaud, Antoine Even, Géraldine Gourgues, Domenico Libri, Carole Lartigue, Aurèle Piazza, Agnès Thierry, Angela Taddei, Frédéric Beckouët, Julien Mozziconacci, Romain Koszul, Sequence-dependent activity and compartmentalization of foreign DNA in a eukaryotic nucleus, Science, 2025, 387 (6734), pp.eadm9466. ⟨10.1126/science.adm9466⟩.
• 2025
  Michella Khoury Damaa, Jacques Serizay, Rémi Balagué, Amélie-Rose Boudjema, Marion Faucourt, Nathalie Delgehyr, Kim Jee Goh, Hao Lu, Ee Kim Tan, Cameron T James, Catherine Faucon, Rana Mitri, Diana Carolin Bracht, Colin D Bingle, Norris Ray Dunn, Sebastian J Arnold, Laure-Emmanuelle Zaragosi, Pascal Barbry, Romain Koszul, Heymut Omran, Gabriel Gil-Gómez, Estelle Escudier, Marie Legendre, Sudipto Roy, Nathalie Spassky, Alice Meunier, Cyclin O controls entry into the cell-cycle variant required for multiciliated cell differentiation, Cell Reports, 2025, 44 (1), pp.115117. ⟨10.1016/j.celrep.2024.115117⟩.
• 2024
  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, Cyclin switch tailors a cell cycle variant to orchestrate multiciliogenesis., Cell Rep 2024 Dec; (): 115103.
• 2024
  Espinosa E, Challita J, Desfontaines JM, Possoz C, Val ME, Mazel D, Marbouty M, Koszul R, Galli E, Barre FX, MatP local enrichment delays segregation independently of tetramer formation and septal anchoring in Vibrio cholerae., Nat Commun 2024 Nov; 15(1): 9893.
• 2024
  Dumont A, Mendiboure N, Savocco J, Anani L, Moreau P, Thierry A, Modolo L, Jost D, Piazza A, Mechanism of homology search expansion during recombinational DNA break repair in Saccharomyces cerevisiae., Mol Cell 2024 Sep; 84(17): 3237-3253.e6.
• 2024
  Nathaniel Burman, Svetlana Belukhina, Florence Depardieu, Royce Wilkinson, Mikhail Skutel, Andrew Santiago-Frangos, Ava Graham, Alexei Livenskyi, Anna Chechenina, Natalia Morozova, Trevor Zahl, William Henriques, Murat Buyukyoruk, Christophe Rouillon, Baptiste Saudemont, Lena Shyrokova, Tatsuaki Kurata, Vasili Hauryliuk, Konstantin Severinov, Justine Groseille, Agnès Thierry, Romain Koszul, Florian Tesson, Aude Bernheim, David Bikard, Blake Wiedenheft, Artem Isaev, A virally encoded tRNA neutralizes the PARIS antiviral defence system, Nature, 2024, 634 (8033), pp.424-431. ⟨10.1038/s41586-024-07874-3⟩.
• 2024
  Schiffer PH, Natsidis P, Leite DJ, Robertson HE, Lapraz F, Marlétaz F, Fromm B, Baudry L, Simpson F, Høye E, Zakrzewski AC, Kapli P, Hoff KJ, Müller S, Marbouty M, Marlow H, Copley RR, Koszul R, Sarkies P, Telford MJ, Insights into early animal evolution from the genome of the xenacoelomorph worm Xenoturbella bocki., Elife 2024 Aug; 13(): .
• 2024
  Serizay J, Koszul R, Epigenomics coverage data extraction and aggregation in R with tidyCoverage., Bioinformatics 2024 Aug; 40(8): .
• 2024
  Bignaud A, Koszul R, [Transcription: The backbone of bacterial chromosome architecture]., Med Sci (Paris) 2024 May; 40(5): 412-413.
• 2024
  Forest T, Achaz G, Marbouty M, Bignaud A, Thierry A, Koszul R, Milhes M, Lledo J, Pons JM, Fuchs J, Chromosome-level genome assembly of the European green woodpecker Picus viridis., G3 (Bethesda) 2024 Mar; (): .
• 2024
  Bastié N, Chapard C, Cournac A, Nejmi S, Mboumba H, Gadal O, Thierry A, Beckouët F, Koszul R, Sister chromatid cohesion halts DNA loop expansion., Mol Cell 2024 Mar; 84(6): 1139-1148.e5.
• 2024
  Legrand S, Saifudeen A, Bordelet H, Vernerey J, Guille A, Bignaud A, Thierry A, Acquaviva L, Gaudin M, Sanchez A, Johnson D, Friedrich A, Schacherer J, Neale MJ, Borde V, Koszul R, Llorente B, Absence of chromosome axis protein recruitment prevents meiotic recombination chromosome-wide in the budding yeast Lachancea kluyveri., Proc Natl Acad Sci U S A 2024 Mar; 121(12): e2312820121.
• 2024
  Serizay J, Matthey-Doret C, Bignaud A, Baudry L, Koszul R, Orchestrating chromosome conformation capture analysis with Bioconductor., Nat Commun 2024 Feb; 15(1): 1072.
• 2024
  Barcia-Cruz R, Goudenège D, Moura de Sousa JA, Piel D, Marbouty M, Rocha EPC, Le Roux F, Phage-inducible chromosomal minimalist islands (PICMIs), a novel family of small marine satellites of virulent phages., Nat Commun 2024 Jan; 15(1): 664.
• 2024
  Bignaud A, Cockram C, Borde C, Groseille J, Allemand E, Thierry A, Marbouty M, Mozziconacci J, Espéli O, Koszul R, Transcription-induced domains form the elementary constraining building blocks of bacterial chromosomes., Nat Struct Mol Biol 2024 Jan; (): .
• 2023
  Schindler D, Walker RSK, Jiang S, Brooks AN, Wang Y, Müller CA, Cockram C, Luo Y, García A, Schraivogel D, Mozziconacci J, Pena N, Assari M, Sánchez Olmos MDC, Zhao Y, Ballerini A, Blount BA, Cai J, Ogunlana L, Liu W, Jönsson K, Abramczyk D, Garcia-Ruiz E, Turowski TW, Swidah R, Ellis T, Pan T, Antequera F, Shen Y, Nieduszynski CA, Koszul R, Dai J, Steinmetz LM, Boeke JD, Cai Y, Design, construction, and functional characterization of a tRNA neochromosome in yeast., Cell 2023 Nov; 186(24): 5237-5253.e22.
• 2023
  Luo J, Vale-Silva LA, Raghavan AR, Mercy G, Heldrich J, Sun X, Li MK, Zhang W, Agmon N, Yang K, Cai J, Stracquadanio G, Thierry A, Zhao Y, Coelho C, McCulloch LH, Lauer S, , Kaback DB, Bader JS, Mitchell LA, Mozziconacci J, Koszul R, Hochwagen A, Boeke JD, Synthetic chromosome fusion: Effects on mitotic and meiotic genome structure and function., Cell Genom 2023 Nov; 3(11): 100439.
• 2023
  Yáñez-Cuna FO, Koszul R, Insights in bacterial genome folding., Curr Opin Struct Biol 2023 Oct; 82(): 102679.
• 2023
  Lamy-Besnier Q, Bignaud A, Garneau JR, Titecat M, Conti DE, Von Strempel A, Monot M, Stecher B, Koszul R, Debarbieux L, Marbouty M, Chromosome folding and prophage activation reveal specific genomic architecture for intestinal bacteria., Microbiome 2023 May; 11(1): 111.
• 2022
  Boutet I, Alves Monteiro HJ, Baudry L, Takeuchi T, Bonnivard E, Billoud B, Farhat S, Gonzales-Araya R, Salaun B, Andersen AC, Toullec JY, Lallier FH, Flot JF, Guiglielmoni N, Guo X, Li C, Allam B, Pales-Espinosa E, Hemmer-Hansen J, Moreau P, Marbouty M, Koszul R, Tanguy A, Chromosomal assembly of the flat oyster (Ostrea edulis L.) genome as a new genetic resource for aquaculture., Evol Appl 2022 Nov; 15(11): 1730-1748.
• 2022
  Kumar S, Schmitt C, Gorgette O, Marbouty M, Duchateau M, Giai Gianetto Q, Matondo M, Guigner JM, De Reuse H, , Bacterial Membrane Vesicles as a Novel Strategy for Extrusion of Antimicrobial Bismuth Drug in Helicobacter pylori., mBio 2022 Oct; 13(5): e0163322.
• 2022
  Garcia-Luis J, Bordelet H, Thierry A, Koszul R, Aragon L, , Depletion or cleavage of cohesin during anaphase differentially affects chromatin structure and segregation., Elife 2022 Oct; 11(): .
• 2022
  Matthey-Doret C, Colp MJ, Escoll P, Thierry A, Moreau P, Curtis B, Sahr T, Sarrasin M, Gray MW, Lang BF, Archibald JM, Buchrieser C, Koszul R, , Chromosome-scale assemblies of Acanthamoeba castellanii genomes provide insights into Legionella pneumophila infection-related chromatin reorganization., Genome Res 2022 Sep; (): .
• 2022
  Lazar-Stefanita L, Luo J, Montagne R, Thierry A, Sun X, Mercy G, Mozziconacci J, Koszul R, Boeke JD, , Karyotype engineering reveals spatio-temporal control of replication firing and gene contacts., Cell Genom 2022 Aug; 2(8): None.
• 2022
  Bastié N, Chapard C, Dauban L, Gadal O, Beckouët F, Koszul R, , Smc3 acetylation, Pds5 and Scc2 control the translocase activity that establishes cohesin-dependent chromatin loops., Nat Struct Mol Biol 2022 Jun; 29(6): 575-585.
• 2022
  Conin B, Billault-Chaumartin I, El Sayyed H, Quenech'Du N, Cockram C, Koszul R, Espéli O, , Extended sister-chromosome catenation leads to massive reorganization of the E. coli genome., Nucleic Acids Res 2022 03; 50(5): 2635-2650.
• 2022
  Dias JD, Sarica N, Cournac A, Koszul R, Neuveut C, , Crosstalk between Hepatitis B Virus and the 3D Genome Structure., Viruses 2022 02; 14(2): .
• 2022
  Matthey-Doret C, Baudry L, Mortaza S, Moreau P, Koszul R, Cournac A, , Normalization of Chromosome Contact Maps: Matrix Balancing and Visualization., Methods Mol Biol 2022 ; 2301(): 1-15.
• 2022
  Marbouty M, Koszul R, , Metagenomes Binning Using Proximity-Ligation Data., Methods Mol Biol 2022 ; 2301(): 163-181.
• 2021
  Pelleau S, Woudenberg T, Rosado J, Donnadieu F, Garcia L, Obadia T, Gardais S, Elgharbawy Y, Velay A, Gonzalez M, Nizou JY, Khelil N, Zannis K, Cockram C, Merkling SH, Meola A, Kerneis S, Terrier B, de Seze J, Planas D, Schwartz O, Dejardin F, Petres S, von Platen C, Pellerin SF, Arowas L, de Facci LP, Duffy D, Cheallaigh CN, Dunne J, Conlon N, Townsend L, Duong V, Auerswald H, Pinaud L, Tondeur L, Backovic M, Hoen B, Fontanet A, Mueller I, Fafi-Kremer S, Bruel T, White M, Kinetics of the Severe Acute Respiratory Syndrome Coronavirus 2 Antibody Response and Serological Estimation of Time Since Infection., J Infect Dis 2021 Nov; 224(9): 1489-1499.
• 2021
  Piazza A, Bordelet H, Dumont A, Thierry A, Savocco J, Girard F, Koszul R, , Cohesin regulates homology search during recombinational DNA repair., Nat Cell Biol 2021 Nov; 23(11): 1176-1186.
• 2021
  Simion P, Narayan J, Houtain A, Derzelle A, Baudry L, Nicolas E, Arora R, Cariou M, Cruaud C, Gaudray FR, Gilbert C, Guiglielmoni N, Hespeels B, Kozlowski DKL, Labadie K, Limasset A, Llirós M, Marbouty M, Terwagne M, Virgo J, Cordaux R, Danchin EGJ, Hallet B, Koszul R, Lenormand T, Flot JF, Van Doninck K, , Chromosome-level genome assembly reveals homologous chromosomes and recombination in asexual rotifer Adineta vaga., Sci Adv 2021 Oct; 7(41): eabg4216.
• 2021
  Gauthier J, Boulain H, van Vugt JJFA, Baudry L, Persyn E, Aury JM, Noel B, Bretaudeau A, Legeai F, Warris S, Chebbi MA, Dubreuil G, Duvic B, Kremer N, Gayral P, Musset K, Josse T, Bigot D, Bressac C, Moreau S, Periquet G, Harry M, Montagné N, Boulogne I, Sabeti-Azad M, Maïbèche M, Chertemps T, Hilliou F, Siaussat D, Amselem J, Luyten I, Capdevielle-Dulac C, Labadie K, Merlin BL, Barbe V, de Boer JG, Marbouty M, Cônsoli FL, Dupas S, Hua-Van A, Le Goff G, Bézier A, Jacquin-Joly E, Whitfield JB, Vet LEM, Smid HM, Kaiser L, Koszul R, Huguet E, Herniou EA, Drezen JM, , Author Correction: Chromosomal scale assembly of parasitic wasp genome reveals symbiotic virus colonization., Commun Biol 2021 Jul; 4(1): 940.
• 2021
  Cockram C, Thierry A, Koszul R, , Generation of gene-level resolution chromosome contact maps in bacteria and archaea., STAR Protoc 2021 Jun; 2(2): 100512.
• 2021
  Lamy-Besnier Q, Koszul R, Debarbieux L, Marbouty M, , Closed and High-Quality Bacterial Genome Sequences of the Oligo-Mouse-Microbiota Community., Microbiol Resour Announc 2021 Apr; 10(17): .
• 2021
  Marbouty M, Thierry A, Millot GA, Koszul R, , MetaHiC phage-bacteria infection network reveals active cycling phages of the healthy human gut., Elife 2021 Feb; 10(): .
• 2021
  Ruault M, Scolari VF, Lazar-Stefanita L, Hocher A, Loïodice I, Koszul R, Taddei A, , Sir3 mediates long-range chromosome interactions in budding yeast., Genome Res 2021 Feb; (): .
• 2021
  Rosado J, Pelleau S, Cockram C, Merkling SH, Nekkab N, Demeret C, Meola A, Kerneis S, Terrier B, Fafi-Kremer S, de Seze J, Bruel T, Dejardin F, Petres S, Longley R, Fontanet A, Backovic M, Mueller I, White MT, , Multiplex assays for the identification of serological signatures of SARS-CoV-2 infection: an antibody-based diagnostic and machine learning study., Lancet Microbe 2021 Feb; 2(2): e60-e69.
• 2021
  Gauthier J, Boulain H, van Vugt JJFA, Baudry L, Persyn E, Aury JM, Noel B, Bretaudeau A, Legeai F, Warris S, Chebbi MA, Dubreuil G, Duvic B, Kremer N, Gayral P, Musset K, Josse T, Bigot D, Bressac C, Moreau S, Periquet G, Harry M, Montagné N, Boulogne I, Sabeti-Azad M, Maïbèche M, Chertemps T, Hilliou F, Siaussat D, Amselem J, Luyten I, Capdevielle-Dulac C, Labadie K, Merlin BL, Barbe V, de Boer JG, Marbouty M, Cônsoli FL, Dupas S, Hua-Van A, Le Goff G, Bézier A, Jacquin-Joly E, Whitfield JB, Vet LEM, Smid HM, Kaiser L, Koszul R, Huguet E, Herniou EA, Drezen JM, , Chromosomal scale assembly of parasitic wasp genome reveals symbiotic virus colonization., Commun Biol 2021 Jan; 4(1): 104.
• 2020
  Cockram C, Thierry A, Gorlas A, Lestini R, Koszul R, , Euryarchaeal genomes are folded into SMC-dependent loops and domains, but lack transcription-mediated compartmentalization., Mol Cell 2021 02; 81(3): 459-472.e10.
• 2020
  Gaultney RA, Vincent AT, Lorioux C, Coppée JY, Sismeiro O, Varet H, Legendre R, Cockram CA, Veyrier FJ, Picardeau M, , 4-Methylcytosine DNA modification is critical for global epigenetic regulation and virulence in the human pathogen Leptospira interrogans., Nucleic Acids Res 2020 Dec; 48(21): 12102-12115.
• 2020
  Matthey-Doret C, Baudry L, Breuer A, Montagne R, Guiglielmoni N, Scolari V, Jean E, Campeas A, Chanut PH, Oriol E, Méot A, Politis L, Vigouroux A, Moreau P, Koszul R, Cournac A, , Computer vision for pattern detection in chromosome contact maps., Nat Commun 2020 11; 11(1): 5795.
• 2020
  Baudry L, Guiglielmoni N, Marie-Nelly H, Cormier A, Marbouty M, Avia K, Mie YL, Godfroy O, Sterck L, Cock JM, Zimmer C, Coelho SM, Koszul R, , instaGRAAL: chromosome-level quality scaffolding of genomes using a proximity ligation-based scaffolder., Genome Biol 2020 06; 21(1): 148.
• 2020
  Baudry L, Millot GA, Thierry A, Koszul R, Scolari VF, , Serpentine: a flexible 2D binning method for differential Hi-C analysis., Bioinformatics 2020 Jun; 36(12): 3645-3651.
• 2020
  Böhm K, Giacomelli G, Schmidt A, Imhof A, Koszul R, Marbouty M, Bramkamp M, , Chromosome organization by a conserved condensin-ParB system in the actinobacterium Corynebacterium glutamicum., Nat Commun 2020 Mar; 11(1): 1485.
• 2020
  Dauban L, Montagne R, Thierry A, Lazar-Stefanita L, Bastié N, Gadal O, Cournac A, Koszul R, Beckouët F, Regulation of Cohesin-Mediated Chromosome Folding by Eco1 and Other Partners, Mol. Cell 2020 Jan;.
• 2019
  Nollmann M, Koszul R, Perspectives on Chromosome Organization, J. Mol. Biol. 2019 Dec;.
• 2019
  Garcia-Luis J, Lazar-Stefanita L, Gutierrez-Escribano P, Thierry A, Cournac A, García A, González S, Sánchez M, Jarmuz A, Montoya A, Dore M, Kramer H, Karimi MM, Antequera F, Koszul R, Aragon L, FACT mediates cohesin function on chromatin, Nat. Struct. Mol. Biol. 2019 Oct;26(10):970-979.
• 2019
  Baudry L, Foutel-Rodier T, Thierry A, Koszul R, Marbouty M, MetaTOR: A Computational Pipeline to Recover High-Quality Metagenomic Bins From Mammalian Gut Proximity-Ligation (meta3C) Libraries, Front Genet 2019;10:753.
• 2019
  Guérin TM, Béneut C, Barinova N, López V, Lazar-Stefanita L, Deshayes A, Thierry A, Koszul R, Dubrana K, Marcand S, Condensin-Mediated Chromosome Folding and Internal Telomeres Drive Dicentric Severing by Cytokinesis, Mol. Cell 2019 07;75(1):131-144.e3.
• 2019
  Piazza A, Heyer WD, Moving forward one step back at a time: reversibility during homologous recombination, Curr. Genet. 2019 May;.
• 2019
  Piazza A, Shah SS, Wright WD, Gore SK, Koszul R, Heyer WD, Dynamic Processing of Displacement Loops during Recombinational DNA Repair, Mol. Cell 2019 03;73(6):1255-1266.e4.
• 2018
  Piazza A, Heyer WD, Homologous Recombination and the Formation of Complex Genomic Rearrangements, Trends Cell Biol. 2019 Feb;29(2):135-149.
• 2018
  Moreau P, Cournac A, Palumbo GA, Marbouty M, Mortaza S, Thierry A, Cairo S, Lavigne M, Koszul R, Neuveut C, , Tridimensional infiltration of DNA viruses into the host genome shows preferential contact with active chromatin., Nat Commun 2018 Oct; 9(1): 4268.
• 2018
  Baudement MO, Cournac A, Court F, Seveno M, Parrinello H, Reynes C, Sabatier R, Bouschet T, Yi Z, Sallis S, Tancelin M, Rebouissou C, Cathala G, Lesne A, Mozziconacci J, Journot L, Forné T, High-salt-recovered sequences are associated with the active chromosomal compartment and with large ribonucleoprotein complexes including nuclear bodies, Genome Res. 2018 Oct;.
• 2018
  Foutel-Rodier T, Thierry A, Koszul R, Marbouty M, Generation of a Metagenomics Proximity Ligation 3C Library of a Mammalian Gut Microbiota, Meth. Enzymol. 2018;612:183-195.
• 2018
  Scolari VF, Mercy G, Koszul R, Lesne A, Mozziconacci J, Kinetic Signature of Cooperativity in the Irreversible Collapse of a Polymer, Phys. Rev. Lett. 2018 Aug;121(5):057801.
• 2018
  Muller H, Scolari VF, Agier N, Piazza A, Thierry A, Mercy G, Descorps-Declere S, Lazar-Stefanita L, Espeli O, Llorente B, Fischer G, Mozziconacci J, Koszul R, Characterizing meiotic chromosomes’ structure and pairing using a designer sequence optimized for Hi-C, Mol. Syst. Biol. 2018 07;14(7):e8293.
• 2018
  Piazza A1,2, Heyer WD1, Multi-Invasion-Induced Rearrangements as a Pathway for Physiological and Pathological Recombination, Bioessays. 2018 May;40(5):e1700249..
• 2018
  Piazza A, Koszul R, Heyer WD, A Proximity Ligation-Based Method for Quantitative Measurement of D-Loop Extension in S. cerevisiae, Meth. Enzymol. 2018;601:27-44.
• 2018
  Lioy VS*, Cournac A*, Marbouty M, Duigou S, Mozziconacci J, Espéli O, Boccard F, Koszul R, Multiscale Structuring of the E. coli Chromosome by Nucleoid-Associated and Condensin Proteins, Cell 2018 Jan;.
• 2017
  Lazar-Stefanita L, Scolari VF, Mercy G, Muller H, Guérin TM, Thierry A, Mozziconacci J, Koszul R, Cohesins and condensins orchestrate the 4D dynamics of yeast chromosomes during the cell cycle, EMBO J. 2017 09;36(18):2684-2697.
• 2017
  Jourdier E, Baudry L, Poggi-Parodi D, Vicq Y, Koszul R, Margeot A, Marbouty M, Bidard F, Proximity ligation scaffolding and comparison of two Trichoderma reesei strains genomes, Biotechnol Biofuels 2017;10:151.
• 2017
  Mercy G, Mozziconacci J, Scolari VF, Yang K, Zhao G, Thierry A, Luo Y, Mitchell LA, Shen M, Shen Y, Walker R, Zhang W, Wu Y, Xie ZX, Luo Z, Cai Y, Dai J, Yang H, Yuan YJ, Boeke JD, Bader JS, Muller H, Koszul R, 3D organization of synthetic and scrambled chromosomes, Science 2017 03;355(6329).
• 2017
  Shen Y, Wang Y, Chen T, Gao F, Gong J, Abramczyk D, Walker R, Zhao H, Chen S, Liu W, Luo Y, Müller CA, Paul-Dubois-Taine A, Alver B, Stracquadanio G, Mitchell LA, Luo Z, Fan Y, Zhou B, Wen B, Tan F, Wang Y, Zi J, Xie Z, Li B, Yang K, Richardson SM, Jiang H, French CE, Nieduszynski CA, Koszul R, Marston AL, Yuan Y, Wang J, Bader JS, Dai J, Boeke JD, Xu X, Cai Y, Yang H, Deep functional analysis of synII, a 770-kilobase synthetic yeast chromosome, Science 2017 Mar;355(6329).
• 2017
  Marbouty M, Baudry L, Cournac A, Koszul R, Scaffolding bacterial genomes and probing host-virus interactions in gut microbiome by proximity ligation (chromosome capture) assay, Sci Adv 2017 Feb;3(2):e1602105.
• 2017
  Marbouty M, Koszul R, Generation and Analysis of Chromosomal Contact Maps of Bacteria, Methods Mol. Biol. 2017;1624:75-84.
• 2016
  Koszul R, Beyond the bounds of evolution: Synthetic chromosomes… How and what for?, C. R. Biol. 2016 Jun;.
• 2016
  Thierry A, Khanna V, Dujon B, Massive Amplification at an Unselected Locus Accompanies Complex Chromosomal Rearrangements in Yeast, G3 (Bethesda) 2016 05;6(5):1201-15.
• 2016
  Val ME, Marbouty M, de Lemos Martins F, Kennedy SP, Kemble H, Bland MJ, Possoz C, Koszul R, Skovgaard O, Mazel D, A checkpoint control orchestrates the replication of the two chromosomes of Vibrio cholerae., Sci Adv 2016 Apr; 2(4): e1501914.
• 2016
  Maya Spichal, Alice Brion, Sébastien Herbert, Axel Cournac, Martial Marbouty, Christophe Zimmer, Romain Koszul, Emmanuelle Fabre, Evidence for actin dual role in regulating chromosome organization and dynamics in yeast, J Cell Sci 2016 : doi: 10.1242/jcs.175745.
• 2016
  Cournac A, Marbouty M, Mozziconacci J, Koszul R, Generation and Analysis of Chromosomal Contact Maps of Yeast Species, Methods Mol Biol. 2016;1361:227-45.
• 2015
  Cournac A, Koszul R, Mozziconacci J, The 3D folding of metazoan genomes correlates with the association of similar repetitive elements, Nucleic Acids Res. 2015 Nov;.
• 2015
  Marbouty M, Koszul R, Metagenome Analysis Exploiting High-Throughput Chromosome Conformation Capture (3C) Data, Trends Genet. 2015 Nov;.
• 2015
  Heloise Muller, Romain Koszul, Conception et synthèse de néochromosomes, 2015;17(4):228-236. doi:10.1684/mte.2015.0574.
• 2015
  Guidi M, Ruault M, Marbouty M, Loïodice I, Cournac A, Billaudeau C, Hocher A, Mozziconacci J, Koszul R, Taddei A, , Spatial reorganization of telomeres in long-lived quiescent cells., Genome Biol 2015 Sep; 16(1): 206.
• 2015
  Descorps-Declère S, Saguez C, Cournac A, Marbouty M, Rolland T, Ma L, Bouchier C, Moszer I, Dujon B, Koszul R, Richard GF, Genome-wide replication landscape of Candida glabrata, BMC Biol. 2015 Sep;13:69.
• 2015
  Mozziconacci J, Koszul R, Filling the gap: Micro-C accesses the nucleosomal fiber at 100-1000 bp resolution, Genome Biol. 2015;16(1):169.
• 2015
  Flot JF, Marie-Nelly H, Koszul R, Contact genomics: scaffolding and phasing (meta)genomes using chromosome 3D physical signatures, FEBS Lett. 2015 Apr;.
• 2015
  Thierry A, Khanna V, Créno S, Lafontaine I, Ma L, Bouchier C, Dujon B, Macrotene chromosomes provide insights to a new mechanism of high-order gene amplification in eukaryotes, Nat Commun 2015 Jan;6:6154.
• 2015
  Marbouty M, Le Gall A, Cattoni DI, Cournac A, Koh A, Fiche JB, Mozziconacci J, Murray H, Koszul R, Nollmann M, Condensin- and Replication-Mediated Bacterial Chromosome Folding and Origin Condensation Revealed by Hi-C and Super-resolution Imaging, Mol. Cell 2015 Aug;59(4):588-602.
• 2014
  Marie-Nelly H, Marbouty M, Cournac A, Flot JF, Liti G, Parodi DP, Syan S, Guillén N, Margeot A, Zimmer C, Koszul R, , High-quality genome (re)assembly using chromosomal contact data., Nat Commun 2014 Dec; 5(): 5695.
• 2014
  Marbouty M, Cournac A, Flot JF, Marie-Nelly H, Mozziconacci J, Koszul R, Metagenomic chromosome conformation capture (meta3C) unveils the diversity of chromosome organization in microorganisms, Elife 2014;3:e03318.
• 2014
  Lesne A, Riposo J, Roger P, Cournac A, Mozziconacci J, 3D genome reconstruction from chromosomal contacts, Nat. Methods 2014 Nov;11(11):1141-3.
• 2014
  Hespeels B, Knapen M, Hanot-Mambres D, Heuskin AC, Pineux F, LUCAS S, Koszul R, Van Doninck K, Gateway to genetic exchange? DNA double-strand breaks in the bdelloid rotifer Adineta vaga submitted to desiccation, J. Evol. Biol. 2014 Jul;27(7):1334-45.
• 2014
  Marie-Nelly H, Marbouty M, Cournac A, Liti G, Fischer G, Zimmer C, Koszul R, , Filling annotation gaps in yeast genomes using genome-wide contact maps., Bioinformatics 2014 Aug; 30(15): 2105-13.
• 2014
  Annaluru N, Muller H, Mitchell LA, Ramalingam S, Stracquadanio G, Richardson SM, Dymond JS, Kuang Z, Scheifele LZ, Cooper EM, Cai Y, Zeller K, Agmon N, Han JS, Hadjithomas M, Tullman J, Caravelli K, Cirelli K, Guo Z, London V, Yeluru A, Murugan S, Kandavelou K, Agier N, Fischer G, Yang K, Martin JA, Bilgel M, Bohutski P, Boulier KM, Capaldo BJ, Chang J, Charoen K, Choi WJ, Deng P, DiCarlo JE, Doong J, Dunn J, Feinberg JI, Fernandez C, Floria CE, Gladowski D, Hadidi P, Ishizuka I, Jabbari J, Lau CY, Lee PA, Li S, Lin D, Linder ME, Ling J, Liu J, Liu J, London M, Ma H, Mao J, McDade JE, McMillan A, Moore AM, Oh WC, Ouyang Y, Patel R, Paul M, Paulsen LC, Qiu J, Rhee A, Rubashkin MG, Soh IY, Sotuyo NE, Srinivas V, Suarez A, Wong A, Wong R, Xie WR, Xu Y, Yu AT, Koszul R, Bader JS, Boeke JD, Chandrasegaran S, Total synthesis of a functional designer eukaryotic chromosome, Science 2014 Apr;344(6179):55-8.
• 2014
  Marbouty M, Ermont C, Dujon B, Richard GF, Koszul R, Purification of G1 daughter cells from different Saccharomycetes species through an optimized centrifugal elutriation procedure, Yeast 2014 May;31(5):159-66.
• 2014
  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, , The complete genome of Blastobotrys (Arxula) adeninivorans LS3 – a yeast of biotechnological interest., Biotechnol Biofuels 2014 ; 7(): 66.
• 2013
  Flot JF, Hespeels B, Li X, Noel B, Arkhipova I, Danchin EG, Hejnol A, Henrissat B, Koszul R, Aury JM, Barbe V, Barthélémy RM, Bast J, Bazykin GA, Chabrol O, Couloux A, Da Rocha M, Da Silva C, Gladyshev E, Gouret P, Hallatschek O, Hecox-Lea B, Labadie K, Lejeune B, Piskurek O, Poulain J, Rodriguez F, Ryan JF, Vakhrusheva OA, Wajnberg E, Wirth B, Yushenova I, Kellis M, Kondrashov AS, Mark Welch DB, Pontarotti P, Weissenbach J, Wincker P, Jaillon O, Van Doninck K, Genomic evidence for ameiotic evolution in the bdelloid rotifer Adineta vaga, Nature 2013 Aug;500(7463):453-7.
• 2012
  Wong H, Marie-Nelly H, Herbert S, Carrivain P, Blanc H, Koszul R, Fabre E, Zimmer C, A predictive computational model of the dynamic 3D interphase yeast nucleus, Curr. Biol. 2012 Oct;22(20):1881-90.
• 2012
  Cournac A, Marie-Nelly H, Marbouty M, Koszul R, Mozziconacci J, Normalization of a chromosomal contact map, BMC Genomics 2012;13:436.
• 2012
  Janssens FA, Koszul R, Zickler D, The chiasmatype theory. A new interpretation of the maturation divisions. 1909, Genetics 2012 Jun;191(2):319-46.
• 2012
  Koszul R, Meselson M, Van Doninck K, Vandenhaute J, Zickler D, The centenary of Janssens’s chiasmatype theory, Genetics 2012 Jun;191(2):309-17.
• 2012
  Louis VL, Despons L, Friedrich A, Martin T, Durrens P, Casarégola S, Neuvéglise C, Fairhead C, Marck C, Cruz JA, Straub ML, Kugler V, Sacerdot C, Uzunov Z, Thierry A, Weiss S, Bleykasten C, De Montigny J, Jacques N, Jung P, Lemaire M, Mallet S, Morel G, Richard GF, Sarkar A, Savel G, Schacherer J, Seret ML, Talla E, Samson G, Jubin C, Poulain J, Vacherie B, Barbe V, Pelletier E, Sherman DJ, Westhof E, Weissenbach J, Baret PV, Wincker P, Gaillardin C, Dujon B, Souciet JL, Pichia sorbitophila, an Interspecies Yeast Hybrid, Reveals Early Steps of Genome Resolution After Polyploidization, G3 (Bethesda) 2012 Feb;2(2):299-311.
• 2009
  Thierry A, Dujon B, Richard GF, Megasatellites: a new class of large tandem repeats discovered in the pathogenic yeast Candida glabrata, Cell. Mol. Life Sci. 2010 Mar;67(5):671-6.
• 2009
  Koszul R, Kleckner N, Dynamic chromosome movements during meiosis: a way to eliminate unwanted connections?, Trends Cell Biol. 2009 Dec;19(12):716-24.
• 2009
  Koszul R, Kameoka S, Weiner BM, Real-time imaging of meiotic chromosomes in Saccharomyces cerevisiae, Methods Mol. Biol. 2009;558:81-9.
• 2008
  Muller H, Thierry A, Coppée JY, Gouyette C, Hennequin C, Sismeiro O, Talla E, Dujon B, Fairhead C, Genomic polymorphism in the population of Candida glabrata: gene copy-number variation and chromosomal translocations, Fungal Genet. Biol. 2009 Mar;46(3):264-76.
• 2008
  Koszul R, Fischer G, A prominent role for segmental duplications in modeling eukaryotic genomes, C. R. Biol. 2009 Feb-Mar;332(2-3):254-66.
• 2008
  Wanat JJ, Kim KP, Koszul R, Zanders S, Weiner B, Kleckner N, Alani E, Csm4, in collaboration with Ndj1, mediates telomere-led chromosome dynamics and recombination during yeast meiosis, PLoS Genet. 2008;4(9):e1000188.
• 2008
  Thierry A, Bouchier C, Dujon B, Richard GF, Megasatellites: a peculiar class of giant minisatellites in genes involved in cell adhesion and pathogenicity in Candida glabrata, Nucleic Acids Res. 2008 Oct;36(18):5970-82.
• 2008
  Payen C, Koszul R, Dujon B, Fischer G, Segmental duplications arise from Pol32-dependent repair of broken forks through two alternative replication-based mechanisms, PLoS Genet. 2008;4(9):e1000175.
• 2008
  Koszul R, Kim KP, Prentiss M, Kleckner N, Kameoka S, Meiotic chromosomes move by linkage to dynamic actin cables with transduction of force through the nuclear envelope, Cell 2008 Jun;133(7):1188-201.
• 2006
  Koszul R, Dujon B, Fischer G, Stability of large segmental duplications in the yeast genome, Genetics 2006 Apr;172(4):2211-22.
• 2005
  Loeillet S, Palancade B, Cartron M, Thierry A, Richard GF, Dujon B, Doye V, Nicolas A, Genetic network interactions among replication, repair and nuclear pore deficiencies in yeast, DNA Repair (Amst.) 2005 Apr;4(4):459-68.
• 2004
  Dujon B, Sherman D, Fischer G, Durrens P, Casaregola S, Lafontaine I, De Montigny J, Marck C, Neuvéglise C, Talla E, Goffard N, Frangeul L, Aigle M, Anthouard V, Babour A, Barbe V, Barnay S, Blanchin S, Beckerich JM, Beyne E, Bleykasten C, Boisramé A, Boyer J, Cattolico L, Confanioleri F, De Daruvar A, Despons L, Fabre E, Fairhead C, Ferry-Dumazet H, Groppi A, Hantraye F, Hennequin C, Jauniaux N, Joyet P, Kachouri R, Kerrest A, Koszul R, Lemaire M, Lesur I, Ma L, Muller H, Nicaud JM, Nikolski M, Oztas S, Ozier-Kalogeropoulos O, Pellenz S, Potier S, Richard GF, Straub ML, Suleau A, Swennen D, Tekaia F, Wésolowski-Louvel M, Westhof E, Wirth B, Zeniou-Meyer M, Zivanovic I, Bolotin-Fukuhara M, Thierry A, Bouchier C, Caudron B, Scarpelli C, Gaillardin C, Weissenbach J, Wincker P, Souciet JL, Genome evolution in yeasts, Nature 2004 Jul;430(6995):35-44.
• 2004
  Boyer J, Badis G, Fairhead C, Talla E, Hantraye F, Fabre E, Fischer G, Hennequin C, Koszul R, Lafontaine I, Ozier-Kalogeropoulos O, Ricchetti M, Richard GF, Thierry A, Dujon B, , Large-scale exploration of growth inhibition caused by overexpression of genomic fragments in Saccharomyces cerevisiae., Genome Biol 2004 ; 5(9): R72.
• 2003
  Koszul R, Caburet S, Dujon B, Fischer G, Eucaryotic genome evolution through the spontaneous duplication of large chromosomal segments, EMBO J. 2004 Jan;23(1):234-43.
• 2001
  Hennequin C, Thierry A, Richard GF, Lecointre G, Nguyen HV, Gaillardin C, Dujon B, Microsatellite typing as a new tool for identification of Saccharomyces cerevisiae strains, J. Clin. Microbiol. 2001 Feb;39(2):551-9.
• 1999
  Richard GF, Hennequin C, Thierry A, Dujon B, Trinucleotide repeats and other microsatellites in yeasts, Res. Microbiol. 1999 Nov-Dec;150(9-10):589-602.
• 1998
  Fairhead C, Thierry A, Denis F, Eck M, Dujon B, ‘Mass-murder’ of ORFs from three regions of chromosome XI from Saccharomyces cerevisiae, Gene 1998 Nov;223(1-2):33-46.
• 1998
  Tettelin H, Thierry A, Goffeau A, Dujon B, Physical mapping of chromosomes VII and XV of Saccharomyces cerevisiae at 3.5 kb average resolution to allow their complete sequencing, Yeast 1998 May;14(7):601-16.
• 1997
  Tettelin H, Agostoni Carbone ML, Albermann K, Albers M, Arroyo J, Backes U, Barreiros T, Bertani I, Bjourson AJ, Brückner M, Bruschi CV, Carignani G, Castagnoli L, Cerdan E, Clemente ML, Coblenz A, Coglievina M, Coissac E, Defoor E, Del Bino S, Delius H, Delneri D, de Wergifosse P, Dujon B, Kleine K, The nucleotide sequence of Saccharomyces cerevisiae chromosome VII, Nature 1997 May;387(6632 Suppl):81-4.
• 1997
  Dujon B, Albermann K, Aldea M, Alexandraki D, Ansorge W, Arino J, Benes V, Bohn C, Bolotin-Fukuhara M, Bordonné R, Boyer J, Camasses A, Casamayor A, Casas C, Chéret G, Cziepluch C, Daignan-Fornier B, Dang DV, de Haan M, Delius H, Durand P, Fairhead C, Feldmann H, Gaillon L, Kleine K, The nucleotide sequence of Saccharomyces cerevisiae chromosome XV, Nature 1997 May;387(6632 Suppl):98-102.
• 1995
  Thierry A, Gaillon L, Galibert F, Dujon B, Construction of a complete genomic library of Saccharomyces cerevisiae and physical mapping of chromosome XI at 3.7 kb resolution, Yeast 1995 Feb;11(2):121-35.
• 1994
  Dujon B, Alexandraki D, André B, Ansorge W, Baladron V, Ballesta JP, Banrevi A, Bolle PA, Bolotin-Fukuhara M, Bossier P, Bou G, Boyer J, Bultrago MJ, Cheret G, Colleaux L, Dalgnan-Fornler B, del Rey F, Dlon C, Domdey H, Düsterhoft A, Düsterhus S, Entlan KD, Erfle H, Esteban PF, Feldmann H, Fernandes L, Robo GM, Fritz C, Fukuhara H, Gabel C, Gaillon L, Carcia-Cantalejo JM, Garcia-Ramirez JJ, Gent NE, Ghazvini M, Goffeau A, Gonzaléz A, Grothues D, Guerreiro P, Hegemann J, Hewitt N, Hilger F, Hollenberg CP, Horaitis O, Indge KJ, Jacquier A, James CM, Jauniaux C, Jimenez A, Keuchel H, Kirchrath L, Kleine K, Kötter P, Legrain P, Liebl S, Louis EJ, Maia e Silva A, Marck C, Monnier AL, Möstl D, Müller S, Obermaier B, Oliver SG, Pallier C, Pascolo S, Pfeiffer F, Philippsen P, Planta RJ, Pohl FM, Pohl TM, Pöhlmann R, Portetelle D, Purnelle B, Puzos V, Ramezani Rad M, Rasmussen SW, Remacha M, Revuelta JL, Richard GF, Rieger M, Rodrigues-Pousada C, Rose M, Rupp T, Santos MA, Schwager C, Sensen C, Skala J, Soares H, Sor F, Stegemann J, Tettelin H, Thierry A, Tzermia M, Urrestarazu LA, van Dyck L, Van Vliet-Reedijk JC, Valens M, Vandenbo M, Vilela C, Vissers S, von Wettstein D, Voss H, Wiemann S, Xu G, Zimmermann J, Haasemann M, Becker I, Mewes HW, Complete DNA sequence of yeast chromosome XI, Nature 1994 Jun;369(6479):371-8.
• 1994
  Huang ME, Chuat JC, Thierry A, Dujon B, Galibert F, Construction of a cosmid contig and of an EcoRI restriction map of yeast chromosome X, DNA Seq. 1994;4(5):293-300.
• 1992
  Pascolo S, Ghazvini M, Boyer J, Colleaux L, Thierry A, Dujon B, The sequence of a 9.3 kb segment located on the left arm of the yeast chromosome XI reveals five open reading frames including the CCE1 gene and putative products related to MYO2 and to the ribosomal protein L10, Yeast 1992 Nov;8(11):987-95.
• 1992
  Oliver SG, van der Aart QJ, Agostoni-Carbone ML, Aigle M, Alberghina L, Alexandraki D, Antoine G, Anwar R, Ballesta JP, Benit P, The complete DNA sequence of yeast chromosome III, Nature 1992 May;357(6373):38-46.