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Department: Genomes and Genetics

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Dubois V, Pawlik A, Bories A, Le Moigne V, Sismeiro O, Legendre R, Varet H, Rodríguez-Ordóñez MDP, Gaillard JL, Coppée JY, Brosch R, Herrmann JL, Girard-Misguich F, Mycobacterium abscessus virulence traits unraveled by transcriptomic profiling in amoeba and macrophages, PLoS Pathog. 2019 Nov;15(11):e1008069.

Carballido Lopez A, Cunrath O, Forster A, Pérard J, Graulier G, Legendre R, Varet H, Sismeiro O, Perraud Q, Pesset B, Saint Auguste P, Bumann D, Mislin GLA, Coppee JY, Michaud-Soret I, Fechter P, Schalk IJ, Non-specific interference of cobalt with siderophore-dependent iron uptake pathways, Metallomics 2019 Oct;.

Scepanovic P, Hodel F, Mondot S, Partula V, Byrd A, Hammer C, Alanio C, Bergstedt J, Patin E, Touvier M, Lantz O, Albert ML, Duffy D, Quintana-Murci L, Fellay J, , A comprehensive assessment of demographic, environmental, and host genetic associations with gut microbiome diversity in healthy individuals, Microbiome 2019 Sep;7(1):130.

Tarantola A, Horwood PF, Goarant C, Bertrand S, Merilles OEA, Pedron T, Klement-Frutos E, Sansonetti P, Quintana-Murci L, Richard V, Counting Oceanians of Non-European, Non-Asian Descent (ONENA) in the South Pacific to Make Them Count in Global Health, Trop Med Infect Dis 2019 Aug;4(3).

Lopez M, Choin J, Sikora M, Siddle K, Harmant C, Costa HA, Silvert M, Mouguiama-Daouda P, Hombert JM, Froment A, Le Bomin S, Perry GH, Barreiro LB, Bustamante CD, Verdu P, Patin E, Quintana-Murci L, Genomic Evidence for Local Adaptation of Hunter-Gatherers to the African Rainforest, Curr. Biol. 2019 Sep;29(17):2926-2935.e4.

Hommel B, Sturny-Leclère A, Volant S, Veluppillai N, Duchateau M, Yu CH, Hourdel V, Varet H, Matondo M, Perfect JR, Casadevall A, Dromer F, Alanio A, Cryptococcus neoformans resists to drastic conditions by switching to viable but non-culturable cell phenotype, PLoS Pathog. 2019 Jul;15(7):e1007945.

Harrison GF, Sanz J, Boulais J, Mina MJ, Grenier JC, Leng Y, Dumaine A, Yotova V, Bergey CM, Nsobya SL, Elledge SJ, Schurr E, Quintana-Murci L, Perry GH, Barreiro LB, Natural selection contributed to immunological differences between hunter-gatherers and agriculturalists, Nat Ecol Evol 2019 Aug;3(8):1253-1264.

Denise R, Abby SS, Rocha EPC, Diversification of the type IV filament superfamily into machines for adhesion, protein secretion, DNA uptake, and motility, PLoS Biol. 2019 Jul;17(7):e3000390.

Negro V, Krin E, Aguilar Pierlé S, Chaze T, Giai Gianetto Q, Kennedy SP, Matondo M, Mazel D, Baharoglu Z, RadD Contributes to R-Loop Avoidance in Sub-MIC Tobramycin, MBio 2019 Jul;10(4).

Brodin P, Duffy D, Quintana-Murci L, A Call for Blood-In Human Immunology, Immunity 2019 Jun;50(6):1335-1336.

Zhang E, Khanna V, Dacheux E, Namane A, Doyen A, Gomard M, Turcotte B, Jacquier A, Fromont-Racine M, A specialised SKI complex assists the cytoplasmic RNA exosome in the absence of direct association with ribosomes, EMBO J. 2019 Jun;.

Galli E, Ferat JL, Desfontaines JM, Val ME, Skovgaard O, Barre FX, Possoz C, Replication termination without a replication fork trap, Sci Rep 2019 Jun;9(1):8315.

Silvert M, Quintana-Murci L, Rotival M, Impact and Evolutionary Determinants of Neanderthal Introgression on Transcriptional and Post-Transcriptional Regulation, Am. J. Hum. Genet. 2019 Jun;104(6):1241-1250.

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 May;.

Piazza A, Heyer WD, Moving forward one step back at a time: reversibility during homologous recombination, Curr. Genet. 2019 May;.

Van den Bossche A, Varet H, Sury A, Sismeiro O, Legendre R, Coppee JY, Mathys V, Ceyssens PJ, Transcriptional profiling of a laboratory and clinical Mycobacterium tuberculosis strain suggests respiratory poisoning upon exposure to delamanid, Tuberculosis (Edinb) 2019 Jul;117:18-23.

Bernheim A, Bikard D, Touchon M, Rocha EPC, A matter of background: DNA repair pathways as a possible cause for the sparse distribution of CRISPR-Cas systems in bacteria, Philos. Trans. R. Soc. Lond., B, Biol. Sci. 2019 May;374(1772):20180088.

Kerner G, Ramirez-Alejo N, Seeleuthner Y, Yang R, Ogishi M, Cobat A, Patin E, Quintana-Murci L, Boisson-Dupuis S, Casanova JL, Abel L, Homozygosity for P1104A underlies tuberculosis in about 1% of patients in a cohort of European ancestry, Proc. Natl. Acad. Sci. U.S.A. 2019 May;.

Partula V, Mondot S, Torres MJ, Kesse-Guyot E, Deschasaux M, Assmann K, Latino-Martel P, Buscail C, Julia C, Galan P, Hercberg S, Rouilly V, Thomas S, Quintana-Murci L, Albert ML, Duffy D, Lantz O, Touvier M, , Associations between usual diet and gut microbiota composition: results from the Milieu Intérieur cross-sectional study, Am. J. Clin. Nutr. 2019 May;109(5):1472-1483.

Barizien A, Suryateja Jammalamadaka MS, Amselem G, Baroud CN, Growing from a few cells: combined effects of initial stochasticity and cell-to-cell variability, J R Soc Interface 2019 Apr;16(153):20180935.

Rotival M, Quach H, Quintana-Murci L, Defining the genetic and evolutionary architecture of alternative splicing in response to infection, Nat Commun 2019 04;10(1):1671.

Nemat-Gorgani N, Guethlein LA, Henn BM, Norberg SJ, Chiaroni J, Sikora M, Quintana-Murci L, Mountain JL, Norman PJ, Parham P, Diversity of Killer Cell Ig-Like Receptor, HLA Class I, and Their Interactions in Seven Populations of Sub-Saharan Africans, J. Immunol. 2019 Mar;.

Tesina P, Heckel E, Cheng J, Fromont-Racine M, Buschauer R, Kater L, Beatrix B, Berninghausen O, Jacquier A, Becker T, Beckmann R, Structure of the 80S ribosome-Xrn1 nuclease complex, Nat. Struct. Mol. Biol. 2019 Apr;26(4):275-280.

Quintana-Murci L, Human Immunology through the Lens of Evolutionary Genetics, Cell 2019 Mar;177(1):184-199.

Laval G, Peyrégne S, Zidane N, Harmant C, Renaud F, Patin E, Prugnolle F, Quintana-Murci L, Recent Adaptive Acquisition by African Rainforest Hunter-Gatherers of the Late Pleistocene Sickle-Cell Mutation Suggests Past Differences in Malaria Exposure, Am. J. Hum. Genet. 2019 Mar;104(3):553-561.

Batista, L., Jouvion, G., Simon-Chazottes, D., Houzelstein, D., Burlen-Defranoux, O., Boissière, M., Tokuda,S., Zaverucha do Valle, T., Cumano, A., Flamand, M., Montagutelli, X. & Panthier, J.-J., HSA+ immature cardiomyocites persist in the adult heart and expand after ischemic injury, bioRxiv 545129; doi: https://doi.org/10.1101/545129.

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.

Bradley P, den Bakker HC, Rocha EPC, McVean G, Iqbal Z, Ultrafast search of all deposited bacterial and viral genomic data, Nat. Biotechnol. 2019 Feb;37(2):152-159.

Lopez-Igual R., Bernal-Bayard J., Rodriguez-Paton A., Ghigo J.-M., and Mazel D., Engineering synthetic toxin-intein weapons as specific antimicrobials, Nat. Biotechnol. 2019. In press.

Sart, S., Tomasi,R.F.-X., Barizien, A., Amselem, G., Cumano, A. & Baroud, C.N., Mapping structure and biological functions within mesenchymal bodies using microfluidics, bioRxiv 514158; doi: https://doi.org/10.1101/514158.

Weill FX, Domman D, Njamkepo E, Almesbahi AA, Naji M, Nasher SS, Rakesh A, Assiri AM, Sharma NC, Kariuki S, Pourshafie MR, Rauzier J, Abubakar A, Carter JY, Wamala JF, Seguin C, Bouchier C, Malliavin T, Bakhshi B, Abulmaali HHN, Kumar D, Njoroge SM, Malik MR, Kiiru J, Luquero FJ, Azman AS, Ramamurthy T, Thomson NR, Quilici ML, Genomic insights into the 2016-2017 cholera epidemic in Yemen, Nature 2019 Jan;.

Maffucci P, Bigio B, Rapaport F, Cobat A, Borghesi A, Lopez M, Patin E, Bolze A, Shang L, Bendavid M, Scott EM, Stenson PD, Cunningham-Rundles C, Cooper DN, Gleeson JG, Fellay J, Quintana-Murci L, Casanova JL, Abel L, Boisson B, Itan Y, Blacklisting variants common in private cohorts but not in public databases optimizes human exome analysis, Proc. Natl. Acad. Sci. U.S.A. 2019 Jan;116(3):950-959.

Martínez-Barricarte R, Markle JG, Ma CS, Deenick EK, Ramírez-Alejo N, Mele F, Latorre D, Mahdaviani SA, Aytekin C, Mansouri D, Bryant VL, Jabot-Hanin F, Deswarte C, Nieto-Patlán A, Surace L, Kerner G, Itan Y, Jovic S, Avery DT, Wong N, Rao G, Patin E, Okada S, Bigio B, Boisson B, Rapaport F, Seeleuthner Y, Schmidt M, Ikinciogullari A, Dogu F, Tanir G, Tabarsi P, Bloursaz MR, Joseph JK, Heer A, Kong XF, Migaud M, Lazarov T, Geissmann F, Fleckenstein B, Arlehamn CL, Sette A, Puel A, Emile JF, van de Vosse E, Quintana-Murci L, Di Santo JP, Abel L, Boisson-Dupuis S, Bustamante J, Tangye SG, Sallusto F, Casanova JL, Human IFN-γ immunity to mycobacteria is governed by both IL-12 and IL-23, Sci Immunol 2018 Dec;3(30).

Boisson-Dupuis S, Ramirez-Alejo N, Li Z, Patin E, Rao G, Kerner G, Lim CK, Krementsov DN, Hernandez N, Ma CS, Zhang Q, Markle J, Martinez-Barricarte R, Payne K, Fisch R, Deswarte C, Halpern J, Bouaziz M, Mulwa J, Sivanesan D, Lazarov T, Naves R, Garcia P, Itan Y, Boisson B, Checchi A, Jabot-Hanin F, Cobat A, Guennoun A, Jackson CC, Pekcan S, Caliskaner Z, Inostroza J, Costa-Carvalho BT, de Albuquerque JAT, Garcia-Ortiz H, Orozco L, Ozcelik T, Abid A, Rhorfi IA, Souhi H, Amrani HN, Zegmout A, Geissmann F, Michnick SW, Muller-Fleckenstein I, Fleckenstein B, Puel A, Ciancanelli MJ, Marr N, Abolhassani H, Balcells ME, Condino-Neto A, Strickler A, Abarca K, Teuscher C, Ochs HD, Reisli I, Sayar EH, El-Baghdadi J, Bustamante J, Hammarström L, Tangye SG, Pellegrini S, Quintana-Murci L, Abel L, Casanova JL, Tuberculosis and impaired IL-23-dependent IFN-γ immunity in humans homozygous for a common missense variant, Sci Immunol 2018 Dec;3(30).

Rendueles O, de Sousa JAM, Bernheim A, Touchon M, Rocha EPC, Genetic exchanges are more frequent in bacteria encoding capsules, PLoS Genet. 2018 12;14(12):e1007862.

Husquin LT, Rotival M, Fagny M, Quach H, Zidane N, McEwen LM, MacIsaac JL, Kobor MS, Aschard H, Patin E, Quintana-Murci L, Exploring the genetic basis of human population differences in DNA methylation and their causal impact on immune gene regulation, Genome Biol. 2018 12;19(1):222.

Duval M, Dar D, Carvalho F, Rocha EPC, Sorek R, Cossart P, HflXr, a homolog of a ribosome-splitting factor, mediates antibiotic resistance, Proc. Natl. Acad. Sci. U.S.A. 2018 12;115(52):13359-13364.

Henn BM, Quintana-Murci L, Editorial overview: The history, geography and adaptation of human genes: A tribute to L. Luca Cavalli-Sforza, Curr. Opin. Genet. Dev. 2018 Dec;53:iii-v.

Piazza A, Heyer WD, Homologous Recombination and the Formation of Complex Genomic Rearrangements, Trends Cell Biol. 2019 Feb;29(2):135-149.

Bergey CM, Lopez M, Harrison GF, Patin E, Cohen JA, Quintana-Murci L, Barreiro LB, Perry GH, Polygenic adaptation and convergent evolution on growth and cardiac genetic pathways in African and Asian rainforest hunter-gatherers, Proc. Natl. Acad. Sci. U.S.A. 2018 Nov;115(48):E11256-E11263.

de Lemos Martins F, Fournes F, Mazzuoli MV, Mazel D, Val ME, Vibrio cholerae chromosome 2 copy number is controlled by the methylation-independent binding of its monomeric initiator to the chromosome 1 crtS site, Nucleic Acids Res. 2018 Nov;46(19):10145-10156.

Fourati et al, A crowdsourced analysis to identify ab initio molecular signatures predictive of susceptibility to viral infection., Nat Commun. 2018 Oct 24;9(1):4418.

McEwen LM, Jones MJ, Lin DTS, Edgar RD, Husquin LT, MacIsaac JL, Ramadori KE, Morin AM, Rider CF, Carlsten C, Quintana-Murci L, Horvath S, Kobor MS, Systematic evaluation of DNA methylation age estimation with common preprocessing methods and the Infinium MethylationEPIC BeadChip array, Clin Epigenetics 2018 Oct;10(1):123.

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.

Freiherr von Boeselager R, Pfeifer E, Frunzke J, Cytometry meets next-generation sequencing – RNA-Seq of sorted subpopulations reveals regional replication and iron-triggered prophage induction in Corynebacterium glutamicum, Sci Rep 2018 Oct;8(1):14856.

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;.

Lahbib S, Leblond CS, Hamza M, Regnault B, Lemée L, Mathieu A, Jaouadi H, Mkaouar R, Youssef-Turki IB, Belhadj A, Kraoua I, Bourgeron T, Abdelhak S, Homozygous 2p11.2 deletion supports the implication of ELMOD3 in hearing loss and reveals the potential association of CAPG with ASD/ID etiology, J. Appl. Genet. 2019 Feb;60(1):49-56.

Dehecq M, Decourty L, Namane A, Proux C, Kanaan J, Le Hir H, Jacquier A, Saveanu C, Nonsense-mediated mRNA decay involves two distinct Upf1-bound complexes, EMBO J. 2018 Oct;.

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.

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

Louka P, Vasudevan KK, Guha M, Joachimiak E, Wloga D, Tomasi RF, Baroud CN, Dupuis-Williams P, Galati DF, Pearson CG, Rice LM, Moresco JJ, Yates JR, Jiang YY, Lechtreck K, Dentler W, Gaertig J, Proteins that control the geometry of microtubules at the ends of cilia, J. Cell Biol. 2018 Sep;.

Dimitri Desvillechabrol, Christiane Bouchier, Sean Kennedy, Thomas Cokelaer, Sequana Coverage: Detection and Characterization of Genomic Variations using Running Median and Mixture Models, GigaScience, giy110, https://doi.org/10.1093/gigascience/giy110.

Clave E, Araujo IL, Alanio C, Patin E, Bergstedt J, Urrutia A, Lopez-Lastra S, Li Y, Charbit B, MacPherson CR, Hasan M, Melo-Lima BL, Douay C, Saut N, Germain M, Trégouët DA, Morange PE, Fontes M, Duffy D, Di Santo JP, Quintana-Murci L, Albert ML, Toubert A, , Human thymopoiesis is influenced by a common genetic variant within the locus, Sci Transl Med 2018 Sep;10(457).

Hugo Varet, Jean-Yves Coppée, checkMyIndex: a web-based R/Shiny interface for choosing compatible sequencing indexes, Bioinformatics, 2018.

Stoddard D, Zhao Y, Bayless BA, Gui L, Louka P, Dave D, Suryawanshi S, Tomasi RF, Dupuis-Williams P, Baroud CN, Gaertig J, Winey M, Nicastro D, Tetrahymena RIB72A and RIB72B are Microtubule Inner Proteins in the ciliary doublet microtubules, Mol. Biol. Cell 2018 Aug;:mbcE18060405.

Maataoui, Naouale; Mayet, Aurélie; Duron, Sandrine; Delacour, Hervé; Mentré, France; Laouenan, Cédric; Desvillechabrol, Dimitri; Cokelaer, Thomas; Meynard, Jean Baptiste; Ducher, Annie, High Acquisition Rate of ESBL-Producing Enterobacteriaceae among French Military Personnel on Mission Abroad, without Evidence of Inter-Individual Transmission., Maataoui et al, Clinical Microbiology and Infection, 2018.

Patin E, Quintana-Murci L, The demographic and adaptive history of central African hunter-gatherers and farmers, Curr. Opin. Genet. Dev. 2018 Aug;53:90-97.

Fournes F, Val ME, Skovgaard O, Mazel D, Replicate Once Per Cell Cycle: Replication Control of Secondary Chromosomes, Front Microbiol 2018;9:1833.

Angebault C, Ghozlane A, Volant S, Botterel F, d'Enfert C, Bougnoux ME, Combined bacterial and fungal intestinal microbiota analyses: Impact of storage conditions and DNA extraction protocols, PLoS ONE 2018;13(8):e0201174.

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.

Tarantola A, Horwood P, Richard V, Quintana-Murci L, Host and viral genetic diversity can help explain mortality during the 1918-21 influenza pandemic in the Pacific region, Lancet Infect Dis 2018 Aug;18(8):833-834.

Scepanovic P, Alanio C, Hammer C, Hodel F, Bergstedt J, Patin E, Thorball CW, Chaturvedi N, Charbit B, Abel L, Quintana-Murci L, Duffy D, Albert ML, Fellay J, , Human genetic variants and age are the strongest predictors of humoral immune responses to common pathogens and vaccines, Genome Med 2018 07;10(1):59.

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 Jul;14(7):e8293.

Couvin D, Bernheim A, Toffano-Nioche C, Touchon M, Michalik J, Néron B, Rocha EPC, Vergnaud G, Gautheret D, Pourcel C, CRISPRCasFinder, an update of CRISRFinder, includes a portable version, enhanced performance and integrates search for Cas proteins, Nucleic Acids Res. 2018 Jul;46(W1):W246-W251.

Wielgoss S, Fiegna F, Rendueles O, Yu YN, Velicer GJ, Kin discrimination and outer membrane exchange in Myxococcus xanthus: A comparative analysis among natural isolates, Mol. Ecol. 2018 Jun;.

Cury J, Oliveira PH, de la Cruz F, Rocha EPC, Host range and genetic plasticity explain the co-existence of integrative and extrachromosomal mobile genetic elements, Mol. Biol. Evol. 2018 Jun;.

Varet H, Shaulov Y, Sismeiro O, Trebicz-Geffen M, Legendre R, Coppée JY, Ankri S, Guillen N, Enteric bacteria boost defences against oxidative stress in Entamoeba histolytica, Sci Rep 2018 Jun;8(1):9042.

Clerissi C, Touchon M, Capela D, Tang M, Cruveiller S, Genthon C, Lopez-Roques C, Parker MA, Moulin L, Masson-Boivin C, Rocha EPC, Parallels between experimental and natural evolution of legume symbionts, Nat Commun 2018 06;9(1):2264.

Patin E, Hasan M, Bergstedt J, Rouilly V, Libri V, Urrutia A, Alanio C, Scepanovic P, Hammer C, Jönsson F, Beitz B, Quach H, Lim YW, Hunkapiller J, Zepeda M, Green C, Piasecka B, Leloup C, Rogge L, Huetz F, Peguillet I, Lantz O, Fontes M, Di Santo JP, Thomas S, Fellay J, Duffy D, Quintana-Murci L, Albert ML, , Publisher Correction: Natural variation in the parameters of innate immune cells is preferentially driven by genetic factors, Nat. Immunol. 2018 Jun;19(6):645.

Rocha EPC, Neutral Theory, Microbial Practice: Challenges in Bacterial Population Genetics, Mol. Biol. Evol. 2018 Jun;35(6):1338-1347.

Krin E, Pierlé SA, Sismeiro O, Jagla B, Dillies MA, Varet H, Irazoki O, Campoy S, Rouy Z, Cruveiller S, Médigue C, Coppée JY, Mazel D, Expansion of the SOS regulon of Vibrio cholerae through extensive transcriptome analysis and experimental validation, BMC Genomics 2018 May;19(1):373.

Nevers A, Doyen A, Malabat C, Néron B, Kergrohen T, Jacquier A, Badis G, Antisense transcriptional interference mediates condition-specific gene repression in budding yeast, Nucleic Acids Res. 2018 May;.

Cui L, Vigouroux A, Rousset F, Varet H, Khanna V, Bikard D, A CRISPRi screen in E. coli reveals sequence-specific toxicity of dCas9, Nat Commun. 2018 May 15;9(1):1912. doi: 10.1038/s41467-018-04209-5.

Frenoy A, Bonhoeffer S, Death and population dynamics affect mutation rate estimates and evolvability under stress in bacteria, PLoS Biol. 2018 May;16(5):e2005056.

Bernal-Bayard J, Gomez-Valero L, Wessel A, Khanna V, Bouchier C, Ghigo JM, Short genome report of cellulose-producing commensal 1094, Stand Genomic Sci 2018;13:13.

Bernal-Bayard J, Gomez-Valero L, Wessel A, Khanna V, Bouchier C, Ghigo JM, Short genome report of cellulose-producing commensal 1094, Stand Genomic Sci 2018;13:13.

Piazza A1,2, Heyer WD1, Multi-Invasion-Induced Rearrangements as a Pathway for Physiological and Pathological Recombination, Bioessays. 2018 May;40(5):e1700249..

Portnoi MF, Dumargne MC, Rojo S, Witchel SF, Duncan AJ, Eozenou C, Bignon-Topalovic J, Yatsenko SA, Rajkovic A, Reyes-Mugica M, Almstrup K, Fusee L, Srivastava Y, Chantot-Bastaraud S, Hyon C, Louis-Sylvestre C, Validire P, de Malleray Pichard C, Ravel C, Christin-Maitre S, Brauner R, Rossetti R, Persani L, Charreau EH, Dain L, Chiauzzi VA, Mazen I, Rouba H, Schluth-Bolard C, MacGowan S, McLean WHI, Patin E, Rajpert-De Meyts E, Jauch R, Achermann JC, Siffroi JP, McElreavey K, Bashamboo A, Mutations involving the SRY-related gene SOX8 are associated with a spectrum of human reproductive anomalies, Hum. Mol. Genet. 2018 04;27(7):1228-1240.

Dickson LB, Ghozlane A, Volant S, Bouchier C, Ma L, Vega-Rúa A, Dusfour I, Jiolle D, Paupy C, Mayanja MN, Kohl A, Lutwama JJ, Duong V, Lambrechts L, Diverse laboratory colonies of Aedes aegypti harbor the same adult midgut bacterial microbiome, Parasit Vectors 2018 03;11(1):207.

Guérin A, Kerner G, Marr N, Markle JG, Fenollar F, Wong N, Boughorbel S, Avery DT, Ma CS, Bougarn S, Bouaziz M, Béziat V, Della Mina E, Oleaga-Quintas C, Lazarov T, Worley L, Nguyen T, Patin E, Deswarte C, Martinez-Barricarte R, Boucherit S, Ayral X, Edouard S, Boisson-Dupuis S, Rattina V, Bigio B, Vogt G, Geissmann F, Quintana-Murci L, Chaussabel D, Tangye SG, Raoult D, Abel L, Bustamante J, Casanova JL, IRF4 haploinsufficiency in a family with Whipple’s disease, Elife 2018 Mar;7.

Lopez M, Kousathanas A, Quach H, Harmant C, Mouguiama-Daouda P, Hombert JM, Froment A, Perry GH, Barreiro LB, Verdu P, Patin E, Quintana-Murci L, The demographic history and mutational load of African hunter-gatherers and farmers, Nat Ecol Evol 2018 Apr;2(4):721-730.

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.

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Eduardo PC Rocha, Using Sex to Cure the Genome, PLoS Biol 14(3): e1002417. doi:10.1371/ journal.pbio.1002417.

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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.

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Heloise Muller, Romain Koszul, Conception et synthèse de néochromosomes, 2015;17(4):228-236. doi:10.1684/mte.2015.0574.

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Mozziconacci J, Koszul R, Filling the gap: Micro-C accesses the nucleosomal fiber at 100-1000 bp resolution, Genome Biol. 2015;16(1):169.

Surinova S, Choi M, Tao S, Schüffler PJ, Chang CY, Clough T, Vysloužil K, Khoylou M, Srovnal J, Liu Y, Matondo M, Hüttenhain R, Weisser H, Buhmann JM, Hajdúch M, Brenner H, Vitek O, Aebersold R, Prediction of colorectal cancer diagnosis based on circulating plasma proteins, EMBO Mol Med 2015 Sep;7(9):1166-78.

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Beuzelin C, Evnouchidou I, Rigolet P, Cauvet-Burgevin A, Girard PM, Dardalhon D, Culina S, Gdoura A, van Endert P, Francesconi S, Deletion of the fission yeast homologue of human insulinase reveals a TORC1-dependent pathway mediating resistance to proteotoxic stress, PLoS ONE 2013;8(6):e67705.

Goudenège D, Labreuche Y, Krin E, Ansquer D, Mangenot S, Calteau A, Médigue C, Mazel D, Polz MF, Le Roux F, Comparative genomics of pathogenic lineages of Vibrio nigripulchritudo identifies virulence-associated traits, ISME J 2013 Oct;7(10):1985-96.

Travier L, Rendueles O, Ferrières L, Herry JM, Ghigo JM, Escherichia coli resistance to nonbiocidal antibiofilm polysaccharides is rare and mediated by multiple mutations leading to surface physicochemical modifications, Antimicrob. Agents Chemother. 2013 Aug;57(8):3960-8.

Baharoglu Z, Garriss G, Mazel D, Multiple Pathways of Genome Plasticity Leading to Development of Antibiotic Resistance, Antibiotics (Basel) 2013;2(2):288-315.

Boattini A, Martinez-Cruz B, Sarno S, Harmant C, Useli A, Sanz P, Yang-Yao D, Manry J, Ciani G, Luiselli D, Quintana-Murci L, Comas D, Pettener D, , Uniparental markers in Italy reveal a sex-biased genetic structure and different historical strata, PLoS ONE 2013;8(5):e65441.

Quax TE, Voet M, Sismeiro O, Dillies MA, Jagla B, Coppée JY, Sezonov G, Forterre P, van der Oost J, Lavigne R, Prangishvili D, Massive activation of archaeal defense genes during viral infection, J. Virol. 2013 Aug;87(15):8419-28.

Lebeaux D, Chauhan A, Rendueles O, Beloin C, From in vitro to in vivo Models of Bacterial Biofilm-Related Infections, Pathogens 2013;2(2):288-356.

Soutourina OA, Monot M, Boudry P, Saujet L, Pichon C, Sismeiro O, Semenova E, Severinov K, Le Bouguenec C, Coppée JY, Dupuy B, Martin-Verstraete I, Genome-wide identification of regulatory RNAs in the human pathogen Clostridium difficile, PLoS Genet. 2013 May;9(5):e1003493.

Quereda JJ, Pucciarelli MG, Botello-Morte L, Calvo E, Carvalho F, Bouchier C, Vieira A, Mariscotti JF, Chakraborty T, Cossart P, Hain T, Cabanes D, García-Del Portillo F, Occurrence of mutations impairing sigma factor B (SigB) function upon inactivation of Listeria monocytogenes genes encoding surface proteins, Microbiology (Reading, Engl.) 2013 Jul;159(Pt 7):1328-39.

Escudero JA, San Millan A, Montero N, Gutierrez B, Ovejero CM, Carrilero L, González-Zorn B, SatR is a repressor of fluoroquinolone efflux pump SatAB, Antimicrob. Agents Chemother. 2013 Jul;57(7):3430-3.

Schughart K, Libert C, , Kas MJ, Controlling complexity: the clinical relevance of mouse complex genetics, Eur. J. Hum. Genet. 2013 Nov;21(11):1191-6.

Matsuki T, Pédron T, Regnault B, Mulet C, Hara T, Sansonetti PJ, Epithelial cell proliferation arrest induced by lactate and acetate from Lactobacillus casei and Bifidobacterium breve, PLoS ONE 2013;8(4):e63053.

Daub JT, Hofer T, Cutivet E, Dupanloup I, Quintana-Murci L, Robinson-Rechavi M, Excoffier L, Evidence for polygenic adaptation to pathogens in the human genome, Mol. Biol. Evol. 2013 Jul;30(7):1544-58.

Zhou Z, McCann A, Litrup E, Murphy R, Cormican M, Fanning S, Brown D, Guttman DS, Brisse S, Achtman M, Neutral genomic microevolution of a recently emerged pathogen, Salmonella enterica serovar Agona, PLoS Genet. 2013 Apr;9(4):e1003471.

Joffret ML, Bouchier C, Grandadam M, Zeller H, Maufrais C, Bourhy H, Despres P, Delpeyroux F, Dacheux L, Genomic characterization of Sebokele virus 1 (SEBV1) reveals a new candidate species among the genus Parechovirus, J. Gen. Virol. 2013 Jul;94(Pt 7):1547-53.

Rosinski-Chupin I, Sauvage E, Mairey B, Mangenot S, Ma L, Da Cunha V, Rusniok C, Bouchier C, Barbe V, Glaser P, Reductive evolution in Streptococcus agalactiae and the emergence of a host adapted lineage, BMC Genomics 2013;14:252.

Baharoglu Z, Krin E, Mazel D, RpoS plays a central role in the SOS induction by sub-lethal aminoglycoside concentrations in Vibrio cholerae, PLoS Genet. 2013;9(4):e1003421.

Bolze A, Mahlaoui N, Byun M, Turner B, Trede N, Ellis SR, Abhyankar A, Itan Y, Patin E, Brebner S, Sackstein P, Puel A, Picard C, Abel L, Quintana-Murci L, Faust SN, Williams AP, Baretto R, Duddridge M, Kini U, Pollard AJ, Gaud C, Frange P, Orbach D, Emile JF, Stephan JL, Sorensen R, Plebani A, Hammarstrom L, Conley ME, Selleri L, Casanova JL, Ribosomal protein SA haploinsufficiency in humans with isolated congenital asplenia, Science 2013 May;340(6135):976-8.

Lartigue MF, Nordmann P, Edelstein MV, Cuzon G, Brisse S, Poirel L, Characterization of an extended-spectrum class A β-lactamase from a novel enterobacterial species taxonomically related to Rahnella spp./Ewingella spp, J. Antimicrob. Chemother. 2013 Aug;68(8):1733-6.

Chenal-Francisque V, Diancourt L, Cantinelli T, Passet V, Tran-Hykes C, Bracq-Dieye H, Leclercq A, Pourcel C, Lecuit M, Brisse S, Optimized Multilocus variable-number tandem-repeat analysis assay and its complementarity with pulsed-field gel electrophoresis and multilocus sequence typing for Listeria monocytogenes clone identification and surveillance, J. Clin. Microbiol. 2013 Jun;51(6):1868-80.

Komarova AV, Combredet C, Sismeiro O, Dillies MA, Jagla B, Sanchez David RY, Vabret N, Coppée JY, Vidalain PO, Tangy F, Identification of RNA partners of viral proteins in infected cells, RNA Biol 2013 Jun;10(6):944-56.

Fevre C, Almeida AS, Taront S, Pedron T, Huerre M, Prevost MC, Kieusseian A, Cumano A, Brisse S, Sansonetti PJ, Tournebize R, A novel murine model of rhinoscleroma identifies Mikulicz cells, the disease signature, as IL-10 dependent derivatives of inflammatory monocytes, EMBO Mol Med 2013 Apr;5(4):516-30.

Pothlichet J, Quintana-Murci L, The genetics of innate immunity sensors and human disease, Int. Rev. Immunol. 2013 Apr;32(2):157-208.

Oliveira PH, da Silva CL, Cabral JM, An appraisal of human mitochondrial DNA instability: new insights into the role of non-canonical DNA structures and sequence motifs, PLoS ONE 2013;8(3):e59907.

Itan Y, Zhang SY, Vogt G, Abhyankar A, Herman M, Nitschke P, Fried D, Quintana-Murci L, Abel L, Casanova JL, The human gene connectome as a map of short cuts for morbid allele discovery, Proc. Natl. Acad. Sci. U.S.A. 2013 Apr;110(14):5558-63.

Defenouillère Q, Yao Y, Mouaikel J, Namane A, Galopier A, Decourty L, Doyen A, Malabat C, Saveanu C, Jacquier A, Fromont-Racine M, Cdc48-associated complex bound to 60S particles is required for the clearance of aberrant translation products, Proc. Natl. Acad. Sci. U.S.A. 2013 Mar;110(13):5046-51.

Andres P, Lucero C, Soler-Bistué A, Guerriero L, Albornoz E, Tran T, Zorreguieta A, , Galas M, Corso A, Tolmasky ME, Petroni A, Differential distribution of plasmid-mediated quinolone resistance genes in clinical enterobacteria with unusual phenotypes of quinolone susceptibility from Argentina, Antimicrob. Agents Chemother. 2013 Jun;57(6):2467-75.

Guérout AM, Iqbal N, Mine N, Ducos-Galand M, Van Melderen L, Mazel D, Characterization of the phd-doc and ccd toxin-antitoxin cassettes from Vibrio superintegrons, J. Bacteriol. 2013 May;195(10):2270-83.

Quintana-Murci L, Clark AG, Population genetic tools for dissecting innate immunity in humans, Nat. Rev. Immunol. 2013 Apr;13(4):280-93.

Clavaud C, Jourdain R, Bar-Hen A, Tichit M, Bouchier C, Pouradier F, El Rawadi C, Guillot J, Ménard-Szczebara F, Breton L, Latgé JP, Mouyna I, Dandruff is associated with disequilibrium in the proportion of the major bacterial and fungal populations colonizing the scalp, PLoS ONE 2013;8(3):e58203.

Machado LS, de Oliveira FG, Rocha EP, dos Santos PH, Briso AL, Sundefeld ML, Sundfeld RH, Clinical trial evaluating color change and tooth sensitivity throughout and following in-office bleaching, Int J Periodontics Restorative Dent 2013 Mar-Apr;33(2):209-15.

Rocha EP, Evolution. With a little help from prokaryotes, Science 2013 Mar;339(6124):1154-5.

Guérillot R, Da Cunha V, Sauvage E, Bouchier C, Glaser P, Modular evolution of TnGBSs, a new family of integrative and conjugative elements associating insertion sequence transposition, plasmid replication, and conjugation for their spreading, J. Bacteriol. 2013 May;195(9):1979-90.

Savin C, Frangeul L, Ma L, Bouchier C, Moszer I, Carniel E, Draft Genome Sequence of a Clinical Strain of Yersinia enterocolitica (IP10393) of Bioserotype 4/O:3 from France, Genome Announc 2013 Jan;1(1).

Der Sarkissian C, Balanovsky O, Brandt G, Khartanovich V, Buzhilova A, Koshel S, Zaporozhchenko V, Gronenborn D, Moiseyev V, Kolpakov E, Shumkin V, Alt KW, Balanovska E, Cooper A, Haak W, , Ancient DNA reveals prehistoric gene-flow from siberia in the complex human population history of North East Europe, PLoS Genet. 2013;9(2):e1003296.

Casetti L, Martin-Lannerée S, Najjar I, Plo I, Augé S, Roy L, Chomel JC, Lauret E, Turhan AG, Dusanter-Fourt I, Differential contributions of STAT5A and STAT5B to stress protection and tyrosine kinase inhibitor resistance of chronic myeloid leukemia stem/progenitor cells, Cancer Res. 2013 Apr;73(7):2052-8.

Burkovics P, Sebesta M, Sisakova A, Plault N, Szukacsov V, Robert T, Pinter L, Marini V, Kolesar P, Haracska L, Gangloff S, Krejci L, Srs2 mediates PCNA-SUMO-dependent inhibition of DNA repair synthesis, EMBO J. 2013 Mar;32(5):742-55.

Zeidler U, Bougnoux ME, Lupan A, Helynck O, Doyen A, Garcia Z, Sertour N, Clavaud C, Munier-Lehmann H, Saveanu C, d'Enfert C, Synergy of the antibiotic colistin with echinocandin antifungals in Candida species, J. Antimicrob. Chemother. 2013 Jun;68(6):1285-96.

Badro DA, Douaihy B, Haber M, Youhanna SC, Salloum A, Ghassibe-Sabbagh M, Johnsrud B, Khazen G, Matisoo-Smith E, Soria-Hernanz DF, Wells RS, Tyler-Smith C, Platt DE, Zalloua PA, , Y-chromosome and mtDNA genetics reveal significant contrasts in affinities of modern Middle Eastern populations with European and African populations, PLoS ONE 2013;8(1):e54616.

N'guessan CA, Brisse S, Le Roux-Nio AC, Poussier S, Koné D, Wicker E, Development of variable number of tandem repeats typing schemes for Ralstonia solanacearum, the agent of bacterial wilt, banana Moko disease and potato brown rot, J. Microbiol. Methods 2013 Mar;92(3):366-74.

Struelens MJ, Brisse S, From molecular to genomic epidemiology: transforming surveillance and control of infectious diseases, Euro Surveill. 2013;18(4):20386.

Vasseur E, Quintana-Murci L, The impact of natural selection on health and disease: uses of the population genetics approach in humans, Evol Appl 2013 Jun;6(4):596-607.

Verdu P, Becker NS, Froment A, Georges M, Grugni V, Quintana-Murci L, Hombert JM, Van der Veen L, Le Bomin S, Bahuchet S, Heyer E, Austerlitz F, Sociocultural behavior, sex-biased admixture, and effective population sizes in Central African Pygmies and non-Pygmies, Mol. Biol. Evol. 2013 Apr;30(4):918-37.

Redko Y, Aubert S, Stachowicz A, Lenormand P, Namane A, Darfeuille F, Thibonnier M, De Reuse H., A minimal bacterial RNase J-based degradosome is associated with translating ribosomes., Nucleic Acids Res. 2013 Jan 7;41(1):288-301. doi: 10.1093/nar/gks945. Epub 2012 Oct 22..

Supply P, Marceau M, Mangenot S, Roche D, Rouanet C, Khanna V, Majlessi L, Criscuolo A, Tap J, Pawlik A, Fiette L, Orgeur M, Fabre M, Parmentier C, Frigui W, Simeone R, Boritsch EC, Debrie AS, Willery E, Walker D, Quail MA, Ma L, Bouchier C, Salvignol G, Sayes F, Cascioferro A, Seemann T, Barbe V, Locht C, Gutierrez MC, Leclerc C, Bentley SD, Stinear TP, Brisse S, Médigue C, Parkhill J, Cruveiller S, Brosch R, Genomic analysis of smooth tubercle bacilli provides insights into ancestry and pathoadaptation of Mycobacterium tuberculosis, Nat. Genet. 2013 Feb;45(2):172-9.

Bernier SP, Lebeaux D, DeFrancesco AS, Valomon A, Soubigou G, Coppée JY, Ghigo JM, Beloin C, Starvation, together with the SOS response, mediates high biofilm-specific tolerance to the fluoroquinolone ofloxacin, PLoS Genet. 2013;9(1):e1003144.

Dangla R, Kayi SC, Baroud CN, Droplet microfluidics driven by gradients of confinement, Proc. Natl. Acad. Sci. U.S.A. 2013 Jan;110(3):853-8.

Andres J, Arsène-Ploetze F, Barbe V, Brochier-Armanet C, Cleiss-Arnold J, Coppée JY, Dillies MA, Geist L, Joublin A, Koechler S, Lassalle F, Marchal M, Médigue C, Muller D, Nesme X, Plewniak F, Proux C, Ramírez-Bahena MH, Schenowitz C, Sismeiro O, Vallenet D, Santini JM, Bertin PN, Life in an arsenic-containing gold mine: genome and physiology of the autotrophic arsenite-oxidizing bacterium rhizobium sp. NT-26, Genome Biol Evol 2013;5(5):934-53.

Bikard D, Mazel D, Shuffling of DNA cassettes in a synthetic integron, Methods Mol. Biol. 2013;1073:169-74.

Elhaik E, Greenspan E, Staats S, Krahn T, Tyler-Smith C, Xue Y, Tofanelli S, Francalacci P, Cucca F, Pagani L, Jin L, Li H, Schurr TG, Greenspan B, Spencer Wells R, , The GenoChip: a new tool for genetic anthropology, Genome Biol Evol 2013;5(5):1021-31.

Brotherton P, Haak W, Templeton J, Brandt G, Soubrier J, Jane Adler C, Richards SM, Sarkissian CD, Ganslmeier R, Friederich S, Dresely V, van Oven M, Kenyon R, Van der Hoek MB, Korlach J, Luong K, Ho SY, Quintana-Murci L, Behar DM, Meller H, Alt KW, Cooper A, , Adhikarla S, Ganesh Prasad AK, Pitchappan R, Varatharajan Santhakumari A, Balanovska E, Balanovsky O, Bertranpetit J, Comas D, Martínez-Cruz B, Melé M, Clarke AC, Matisoo-Smith EA, Dulik MC, Gaieski JB, Owings AC, Schurr TG, Vilar MG, Hobbs A, Soodyall H, Javed A, Parida L, Platt DE, Royyuru AK, Jin L, Li S, Kaplan ME, Merchant NC, John Mitchell R, Renfrew C, Lacerda DR, Santos FR, Soria Hernanz DF, Spencer Wells R, Swamikrishnan P, Tyler-Smith C, Paulo Vieira P, Ziegle JS, Neolithic mitochondrial haplogroup H genomes and the genetic origins of Europeans, Nat Commun 2013;4:1764.

Manry J, Quintana-Murci L, A genome-wide perspective of human diversity and its implications in infectious disease, Cold Spring Harb Perspect Med 2013 Jan;3(1):a012450.

Nuñez PA, Romero H, Farber MD, Rocha EP, Natural selection for operons depends on genome size, Genome Biol Evol 2013;5(11):2242-54.

Brito PH, Rocha EP, Xavier KB, Gordo I, Natural genome diversity of AI-2 quorum sensing in Escherichia coli: conserved signal production but labile signal reception, Genome Biol Evol 2013;5(1):16-30.

Gutierrez A, Laureti L, Crussard S, Abida H, Rodríguez-Rojas A, Blázquez J, Baharoglu Z, Mazel D, Darfeuille F, Vogel J, Matic I, β-Lactam antibiotics promote bacterial mutagenesis via an RpoS-mediated reduction in replication fidelity, Nat Commun 2013;4:1610.

Baudoin M, Song Y, Manneville P, Baroud CN, Airway reopening through catastrophic events in a hierarchical network, Proc. Natl. Acad. Sci. U.S.A. 2013 Jan;110(3):859-64.

Patillon B, Luisi P, Blanché H, Patin E, Cann HM, Génin E, Sabbagh A, Positive selection in the chromosome 16 VKORC1 genomic region has contributed to the variability of anticoagulant response in humans, PLoS ONE 2012;7(12):e53049.

Manry J, Quintana-Murci L, [Population genetics and human immunity: the interferon paradigm], Med Sci (Paris) 2012 Dec;28(12):1095-101.

Hon CC, Weber C, Sismeiro O, Proux C, Koutero M, Deloger M, Das S, Agrahari M, Dillies MA, Jagla B, Coppee JY, Bhattacharya A, Guillen N, Quantification of stochastic noise of splicing and polyadenylation in Entamoeba histolytica, Nucleic Acids Res. 2013 Feb;41(3):1936-52.

Holmes A, Roseaulin L, Schurra C, Waxin H, Lambert S, Zaratiegui M, Martienssen RA, Arcangioli B, Lsd1 and lsd2 control programmed replication fork pauses and imprinting in fission yeast, Cell Rep 2012 Dec;2(6):1513-20.

Giraud E, Lecoeur H, Soubigou G, Coppée JY, Milon G, Prina E, Lang T, Distinct transcriptional signatures of bone marrow-derived C57BL/6 and DBA/2 dendritic leucocytes hosting live Leishmania amazonensis amastigotes, PLoS Negl Trop Dis 2012;6(12):e1980.

Bobay LM, Rocha EP, Touchon M, The adaptation of temperate bacteriophages to their host genomes, Mol. Biol. Evol. 2013 Apr;30(4):737-51.

Andriantsoanirina V, Khim N, Ratsimbasoa A, Witkowski B, Benedet C, Canier L, Bouchier C, Tichit M, Durand R, Ménard D, Plasmodium falciparum Na+/H+ exchanger (pfnhe-1) genetic polymorphism in Indian Ocean malaria-endemic areas, Am. J. Trop. Med. Hyg. 2013 Jan;88(1):37-42.

Arunkumar G, Soria-Hernanz DF, Kavitha VJ, Arun VS, Syama A, Ashokan KS, Gandhirajan KT, Vijayakumar K, Narayanan M, Jayalakshmi M, Ziegle JS, Royyuru AK, Parida L, Wells RS, Renfrew C, Schurr TG, Smith CT, Platt DE, Pitchappan R, , Population differentiation of southern Indian male lineages correlates with agricultural expansions predating the caste system, PLoS ONE 2012;7(11):e50269.

Nogueira T, Touchon M, Rocha EP, Rapid evolution of the sequences and gene repertoires of secreted proteins in bacteria, PLoS ONE 2012;7(11):e49403.

Léger P, Lara E, Jagla B, Sismeiro O, Mansuroglu Z, Coppée JY, Bonnefoy E, Bouloy M, Dicer-2- and Piwi-mediated RNA interference in Rift Valley fever virus-infected mosquito cells, J. Virol. 2013 Feb;87(3):1631-48.

Viana LV, Leitão CB, Grillo Mde F, Rocha EP, Brenner JK, Friedman R, Gross JL, Are diabetes management guidelines applicable in ‘real life’?, Diabetol Metab Syndr 2012;4(1):47.

Chevallier L, Blanchet C, Jaubert J, Pachulec E, Demeure C, Carniel E, Panthier JJ, Montagutelli X, Resistance to plague of Mus spretus SEG/Pas mice requires the combined action of at least four genetic factors, Genes Immun. 2013 Jan;14(1):35-41.

Cousin S, Ma L, Creno S, Clermont D, Loux V, Bizet C, Bouchier C, Draft genome sequence of Lactobacillus gigeriorum CRBIP 24.85T, isolated from a chicken crop, J. Bacteriol. 2012 Nov;194(21):5973.

Bellini A, Girard PM, Lambert S, Tessier L, Sage E, Francesconi S, Stress activated protein kinase pathway modulates homologous recombination in fission yeast, PLoS ONE 2012;7(10):e47987.

Martini AP, Barros RM, Júnior AC, Rocha EP, de Almeida EO, Ferraz CC, Pellegrin MC, Anchieta RB, Influence of platform and abutment angulation on peri-implant bone. A three-dimensional finite element stress analysis, J Oral Implantol 2013 Dec;39(6):663-9.

Sala CD, Soler-Bistué AJ, Korprapun L, Zorreguieta A, Tolmasky ME, Inhibition of cell division induced by external guide sequences (EGS Technology) targeting ftsZ, PLoS ONE 2012;7(10):e47690.

Kassis-Chikhani N, Frangeul L, Drieux L, Sengelin C, Jarlier V, Brisse S, Arlet G, Decré D, Complete nucleotide sequence of the first KPC-2- and SHV-12-encoding IncX plasmid, pKpS90, from Klebsiella pneumoniae, Antimicrob. Agents Chemother. 2013 Jan;57(1):618-20.

Touchon M, Charpentier S, Pognard D, Picard B, Arlet G, Rocha EP, Denamur E, Branger C, Antibiotic resistance plasmids spread among natural isolates of Escherichia coli in spite of CRISPR elements, Microbiology (Reading, Engl.) 2012 Dec;158(Pt 12):2997-3004.

Mazel D, Mobashery S, Antibiotics as physiological stress inducers and bacterial response to the challenge, Curr. Opin. Microbiol. 2012 Oct;15(5):553-4.

Ghorbal M, Scheidig-Benatar C, Bouizem S, Thomas C, Paisley G, Faltermeier C, Liu M, Scherf A, Lopez-Rubio JJ, Gopaul DN, Initial characterization of the Pf-Int recombinase from the malaria parasite Plasmodium falciparum, PLoS ONE 2012;7(10):e46507.

Haase JK, Brown DJ, Weill FX, Mather H, Foster G, Brisse S, Wain J, Achtman M, Population genetic structure of 4,12:a:- Salmonella enterica strains from harbor porpoises, Appl. Environ. Microbiol. 2012 Dec;78(24):8829-33.

Marcade G, Brisse S, Bialek S, Marcon E, Leflon-Guibout V, Passet V, Moreau R, Nicolas-Chanoine MH, The emergence of multidrug-resistant Klebsiella pneumoniae of international clones ST13, ST16, ST35, ST48 and ST101 in a teaching hospital in the Paris region, Epidemiol. Infect. 2013 Aug;141(8):1705-12.

Traglia GM, Sala CD, Fuxman Bass JI, Soler-Bistué AJ, Zorreguieta A, Ramírez MS, Tolmasky ME, Internalization of Locked Nucleic Acids/DNA Hybrid Oligomers into Escherichia coli, Biores Open Access 2012 Oct;1(5):260-3.

Burgio G, Baylac M, Heyer E, Montagutelli X, Exploration of the genetic organization of morphological modularity on the mouse mandible using a set of interspecific recombinant congenic strains between C57BL/6 and mice of the Mus spretus species, G3 (Bethesda) 2012 Oct;2(10):1257-68.

Abby SS, Rocha EP, The non-flagellar type III secretion system evolved from the bacterial flagellum and diversified into host-cell adapted systems, PLoS Genet. 2012 Sep;8(9):e1002983.

Bialek-Davenet S, Nicolas-Chanoine MH, Decré D, Brisse S, Microbiological and clinical characteristics of bacteraemia caused by the hypermucoviscosity phenotype of Klebsiella pneumoniae in Korea, Epidemiol. Infect. 2013 Jan;141(1):188.

Gudipati RK, Xu Z, Lebreton A, Séraphin B, Steinmetz LM, Jacquier A, Libri D, Extensive degradation of RNA precursors by the exosome in wild-type cells, Mol. Cell 2012 Nov;48(3):409-21.

Guglielmini J, de la Cruz F, Rocha EP, Evolution of conjugation and type IV secretion systems, Mol. Biol. Evol. 2013 Feb;30(2):315-31.

Rębała K, Martínez-Cruz B, Tönjes A, Kovacs P, Stumvoll M, Lindner I, Büttner A, Wichmann HE, Siváková D, Soták M, Quintana-Murci L, Szczerkowska Z, Comas D, , Contemporary paternal genetic landscape of Polish and German populations: from early medieval Slavic expansion to post-World War II resettlements, Eur. J. Hum. Genet. 2013 Apr;21(4):415-22.

González-Zorn B, Escudero JA, Ecology of antimicrobial resistance: humans, animals, food and environment, Int. Microbiol. 2012 Sep;15(3):101-9.

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.

Cournac A, Marie-Nelly H, Marbouty M, Koszul R, Mozziconacci J, Normalization of a chromosomal contact map, BMC Genomics 2012;13:436.

Crequer A, Picard C, Patin E, D'Amico A, Abhyankar A, Munzer M, Debré M, Zhang SY, de Saint-Basile G, Fischer A, Abel L, Orth G, Casanova JL, Jouanguy E, Inherited MST1 deficiency underlies susceptibility to EV-HPV infections, PLoS ONE 2012;7(8):e44010.

Deghorain M, Bobay LM, Smeesters PR, Bousbata S, Vermeersch M, Perez-Morga D, Drèze PA, Rocha EP, Touchon M, Van Melderen L, Characterization of novel phages isolated in coagulase-negative staphylococci reveals evolutionary relationships with Staphylococcus aureus phages, J. Bacteriol. 2012 Nov;194(21):5829-39.

Rabhi I, Rabhi S, Ben-Othman R, Rasche A, Daskalaki A, Trentin B, Piquemal D, Regnault B, Descoteaux A, Guizani-Tabbane L, , Transcriptomic signature of Leishmania infected mice macrophages: a metabolic point of view, PLoS Negl Trop Dis 2012;6(8):e1763.

Dhamgaye S, Bernard M, Lelandais G, Sismeiro O, Lemoine S, Coppée JY, Le Crom S, Prasad R, Devaux F, RNA sequencing revealed novel actors of the acquisition of drug resistance in Candida albicans, BMC Genomics 2012;13:396.

Vatin M, Burgio G, Renault G, Laissue P, Firlej V, Mondon F, Montagutelli X, Vaiman D, Serres C, Ziyyat A, Refined mapping of a quantitative trait locus on chromosome 1 responsible for mouse embryonic death, PLoS ONE 2012;7(8):e43356.

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Simon-Chazottes D, Frenkiel MP, Montagutelli X, Guénet JL, Desprès P, Panthier JJ, Transgenic expression of full-length 2′,5′-oligoadenylate synthetase 1b confers to BALB/c mice resistance against West Nile virus-induced encephalitis, Virology 2011 Aug;417(1):147-53.

Decré D, Verdet C, Emirian A, Le Gourrierec T, Petit JC, Offenstadt G, Maury E, Brisse S, Arlet G, Emerging severe and fatal infections due to Klebsiella pneumoniae in two university hospitals in France, J. Clin. Microbiol. 2011 Aug;49(8):3012-4.

Fornarino S, Laval G, Barreiro LB, Manry J, Vasseur E, Quintana-Murci L, Evolution of the TIR domain-containing adaptors in humans: swinging between constraint and adaptation, Mol. Biol. Evol. 2011 Nov;28(11):3087-97.

Clermont O, Gordon DM, Brisse S, Walk ST, Denamur E, Characterization of the cryptic Escherichia lineages: rapid identification and prevalence, Environ. Microbiol. 2011 Sep;13(9):2468-77.

Heyer E, Brazier L, Ségurel L, Hegay T, Austerlitz F, Quintana-Murci L, Georges M, Pasquet P, Veuille M, Lactase persistence in central Asia: phenotype, genotype, and evolution, Hum. Biol. 2011 Jun;83(3):379-92.

Ben-Ali M, Corre B, Manry J, Barreiro LB, Quach H, Boniotto M, Pellegrini S, Quintana-Murci L, Functional characterization of naturally occurring genetic variants in the human TLR1-2-6 gene family, Hum. Mutat. 2011 Jun;32(6):643-52.

Chenal-Francisque V, Lopez J, Cantinelli T, Caro V, Tran C, Leclercq A, Lecuit M, Brisse S, Worldwide distribution of major clones of Listeria monocytogenes, Emerging Infect. Dis. 2011 Jun;17(6):1110-2.

Fevre C, Passet V, Deletoile A, Barbe V, Frangeul L, Almeida AS, Sansonetti P, Tournebize R, Brisse S, PCR-based identification of Klebsiella pneumoniae subsp. rhinoscleromatis, the agent of rhinoscleroma, PLoS Negl Trop Dis 2011 May;5(5):e1052.

Balanovsky O, Dibirova K, Dybo A, Mudrak O, Frolova S, Pocheshkhova E, Haber M, Platt D, Schurr T, Haak W, Kuznetsova M, Radzhabov M, Balaganskaya O, Romanov A, Zakharova T, Soria Hernanz DF, Zalloua P, Koshel S, Ruhlen M, Renfrew C, Wells RS, Tyler-Smith C, Balanovska E, , Parallel evolution of genes and languages in the Caucasus region, Mol. Biol. Evol. 2011 Oct;28(10):2905-20.

Rendueles O, Travier L, Latour-Lambert P, Fontaine T, Magnus J, Denamur E, Ghigo JM, Screening of Escherichia coli species biodiversity reveals new biofilm-associated antiadhesion polysaccharides, MBio 2011;2(3):e00043-11.

Mauclère P, Afonso PV, Meertens L, Plancoulaine S, Calattini S, Froment A, Van Beveren M, de Thé G, Quintana-Murci L, Mahieux R, Gessain A, HTLV-2B strains, similar to those found in several Amerindian tribes, are endemic in central African Bakola Pygmies, J. Infect. Dis. 2011 May;203(9):1316-23.

Cambray G, Sanchez-Alberola N, Campoy S, Guerin E, Da Re S, González-Zorn B, Ploy MC, Barbé J, Mazel D, Erill I, Prevalence of SOS-mediated control of integron integrase expression as an adaptive trait of chromosomal and mobile integrons, Mob DNA 2011;2(1):6.

Carretto E, Barbarini D, Dijkshoorn L, van der Reijden TJ, Brisse S, Passet V, Farina C, , Widespread carbapenem resistant Acinetobacter baumannii clones in Italian hospitals revealed by a multicenter study, Infect. Genet. Evol. 2011 Aug;11(6):1319-26.

Bradley AS, Baharoglu Z, Niewiarowski A, Michel B, Tsaneva IR, Formation of a stable RuvA protein double tetramer is required for efficient branch migration in vitro and for replication fork reversal in vivo, J. Biol. Chem. 2011 Jun;286(25):22372-83.

Truman RW, Singh P, Sharma R, Busso P, Rougemont J, Paniz-Mondolfi A, Kapopoulou A, Brisse S, Scollard DM, Gillis TP, Cole ST, Probable zoonotic leprosy in the southern United States, N. Engl. J. Med. 2011 Apr;364(17):1626-33.

Yan S, Wang CC, Li H, Li SL, Jin L, , An updated tree of Y-chromosome Haplogroup O and revised phylogenetic positions of mutations P164 and PK4, Eur. J. Hum. Genet. 2011 Sep;19(9):1013-5.

Souissi I, Najjar I, Ah-Koon L, Schischmanoff PO, Lesage D, Le Coquil S, Roger C, Dusanter-Fourt I, Varin-Blank N, Cao A, Metelev V, Baran-Marszak F, Fagard R, A STAT3-decoy oligonucleotide induces cell death in a human colorectal carcinoma cell line by blocking nuclear transfer of STAT3 and STAT3-bound NF-κB, BMC Cell Biol. 2011 Apr;12:14.

Deplaine G, Lavazec C, Bischoff E, Natalang O, Perrot S, Guillotte-Blisnick M, Coppée JY, Pradines B, Mercereau-Puijalon O, David PH, Artesunate tolerance in transgenic Plasmodium falciparum parasites overexpressing a tryptophan-rich protein, Antimicrob. Agents Chemother. 2011 Jun;55(6):2576-84.

Hamel A, Fisch C, Combettes L, Dupuis-Williams P, Baroud CN, Transitions between three swimming gaits in Paramecium escape, Proc. Natl. Acad. Sci. U.S.A. 2011 May;108(18):7290-5.

Daugeron MC, Lenstra TL, Frizzarin M, El Yacoubi B, Liu X, Baudin-Baillieu A, Lijnzaad P, Decourty L, Saveanu C, Jacquier A, Holstege FC, de Crécy-Lagard V, van Tilbeurgh H, Libri D, Gcn4 misregulation reveals a direct role for the evolutionary conserved EKC/KEOPS in the t6A modification of tRNAs, Nucleic Acids Res. 2011 Aug;39(14):6148-60.

Breurec S, Fall C, Pouillot R, Boisier P, Brisse S, Diene-Sarr F, Djibo S, Etienne J, Fonkoua MC, Perrier-Gros-Claude JD, Ramarokoto CE, Randrianirina F, Thiberge JM, Zriouil SB, , Garin B, Laurent F, Epidemiology of methicillin-susceptible Staphylococcus aureus lineages in five major African towns: high prevalence of Panton-Valentine leukocidin genes, Clin. Microbiol. Infect. 2011 Apr;17(4):633-9.

Manry J, Laval G, Patin E, Fornarino S, Tichit M, Bouchier C, Barreiro LB, Quintana-Murci L, Evolutionary genetics evidence of an essential, nonredundant role of the IFN-γ pathway in protective immunity, Hum. Mutat. 2011 Jun;32(6):633-42.

Leclercq A, Chenal-Francisque V, Dieye H, Cantinelli T, Drali R, Brisse S, Lecuit M, Characterization of the novel Listeria monocytogenes PCR serogrouping profile IVb-v1, Int. J. Food Microbiol. 2011 May;147(1):74-7.

Cousin S, Gulat-Okalla ML, Motreff L, Gouyette C, Bouchier C, Clermont D, Bizet C, Lactobacillus gigeriorum sp. nov., isolated from chicken crop, Int. J. Syst. Evol. Microbiol. 2012 Feb;62(Pt 2):330-4.

Touchon M, Charpentier S, Clermont O, Rocha EP, Denamur E, Branger C, CRISPR distribution within the Escherichia coli species is not suggestive of immunity-associated diversifying selection, J. Bacteriol. 2011 May;193(10):2460-7.

Warnecke T, Rocha EP, Function-specific accelerations in rates of sequence evolution suggest predictable epistatic responses to reduced effective population size, Mol. Biol. Evol. 2011 Aug;28(8):2339-49.

Selevsek N, Matondo M, Sanchez Carbayo M, Aebersold R, Domon B, Systematic quantification of peptides/proteins in urine using selected reaction monitoring, Proteomics 2011 Mar;11(6):1135-47.

Court M, Selevsek N, Matondo M, Allory Y, Garin J, Masselon CD, Domon B, Toward a standardized urine proteome analysis methodology, Proteomics 2011 Mar;11(6):1160-71.

Oliveira PH, Prather KL, Prazeres DM, Monteiro GA, Mutation detection in plasmid-based biopharmaceuticals, Biotechnol J 2011 Apr;6(4):378-91.

Clermont O, Olier M, Hoede C, Diancourt L, Brisse S, Keroudean M, Glodt J, Picard B, Oswald E, Denamur E, Animal and human pathogenic Escherichia coli strains share common genetic backgrounds, Infect. Genet. Evol. 2011 Apr;11(3):654-62.

Nemec A, Krizova L, Maixnerova M, van der Reijden TJ, Deschaght P, Passet V, Vaneechoutte M, Brisse S, Dijkshoorn L, Genotypic and phenotypic characterization of the Acinetobacter calcoaceticus-Acinetobacter baumannii complex with the proposal of Acinetobacter pittii sp. nov. (formerly Acinetobacter genomic species 3) and Acinetobacter nosocomialis sp. nov. (formerly Acinetobacter genomic species 13TU), Res. Microbiol. 2011 May;162(4):393-404.

Deschaght P, Van Simaey L, Decat E, Van Mechelen E, Brisse S, Vaneechoutte M, Rapid genotyping of Achromobacter xylosoxidans, Acinetobacter baumannii, Klebsiella pneumoniae, Pseudomonas aeruginosa and Stenotrophomonas maltophilia isolates using melting curve analysis of RAPD-generated DNA fragments (McRAPD), Res. Microbiol. 2011 May;162(4):386-92.

Baharoglu Z, Mazel D, Vibrio cholerae triggers SOS and mutagenesis in response to a wide range of antibiotics: a route towards multiresistance, Antimicrob. Agents Chemother. 2011 May;55(5):2438-41.

Coulibaly-N'Golo GM, Ekaza E, Coulibaly B, Aka N, N'guessan RK, Thiberge JM, Caro V, Brisse S, Bretin-Dosso M, Multilocus VNTR analysis of Mycobacterium ulcerans strains isolated in Côte d’Ivoire, J Infect Dev Ctries 2011 Feb;5(1):59-63.

Di Popolo A, Giannouli M, Triassi M, Brisse S, Zarrilli R, Molecular epidemiological investigation of multidrug-resistant Acinetobacter baumannii strains in four Mediterranean countries with a multilocus sequence typing scheme, Clin. Microbiol. Infect. 2011 Feb;17(2):197-201.

Breurec S, Zriouil SB, Fall C, Boisier P, Brisse S, Djibo S, Etienne J, Fonkoua MC, Perrier-Gros-Claude JD, Pouillot R, Ramarokoto CE, Randrianirina F, Tall A, Thiberge JM, , Laurent F, Garin B, Epidemiology of methicillin-resistant Staphylococcus aureus lineages in five major African towns: emergence and spread of atypical clones, Clin. Microbiol. Infect. 2011 Feb;17(2):160-5.

Treangen TJ, Rocha EP, Horizontal transfer, not duplication, drives the expansion of protein families in prokaryotes, PLoS Genet. 2011;7(1):e1001284.

Lebreton A, Lakisic G, Job V, Fritsch L, Tham TN, Camejo A, Matteï PJ, Regnault B, Nahori MA, Cabanes D, Gautreau A, Ait-Si-Ali S, Dessen A, Cossart P, Bierne H, A bacterial protein targets the BAHD1 chromatin complex to stimulate type III interferon response, Science 2011 Mar;331(6022):1319-21.

Huebner AM, Abell C, Huck WT, Baroud CN, Hollfelder F, Monitoring a reaction at submillisecond resolution in picoliter volumes, Anal. Chem. 2011 Feb;83(4):1462-8.

Dittami SM, Proux C, Rousvoal S, Peters AF, Cock JM, Coppée JY, Boyen C, Tonon T, Microarray estimation of genomic inter-strain variability in the genus Ectocarpus (Phaeophyceae), BMC Mol. Biol. 2011;12:2.

Roux AL, Ray A, Pawlik A, Medjahed H, Etienne G, Rottman M, Catherinot E, Coppée JY, Chaoui K, Monsarrat B, Toubert A, Daffé M, Puzo G, Gaillard JL, Brosch R, Dulphy N, Nigou J, Herrmann JL, Overexpression of proinflammatory TLR-2-signalling lipoproteins in hypervirulent mycobacterial variants, Cell. Microbiol. 2011 May;13(5):692-704.

Neil H, Jacquier A, Enrichment of unstable non-coding RNAs and their genome-wide identification, Methods Mol. Biol. 2011;759:87-106.

Casanova JL, Abel L, Quintana-Murci L, Human TLRs and IL-1Rs in host defense: natural insights from evolutionary, epidemiological, and clinical genetics, Annu. Rev. Immunol. 2011;29:447-91.

Yang K, Zheng H, Qin Z, Lu Y, Farina SE, Li S, Jin L, Li D, Li H, , Positive selection on mitochondrial M7 lineages among the Gelong people in Hainan, J. Hum. Genet. 2011 Mar;56(3):253-6.

Laouari D, Burtin M, Phelep A, Martino C, Pillebout E, Montagutelli X, Friedlander G, Terzi F, TGF-alpha mediates genetic susceptibility to chronic kidney disease, J. Am. Soc. Nephrol. 2011 Feb;22(2):327-35.

Berthet N, Deletoile A, Passet V, Kennedy GC, Manuguerra JC, Cole ST, Brisse S, Reconstructed ancestral sequences improve pathogen identification using resequencing DNA microarrays, PLoS ONE 2010;5(12):e15243.

Cleiss-Arnold J, Koechler S, Proux C, Fardeau ML, Dillies MA, Coppee JY, Arsène-Ploetze F, Bertin PN, Temporal transcriptomic response during arsenic stress in Herminiimonas arsenicoxydans, BMC Genomics 2010;11:709.

Forquin MP, Hébert A, Roux A, Aubert J, Proux C, Heilier JF, Landaud S, Junot C, Bonnarme P, Martin-Verstraete I, Global regulation of the response to sulfur availability in the cheese-related bacterium Brevibacterium aurantiacum, Appl. Environ. Microbiol. 2011 Feb;77(4):1449-59.

Zaratiegui M, Vaughn MW, Irvine DV, Goto D, Watt S, Bähler J, Arcangioli B, Martienssen RA, CENP-B preserves genome integrity at replication forks paused by retrotransposon LTR, Nature 2011 Jan;469(7328):112-5.

Lagha M, Sato T, Regnault B, Cumano A, Zuniga A, Licht J, Relaix F, Buckingham M, Transcriptome analyses based on genetic screens for Pax3 myogenic targets in the mouse embryo, BMC Genomics 2010;11:696.

Bikard D, Loot C, Baharoglu Z, Mazel D, Folded DNA in action: hairpin formation and biological functions in prokaryotes, Microbiol. Mol. Biol. Rev. 2010 Dec;74(4):570-88.

Quintana-Murci L, Barreiro LB, The role played by natural selection on Mendelian traits in humans, Ann. N. Y. Acad. Sci. 2010 Dec;1214:1-17.

Haber M, Platt DE, Badro DA, Xue Y, El-Sibai M, Bonab MA, Youhanna SC, Saade S, Soria-Hernanz DF, Royyuru A, Wells RS, Tyler-Smith C, Zalloua PA, , Influences of history, geography, and religion on genetic structure: the Maronites in Lebanon, Eur. J. Hum. Genet. 2011 Mar;19(3):334-40.

Qin Z, Yang Y, Kang L, Yan S, Cho K, Cai X, Lu Y, Zheng H, Zhu D, Fei D, Li S, Jin L, Li H, , A mitochondrial revelation of early human migrations to the Tibetan Plateau before and after the last glacial maximum, Am. J. Phys. Anthropol. 2010 Dec;143(4):555-69.

Melé M, Javed A, Pybus M, Calafell F, Parida L, Bertranpetit J, , A new method to reconstruct recombination events at a genomic scale, PLoS Comput. Biol. 2010;6(11):e1001010.

Alcaïs A, Quintana-Murci L, Thaler DS, Schurr E, Abel L, Casanova JL, Life-threatening infectious diseases of childhood: single-gene inborn errors of immunity?, Ann. N. Y. Acad. Sci. 2010 Dec;1214:18-33.

Song Y, Baudoin M, Manneville P, Baroud CN, The air-liquid flow in a microfluidic airway tree, Med Eng Phys 2011 Sep;33(7):849-56.

Haak W, Balanovsky O, Sanchez JJ, Koshel S, Zaporozhchenko V, Adler CJ, Der Sarkissian CS, Brandt G, Schwarz C, Nicklisch N, Dresely V, Fritsch B, Balanovska E, Villems R, Meller H, Alt KW, Cooper A, , Ancient DNA from European early neolithic farmers reveals their near eastern affinities, PLoS Biol. 2010;8(11):e1000536.

Barbier F, Lebeaux D, Hernandez D, Delannoy AS, Caro V, François P, Schrenzel J, Ruppé E, Gaillard K, Wolff M, Brisse S, Andremont A, Ruimy R, High prevalence of the arginine catabolic mobile element in carriage isolates of methicillin-resistant Staphylococcus epidermidis, J. Antimicrob. Chemother. 2011 Jan;66(1):29-36.

Abbyad P, Dangla R, Alexandrou A, Baroud CN, Rails and anchors: guiding and trapping droplet microreactors in two dimensions, Lab Chip 2011 Mar;11(5):813-21.

Batini C, Lopes J, Behar DM, Calafell F, Jorde LB, van der Veen L, Quintana-Murci L, Spedini G, Destro-Bisol G, Comas D, Insights into the demographic history of African Pygmies from complete mitochondrial genomes, Mol. Biol. Evol. 2011 Feb;28(2):1099-110.

San Millan A, Giufré M, Escudero JA, Hidalgo L, Gutierrez B, Cerquetti M, Gonzalez-Zorn B, Contribution of ROB-1 and PBP3 mutations to the resistance phenotype of a β-lactamase-positive amoxicillin/clavulanic acid-resistant Haemophilus influenzae carrying plasmid pB1000 in Italy, J. Antimicrob. Chemother. 2011 Jan;66(1):96-9.

Baharoglu Z, Bikard D, Mazel D, Conjugative DNA transfer induces the bacterial SOS response and promotes antibiotic resistance development through integron activation, PLoS Genet. 2010 Oct;6(10):e1001165.

Andriantsoanirina V, Ratsimbasoa A, Bouchier C, Tichit M, Jahevitra M, Rabearimanana S, Raherinjafy R, Mercereau-Puijalon O, Durand R, Ménard D, Chloroquine clinical failures in P. falciparum malaria are associated with mutant Pfmdr-1, not Pfcrt in Madagascar, PLoS ONE 2010 Oct;5(10):e13281.

Rapp JB, Noguchi C, Das MM, Wong LK, Ansbach AB, Holmes AM, Arcangioli B, Noguchi E, Checkpoint-dependent and -independent roles of Swi3 in replication fork recovery and sister chromatid cohesion in fission yeast, PLoS ONE 2010;5(10):e13379.

do Valle TZ, Billecocq A, Guillemot L, Alberts R, Gommet C, Geffers R, Calabrese K, Schughart K, Bouloy M, Montagutelli X, Panthier JJ, A new mouse model reveals a critical role for host innate immunity in resistance to Rift Valley fever, J. Immunol. 2010 Nov;185(10):6146-56.

Ferrières L, Hémery G, Nham T, Guérout AM, Mazel D, Beloin C, Ghigo JM, Silent mischief: bacteriophage Mu insertions contaminate products of Escherichia coli random mutagenesis performed using suicidal transposon delivery plasmids mobilized by broad-host-range RP4 conjugative machinery, J. Bacteriol. 2010 Dec;192(24):6418-27.

Sangal V, Harbottle H, Mazzoni CJ, Helmuth R, Guerra B, Didelot X, Paglietti B, Rabsch W, Brisse S, Weill FX, Roumagnac P, Achtman M, Evolution and population structure of Salmonella enterica serovar Newport, J. Bacteriol. 2010 Dec;192(24):6465-76.

Blanchet C, Jaubert J, Carniel E, Fayolle C, Milon G, Szatanik M, Panthier JJ, Montagutelli X, Mus spretus SEG/Pas mice resist virulent Yersinia pestis, under multigenic control, Genes Immun. 2011 Jan;12(1):23-30.

Song Y, Manneville P, Baroud CN, Local interactions and the global organization of a two-phase flow in a branching tree, Phys. Rev. Lett. 2010 Sep;105(13):134501.

Dangla R, Gallaire F, Baroud CN, Microchannel deformations due to solvent-induced PDMS swelling, Lab Chip 2010 Nov;10(21):2972-8.

Enache-Angoulvant A, Bourget M, Brisse S, Stockman-Pannier C, Diancourt L, François N, Rimek D, Fairhead C, Poulain D, Hennequin C, Multilocus microsatellite markers for molecular typing of Candida glabrata: application to analysis of genetic relationships between bloodstream and digestive system isolates, J. Clin. Microbiol. 2010 Nov;48(11):4028-34.

Rocha EP, Feil EJ, Mutational patterns cannot explain genome composition: Are there any neutral sites in the genomes of bacteria?, PLoS Genet. 2010 Sep;6(9):e1001104.

Martínez-Cruz B, Vitalis R, Ségurel L, Austerlitz F, Georges M, Théry S, Quintana-Murci L, Hegay T, Aldashev A, Nasyrova F, Heyer E, In the heartland of Eurasia: the multilocus genetic landscape of Central Asian populations, Eur. J. Hum. Genet. 2011 Feb;19(2):216-23.

Le Roux F, Labreuche Y, Davis BM, Iqbal N, Mangenot S, Goarant C, Mazel D, Waldor MK, Virulence of an emerging pathogenic lineage of Vibrio nigripulchritudo is dependent on two plasmids, Environ. Microbiol. 2011 Feb;13(2):296-306.

Thompson FL, Thompson CC, Vicente AC, Klose KE, , Vibrio2009: the third international conference on the biology of Vibrios, Mol. Microbiol. 2010 Sep;77(5):1065-71.

Smillie C, Garcillán-Barcia MP, Francia MV, Rocha EP, de la Cruz F, Mobility of plasmids, Microbiol. Mol. Biol. Rev. 2010 Sep;74(3):434-52.

Brocas C, Charbonnier JB, Dhérin C, Gangloff S, Maloisel L, Stable interactions between DNA polymerase δ catalytic and structural subunits are essential for efficient DNA repair, DNA Repair (Amst.) 2010 Oct;9(10):1098-111.

Zhadanov SI, Dulik MC, Markley M, Jennings GW, Gaieski JB, Elias G, Schurr TG, , Genetic heritage and native identity of the Seaconke Wampanoag tribe of Massachusetts, Am. J. Phys. Anthropol. 2010 Aug;142(4):579-89.

Labreuche Y, Le Roux F, Henry J, Zatylny C, Huvet A, Lambert C, Soudant P, Mazel D, Nicolas JL, Vibrio aestuarianus zinc metalloprotease causes lethality in the Pacific oyster Crassostrea gigas and impairs the host cellular immune defenses, Fish Shellfish Immunol. 2010 Nov;29(5):753-8.

Loot C, Bikard D, Rachlin A, Mazel D, Cellular pathways controlling integron cassette site folding, EMBO J. 2010 Aug;29(15):2623-34.

Abbyad P, Tharaux PL, Martin JL, Baroud CN, Alexandrou A, Sickling of red blood cells through rapid oxygen exchange in microfluidic drops, Lab Chip 2010 Oct;10(19):2505-12.

Nalpas B, Lavialle-Meziani R, Plancoulaine S, Jouanguy E, Nalpas A, Munteanu M, Charlotte F, Ranque B, Patin E, Heath S, Fontaine H, Vallet-Pichard A, Pontoire D, Bourlière M, Casanova JL, Lathrop M, Bréchot C, Poynard T, Matsuda F, Pol S, Abel L, Interferon gamma receptor 2 gene variants are associated with liver fibrosis in patients with chronic hepatitis C infection, Gut 2010 Aug;59(8):1120-6.

Baroud CN, Gallaire F, Dangla R, Dynamics of microfluidic droplets, Lab Chip 2010 Aug;10(16):2032-45.

Touchon M, Rocha EP, The small, slow and specialized CRISPR and anti-CRISPR of Escherichia and Salmonella, PLoS ONE 2010;5(6):e11126.

Thiberge JM, Boursaux-Eude C, Lehours P, Dillies MA, Creno S, Coppée JY, Rouy Z, Lajus A, Ma L, Burucoa C, Ruskoné-Foumestraux A, Courillon-Mallet A, De Reuse H, Boneca IG, Lamarque D, Mégraud F, Delchier JC, Médigue C, Bouchier C, Labigne A, Raymond J, From array-based hybridization of Helicobacter pylori isolates to the complete genome sequence of an isolate associated with MALT lymphoma, BMC Genomics 2010;11:368.

Bikard D, Julié-Galau S, Cambray G, Mazel D, The synthetic integron: an in vivo genetic shuffling device, Nucleic Acids Res. 2010 Aug;38(15):e153.

Oliveira PH, Prather KJ, Prazeres DM, Monteiro GA, Analysis of DNA repeats in bacterial plasmids reveals the potential for recurrent instability events, Appl. Microbiol. Biotechnol. 2010 Aug;87(6):2157-67.

Baharoglu Z, Lestini R, Duigou S, Michel B, RNA polymerase mutations that facilitate replication progression in the rep uvrD recF mutant lacking two accessory replicative helicases, Mol. Microbiol. 2010 Jul;77(2):324-36.

Andriantsoanirina V, Ménard D, Rabearimanana S, Hubert V, Bouchier C, Tichit M, Bras JL, Durand R, Association of microsatellite variations of Plasmodium falciparum Na+/H+ exchanger (Pfnhe-1) gene with reduced in vitro susceptibility to quinine: lack of confirmation in clinical isolates from Africa, Am. J. Trop. Med. Hyg. 2010 May;82(5):782-7.

Czeher C, Labbo R, Vieville G, Arzika I, Bogreau H, Rogier C, Diancourt L, Brisse S, Ariey F, Duchemin JB, Population genetic structure of Anopheles gambiae and Anopheles arabiensis in Niger, J. Med. Entomol. 2010 May;47(3):355-66.

Laval G, Patin E, Barreiro LB, Quintana-Murci L, Formulating a historical and demographic model of recent human evolution based on resequencing data from noncoding regions, PLoS ONE 2010;5(4):e10284.

Vieira-Silva S, Touchon M, Rocha EP, No evidence for elemental-based streamlining of prokaryotic genomes, Trends Ecol. Evol. (Amst.) 2010 Jun;25(6):319-20; author reply 320-1.

Diancourt L, Passet V, Nemec A, Dijkshoorn L, Brisse S, The population structure of Acinetobacter baumannii: expanding multiresistant clones from an ancestral susceptible genetic pool, PLoS ONE 2010;5(4):e10034.

Yao Y, Demoinet E, Saveanu C, Lenormand P, Jacquier A, Fromont-Racine M, Ecm1 is a new pre-ribosomal factor involved in pre-60S particle export, RNA 2010 May;16(5):1007-17.

Quintana-Murci L, Harmant C, Quach H, Balanovsky O, Zaporozhchenko V, Bormans C, van Helden PD, Hoal EG, Behar DM, Strong maternal Khoisan contribution to the South African coloured population: a case of gender-biased admixture, Am. J. Hum. Genet. 2010 Apr;86(4):611-20.

Rankin DJ, Rocha EP, Brown SP, What traits are carried on mobile genetic elements, and why?, Heredity (Edinb) 2011 Jan;106(1):1-10.

Bob NS, Diop BM, Renaud F, Marrama L, Durand P, Tall A, Ka B, Ekala MT, Bouchier C, Mercereau-Puijalon O, Jambou R, Parasite polymorphism and severe malaria in Dakar (Senegal): a West African urban area, PLoS ONE 2010;5(3):e9817.

Andriantsoanirina V, Bouchier C, Tichit M, Jahevitra M, Rabearimanana S, Randrianjafy R, Ratsimbasoa A, Mercereau-Puijalon O, Durand R, Ménard D, Origins of the recent emergence of Plasmodium falciparum pyrimethamine resistance alleles in Madagascar, Antimicrob. Agents Chemother. 2010 Jun;54(6):2323-9.

Ménard D, Barnadas C, Bouchier C, Henry-Halldin C, Gray LR, Ratsimbasoa A, Thonier V, Carod JF, Domarle O, Colin Y, Bertrand O, Picot J, King CL, Grimberg BT, Mercereau-Puijalon O, Zimmerman PA, Plasmodium vivax clinical malaria is commonly observed in Duffy-negative Malagasy people, Proc. Natl. Acad. Sci. U.S.A. 2010 Mar;107(13):5967-71.

Najjar I, Deglesne PA, Schischmanoff PO, Fabre EE, Boisson-Dupuis S, Nimmerjahn F, Bornkamm GW, Dusanter-Fourt I, Fagard R, STAT1-dependent IgG cell-surface expression in a human B cell line derived from a STAT1-deficient patient, J. Leukoc. Biol. 2010 Jun;87(6):1145-52.

Lesage S, Patin E, Condroyer C, Leutenegger AL, Lohmann E, Giladi N, Bar-Shira A, Belarbi S, Hecham N, Pollak P, Ouvrard-Hernandez AM, Bardien S, Carr J, Benhassine T, Tomiyama H, Pirkevi C, Hamadouche T, Cazeneuve C, Basak AN, Hattori N, Dürr A, Tazir M, Orr-Urtreger A, Quintana-Murci L, Brice A, , Parkinson’s disease-related LRRK2 G2019S mutation results from independent mutational events in humans, Hum. Mol. Genet. 2010 May;19(10):1998-2004.

Lim P, Wongsrichanalai C, Chim P, Khim N, Kim S, Chy S, Sem R, Nhem S, Yi P, Duong S, Bouth DM, Genton B, Beck HP, Gobert JG, Rogers WO, Coppee JY, Fandeur T, Mercereau-Puijalon O, Ringwald P, Le Bras J, Ariey F, Decreased in vitro susceptibility of Plasmodium falciparum isolates to artesunate, mefloquine, chloroquine, and quinine in Cambodia from 2001 to 2007, Antimicrob. Agents Chemother. 2010 May;54(5):2135-42.

Cassar O, Bassot S, Plancoulaine S, Quintana-Murci L, Harmant C, Gurtsevitch V, Senyuta NB, Yakovleva LS, de The G, Gessain A, Human herpesvirus 8, Southern Siberia, Emerging Infect. Dis. 2010 Mar;16(3):580-2.

Aguilera A, Souza-Egipsy V, González-Toril E, Rendueles O, Amils R, Eukaryotic microbial diversity of phototrophic microbial mats in two Icelandic geothermalhot springs, Int. Microbiol. 2010 Mar;13(1):21-32.

Arsène-Ploetze F, Koechler S, Marchal M, Coppée JY, Chandler M, Bonnefoy V, Brochier-Armanet C, Barakat M, Barbe V, Battaglia-Brunet F, Bruneel O, Bryan CG, Cleiss-Arnold J, Cruveiller S, Erhardt M, Heinrich-Salmeron A, Hommais F, Joulian C, Krin E, Lieutaud A, Lièvremont D, Michel C, Muller D, Ortet P, Proux C, Siguier P, Roche D, Rouy Z, Salvignol G, Slyemi D, Talla E, Weiss S, Weissenbach J, Médigue C, Bertin PN, Structure, function, and evolution of the Thiomonas spp. genome, PLoS Genet. 2010 Feb;6(2):e1000859.

Jambou R, Martinelli A, Pinto J, Gribaldo S, Legrand E, Niang M, Kim N, Pharath L, Volnay B, Ekala MT, Bouchier C, Fandeur T, Berzosa P, Benito A, Ferreira ID, Ferreira C, Vieira PP, Alecrim Md, Mercereau-Puijalon O, Cravo P, Geographic structuring of the Plasmodium falciparum sarco(endo)plasmic reticulum Ca2+ ATPase (PfSERCA) gene diversity, PLoS ONE 2010;5(2):e9424.

Giannouli M, Cuccurullo S, Crivaro V, Di Popolo A, Bernardo M, Tomasone F, Amato G, Brisse S, Triassi M, Utili R, Zarrilli R, Molecular epidemiology of multidrug-resistant Acinetobacter baumannii in a tertiary care hospital in Naples, Italy, shows the emergence of a novel epidemic clone, J. Clin. Microbiol. 2010 Apr;48(4):1223-30.

Ramirez MS, Don M, Merkier AK, Bistué AJ, Zorreguieta A, Centrón D, Tolmasky ME, Naturally competent Acinetobacter baumannii clinical isolate as a convenient model for genetic studies, J. Clin. Microbiol. 2010 Apr;48(4):1488-90.

Cazalet C, Gomez-Valero L, Rusniok C, Lomma M, Dervins-Ravault D, Newton HJ, Sansom FM, Jarraud S, Zidane N, Ma L, Bouchier C, Etienne J, Hartland EL, Buchrieser C, Analysis of the Legionella longbeachae genome and transcriptome uncovers unique strategies to cause Legionnaires’ disease, PLoS Genet. 2010 Feb;6(2):e1000851.

Koechler S, Cleiss-Arnold J, Proux C, Sismeiro O, Dillies MA, Goulhen-Chollet F, Hommais F, Lièvremont D, Arsène-Ploetze F, Coppée JY, Bertin PN, Multiple controls affect arsenite oxidase gene expression in Herminiimonas arsenicoxydans, BMC Microbiol. 2010;10:53.

Najjar I, Fagard R, STAT1 and pathogens, not a friendly relationship, Biochimie 2010 May;92(5):425-44.

Rusniok C, Couvé E, Da Cunha V, El Gana R, Zidane N, Bouchier C, Poyart C, Leclercq R, Trieu-Cuot P, Glaser P, Genome sequence of Streptococcus gallolyticus: insights into its adaptation to the bovine rumen and its ability to cause endocarditis, J. Bacteriol. 2010 Apr;192(8):2266-76.

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Chayot R, Montagne B, Mazel D, Ricchetti M, An end-joining repair mechanism in Escherichia coli, Proc. Natl. Acad. Sci. U.S.A. 2010 Feb;107(5):2141-6.

San Millan A, Garcia-Cobos S, Escudero JA, Hidalgo L, Gutierrez B, Carrilero L, Campos J, Gonzalez-Zorn B, Haemophilus influenzae clinical isolates with plasmid pB1000 bearing blaROB-1: fitness cost and interspecies dissemination, Antimicrob. Agents Chemother. 2010 Apr;54(4):1506-11.

Vieira-Silva S, Rocha EP, The systemic imprint of growth and its uses in ecological (meta)genomics, PLoS Genet. 2010 Jan;6(1):e1000808.

Duperthuy M, Binesse J, Le Roux F, Romestand B, Caro A, Got P, Givaudan A, Mazel D, Bachère E, Destoumieux-Garzón D, The major outer membrane protein OmpU of Vibrio splendidus contributes to host antimicrobial peptide resistance and is required for virulence in the oyster Crassostrea gigas, Environ. Microbiol. 2010 Apr;12(4):951-63.

Delétoile A, Passet V, Aires J, Chambaud I, Butel MJ, Smokvina T, Brisse S, Species delineation and clonal diversity in four Bifidobacterium species as revealed by multilocus sequencing, Res. Microbiol. 2010 Mar;161(2):82-90.

Jové T, Da Re S, Denis F, Mazel D, Ploy MC, Inverse correlation between promoter strength and excision activity in class 1 integrons, PLoS Genet. 2010 Jan;6(1):e1000793.

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Guérin E, Cambray G, Da Re S, Mazel D, Ploy MC, [The SOS response controls antibiotic resistance by regulating the integrase of integrons], Med Sci (Paris) 2010 Jan;26(1):28-30.

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Mil-Homens D, Rocha EP, Fialho AM, Genome-wide analysis of DNA repeats in Burkholderia cenocepacia J2315 identifies a novel adhesin-like gene unique to epidemic-associated strains of the ET-12 lineage, Microbiology (Reading, Engl.) 2010 Apr;156(Pt 4):1084-96.

Louicharoen C, Patin E, Paul R, Nuchprayoon I, Witoonpanich B, Peerapittayamongkol C, Casademont I, Sura T, Laird NM, Singhasivanon P, Quintana-Murci L, Sakuntabhai A, Positively selected G6PD-Mahidol mutation reduces Plasmodium vivax density in Southeast Asians, Science 2009 Dec;326(5959):1546-9.

Jacquier A, The complex eukaryotic transcriptome: unexpected pervasive transcription and novel small RNAs, Nat. Rev. Genet. 2009 Dec;10(12):833-44.

Barreiro LB, Quintana-Murci L, From evolutionary genetics to human immunology: how selection shapes host defence genes, Nat. Rev. Genet. 2010 Jan;11(1):17-30.

Fagegaltier D, Bougé AL, Berry B, Poisot E, Sismeiro O, Coppée JY, Théodore L, Voinnet O, Antoniewski C, The endogenous siRNA pathway is involved in heterochromatin formation in Drosophila, Proc. Natl. Acad. Sci. U.S.A. 2009 Dec;106(50):21258-63.

Kafasla P, Barrass JD, Thompson E, Fromont-Racine M, Jacquier A, Beggs JD, Lewis J, Interaction of yeast eIF4G with spliceosome components: implications in pre-mRNA processing events, RNA Biol 2009 Nov-Dec;6(5):563-74.

Frumerie C, Ducos-Galand M, Gopaul DN, Mazel D, The relaxed requirements of the integron cleavage site allow predictable changes in integron target specificity, Nucleic Acids Res. 2010 Jan;38(2):559-69.

Pallafacchina G, François S, Regnault B, Czarny B, Dive V, Cumano A, Montarras D, Buckingham M, An adult tissue-specific stem cell in its niche: a gene profiling analysis of in vivo quiescent and activated muscle satellite cells, Stem Cell Res 2010 Mar;4(2):77-91.

Pothlichet J, Burtey A, Kubarenko AV, Caignard G, Solhonne B, Tangy F, Ben-Ali M, Quintana-Murci L, Heinzmann A, Chiche JD, Vidalain PO, Weber AN, Chignard M, Si-Tahar M, Study of human RIG-I polymorphisms identifies two variants with an opposite impact on the antiviral immune response, PLoS ONE 2009;4(10):e7582.

Grainger RJ, Barrass JD, Jacquier A, Rain JC, Beggs JD, Physical and genetic interactions of yeast Cwc21p, an ortholog of human SRm300/SRRM2, suggest a role at the catalytic center of the spliceosome, RNA 2009 Dec;15(12):2161-73.

Koszul R, Kleckner N, Dynamic chromosome movements during meiosis: a way to eliminate unwanted connections?, Trends Cell Biol. 2009 Dec;19(12):716-24.

Noranate N, Prugnolle F, Jouin H, Tall A, Marrama L, Sokhna C, Ekala MT, Guillotte M, Bischoff E, Bouchier C, Patarapotikul J, Ohashi J, Trape JF, Rogier C, Mercereau-Puijalon O, Population diversity and antibody selective pressure to Plasmodium falciparum MSP1 block2 locus in an African malaria-endemic setting, BMC Microbiol. 2009;9:219.

Steenkeste N, Dillies MA, Khim N, Sismeiro O, Chy S, Lim P, Crameri A, Bouchier C, Mercereau-Puijalon O, Beck HP, Imwong M, Dondorp AM, Socheat D, Rogier C, Coppée JY, Ariey F, FlexiChip package: an universal microarray with a dedicated analysis software for high-thoughput SNPs detection linked to anti-malarial drug resistance, Malar. J. 2009;8:229.

Matondo M, Bousquet-Dubouch MP, Gallay N, Uttenweiler-Joseph S, Recher C, Payrastre B, Manenti S, Monsarrat B, Burlet-Schiltz O, Proteasome inhibitor-induced apoptosis in acute myeloid leukemia: a correlation with the proteasome status, Leuk. Res. 2010 Apr;34(4):498-506.

Regnault B, Osorio Y Fortea J, Miao D, Eisenbarth G, Melanitou E, Early over expression of messenger RNA for multiple genes, including insulin, in the Pancreatic Lymph Nodes of NOD mice is associated with Islet Autoimmunity, BMC Med Genomics 2009;2:63.

Zagnoni M, Baroud CN, Cooper JM, Electrically initiated upstream coalescence cascade of droplets in a microfluidic flow, Phys Rev E Stat Nonlin Soft Matter Phys 2009 Oct;80(4 Pt 2):046303.

Nogueira T, Rankin DJ, Touchon M, Taddei F, Brown SP, Rocha EP, Horizontal gene transfer of the secretome drives the evolution of bacterial cooperation and virulence, Curr. Biol. 2009 Nov;19(20):1683-91.

Monfort L, Caro V, Devaux Z, Delannoy AS, Brisse S, Sednaoui P, First neisseria gonorrhoeae genotyping analysis in france: identification of a strain cluster with reduced susceptibility to Ceftriaxone, J. Clin. Microbiol. 2009 Nov;47(11):3540-5.

Gutierrez B, Herrera-Leon S, Escudero JA, Hidalgo L, Gonzalez-Sanz R, Arroyo M, San Millan A, Echeita MA, Gonzalez-Zorn B, Novel genetic environment of qnrB2 associated with TEM-1 and SHV-12 on pB1004, an IncHI2 plasmid, in Salmonella Bredeney BB1047 from Spain, J. Antimicrob. Chemother. 2009 Dec;64(6):1334-6.

Elhani D, Bakir L, Aouni M, Passet V, Arlet G, Brisse S, Weill FX, Molecular epidemiology of extended-spectrum beta-lactamase-producing Klebsiella pneumoniae strains in a university hospital in Tunis, Tunisia, 1999-2005, Clin. Microbiol. Infect. 2010 Feb;16(2):157-64.

Abraham AL, Pothier J, Rocha EP, Alternative to homo-oligomerisation: the creation of local symmetry in proteins by internal amplification, J. Mol. Biol. 2009 Dec;394(3):522-34.

Bouvier M, Ducos-Galand M, Loot C, Bikard D, Mazel D, Structural features of single-stranded integron cassette attC sites and their role in strand selection, PLoS Genet. 2009 Sep;5(9):e1000632.

Ortiz M, Guex N, Patin E, Martin O, Xenarios I, Ciuffi A, Quintana-Murci L, Telenti A, Evolutionary trajectories of primate genes involved in HIV pathogenesis, Mol. Biol. Evol. 2009 Dec;26(12):2865-75.

Heyer E, Balaresque P, Jobling MA, Quintana-Murci L, Chaix R, Segurel L, Aldashev A, Hegay T, Genetic diversity and the emergence of ethnic groups in Central Asia, BMC Genet. 2009;10:49.

Arcangioli B, Ben Hassine S, Unrepaired oxidative DNA damage induces an ATR/ATM apoptotic-like response in quiescent fission yeast, Cell Cycle 2009 Aug;8(15):2326-31.

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Oliveira PH, Prazeres DM, Monteiro GA, Deletion formation mutations in plasmid expression vectors are unfavored by runaway amplification conditions and differentially selected under kanamycin stress, J. Biotechnol. 2009 Sep;143(4):231-8.

van Schaik W, Château A, Dillies MA, Coppée JY, Sonenshein AL, Fouet A, The global regulator CodY regulates toxin gene expression in Bacillus anthracis and is required for full virulence, Infect. Immun. 2009 Oct;77(10):4437-45.

Bierne H, Tham TN, Batsche E, Dumay A, Leguillou M, Kernéis-Golsteyn S, Regnault B, Seeler JS, Muchardt C, Feunteun J, Cossart P, Human BAHD1 promotes heterochromatic gene silencing, Proc. Natl. Acad. Sci. U.S.A. 2009 Aug;106(33):13826-31.

Oliveira PH, Prather KJ, Prazeres DM, Monteiro GA, Structural instability of plasmid biopharmaceuticals: challenges and implications, Trends Biotechnol. 2009 Sep;27(9):503-11.

Forquin MP, Duvergey H, Proux C, Loux V, Mounier J, Landaud S, Coppée JY, Gibrat JF, Bonnarme P, Martin-Verstraete I, Vallaeys T, Identification of brevibacteriaceae by multilocus sequence typing and comparative genomic hybridization analyses, Appl. Environ. Microbiol. 2009 Oct;75(19):6406-9.

Soler Bistué AJ, Martín FA, Vozza N, Ha H, Joaquín JC, Zorreguieta A, Tolmasky ME, Inhibition of aac(6′)-Ib-mediated amikacin resistance by nuclease-resistant external guide sequences in bacteria, Proc. Natl. Acad. Sci. U.S.A. 2009 Aug;106(32):13230-5.

Paragas N, Nickolas TL, Wyatt C, Forster CS, Sise M, Morgello S, Jagla B, Buchen C, Stella P, Sanna-Cherchi S, Carnevali ML, Mattei S, Bovino A, Argentiero L, Magnano A, Devarajan P, Schmidt-Ott KM, Allegri L, Klotman P, D'Agati V, Gharavi AG, Barasch J, Urinary NGAL marks cystic disease in HIV-associated nephropathy, J. Am. Soc. Nephrol. 2009 Aug;20(8):1687-92.

Ivanova EP, Christen R, Bizet C, Clermont D, Motreff L, Bouchier C, Zhukova NV, Crawford RJ, Kiprianova EA, Pseudomonas brassicacearum subsp. neoaurantiaca subsp. nov., orange-pigmented bacteria isolated from soil and the rhizosphere of agricultural plants, Int. J. Syst. Evol. Microbiol. 2009 Oct;59(Pt 10):2476-81.

Barreiro LB, Ben-Ali M, Quach H, Laval G, Patin E, Pickrell JK, Bouchier C, Tichit M, Neyrolles O, Gicquel B, Kidd JR, Kidd KK, Alcaïs A, Ragimbeau J, Pellegrini S, Abel L, Casanova JL, Quintana-Murci L, Evolutionary dynamics of human Toll-like receptors and their different contributions to host defense, PLoS Genet. 2009 Jul;5(7):e1000562.

Bouchier C, Ma L, Créno S, Dujon B, Fairhead C, Complete mitochondrial genome sequences of three Nakaseomyces species reveal invasion by palindromic GC clusters and considerable size expansion, FEMS Yeast Res. 2009 Dec;9(8):1283-92.

Payen C, Fischer G, Marck C, Proux C, Sherman DJ, Coppée JY, Johnston M, Dujon B, Neuvéglise C, Unusual composition of a yeast chromosome arm is associated with its delayed replication, Genome Res. 2009 Oct;19(10):1710-21.

Barnadas C, Musset L, Legrand E, Tichit M, Briolant S, Fusai T, Rogier C, Bouchier C, Picot S, Ménard D, High prevalence and fixation of Plasmodium vivax dhfr/dhps mutations related to sulfadoxine/pyrimethamine resistance in French Guiana, Am. J. Trop. Med. Hyg. 2009 Jul;81(1):19-22.

San Millan A, Escudero JA, Gutierrez B, Hidalgo L, Garcia N, Llagostera M, Dominguez L, Gonzalez-Zorn B, Multiresistance in Pasteurella multocida is mediated by coexistence of small plasmids, Antimicrob. Agents Chemother. 2009 Aug;53(8):3399-404.

, Souciet JL, Dujon B, Gaillardin C, Johnston M, Baret PV, Cliften P, Sherman DJ, Weissenbach J, Westhof E, Wincker P, Jubin C, Poulain J, Barbe V, Ségurens B, Artiguenave F, Anthouard V, Vacherie B, Val ME, Fulton RS, Minx P, Wilson R, Durrens P, Jean G, Marck C, Martin T, Nikolski M, Rolland T, Seret ML, Casarégola S, Despons L, Fairhead C, Fischer G, Lafontaine I, Leh V, Lemaire M, de Montigny J, Neuvéglise C, Thierry A, Blanc-Lenfle I, Bleykasten C, Diffels J, Fritsch E, Frangeul L, Goëffon A, Jauniaux N, Kachouri-Lafond R, Payen C, Potier S, Pribylova L, Ozanne C, Richard GF, Sacerdot C, Straub ML, Talla E, Comparative genomics of protoploid Saccharomycetaceae, Genome Res. 2009 Oct;19(10):1696-709.

Soutourina O, Poupel O, Coppée JY, Danchin A, Msadek T, Martin-Verstraete I, CymR, the master regulator of cysteine metabolism in Staphylococcus aureus, controls host sulphur source utilization and plays a role in biofilm formation, Mol. Microbiol. 2009 Jul;73(2):194-211.

van Asten L, van der Lubben M, van den Wijngaard C, van Pelt W, Verheij R, Jacobi A, Overduin P, Meijer A, Luijt D, Claas E, Hermans M, Melchers W, Rossen J, Schuurman R, Wolffs P, Boucher C, Bouchier C, Schirm J, Kroes L, Leenders S, Galama J, Peeters M, van Loon A, Stobberingh E, Schutten M, Koopmans M, Strengthening the diagnostic capacity to detect Bio Safety Level 3 organisms in unusual respiratory viral outbreaks, J. Clin. Virol. 2009 Jul;45(3):185-90.

Burgio G, Baylac M, Heyer E, Montagutelli X, Genetic analysis of skull shape variation and morphological integration in the mouse using interspecific recombinant congenic strains between C57BL/6 and mice of the mus spretus species, Evolution 2009 Oct;63(10):2668-86.

Jacquier H, Zaoui C, Sanson-le Pors MJ, Mazel D, Berçot B, Translation regulation of integrons gene cassette expression by the attC sites, Mol. Microbiol. 2009 Jun;72(6):1475-86.

Andriantsoanirina V, Lascombes V, Ratsimbasoa A, Bouchier C, Hoffman J, Tichit M, Rabarijaona LP, Durand R, Ménard D, Rapid detection of point mutations in Plasmodium falciparum genes associated with antimalarial drugs resistance by using High-Resolution Melting analysis, J. Microbiol. Methods 2009 Aug;78(2):165-70.

Guerin E, Cambray G, Sanchez-Alberola N, Campoy S, Erill I, Da Re S, Gonzalez-Zorn B, Barbé J, Ploy MC, Mazel D, The SOS response controls integron recombination, Science 2009 May;324(5930):1034.

Toledo-Arana A, Dussurget O, Nikitas G, Sesto N, Guet-Revillet H, Balestrino D, Loh E, Gripenland J, Tiensuu T, Vaitkevicius K, Barthelemy M, Vergassola M, Nahori MA, Soubigou G, Régnault B, Coppée JY, Lecuit M, Johansson J, Cossart P, The Listeria transcriptional landscape from saprophytism to virulence, Nature 2009 Jun;459(7249):950-6.

Verneuil E, Cordero M, Gallaire F, Baroud CN, Laser-induced force on a microfluidic drop: origin and magnitude, Langmuir 2009 May;25(9):5127-34.

Clermont D, Diard S, Bouchier C, Vivier C, Bimet F, Motreff L, Welker M, Kallow W, Bizet C, Microbacterium binotii sp. nov., isolated from human blood, Int. J. Syst. Evol. Microbiol. 2009 May;59(Pt 5):1016-22.

Treangen TJ, Abraham AL, Touchon M, Rocha EP, Genesis, effects and fates of repeats in prokaryotic genomes, FEMS Microbiol. Rev. 2009 May;33(3):539-71.

Berniell-Lee G, Calafell F, Bosch E, Heyer E, Sica L, Mouguiama-Daouda P, van der Veen L, Hombert JM, Quintana-Murci L, Comas D, Genetic and demographic implications of the Bantu expansion: insights from human paternal lineages, Mol. Biol. Evol. 2009 Jul;26(7):1581-9.

Patin E, Laval G, Barreiro LB, Salas A, Semino O, Santachiara-Benerecetti S, Kidd KK, Kidd JR, Van der Veen L, Hombert JM, Gessain A, Froment A, Bahuchet S, Heyer E, Quintana-Murci L, Inferring the demographic history of African farmers and pygmy hunter-gatherers using a multilocus resequencing data set, PLoS Genet. 2009 Apr;5(4):e1000448.

Le Roux F, Zouine M, Chakroun N, Binesse J, Saulnier D, Bouchier C, Zidane N, Ma L, Rusniok C, Lajus A, Buchrieser C, Médigue C, Polz MF, Mazel D, Genome sequence of Vibrio splendidus: an abundant planctonic marine species with a large genotypic diversity, Environ. Microbiol. 2009 Aug;11(8):1959-70.

Treangen TJ, Darling AE, Achaz G, Ragan MA, Messeguer X, Rocha EP, A novel heuristic for local multiple alignment of interspersed DNA repeats, IEEE/ACM Trans Comput Biol Bioinform 2009 Apr-Jun;6(2):180-9.

Holbein S, Wengi A, Decourty L, Freimoser FM, Jacquier A, Dichtl B, Cordycepin interferes with 3′ end formation in yeast independently of its potential to terminate RNA chain elongation, RNA 2009 May;15(5):837-49.

Brisse S, Fevre C, Passet V, Issenhuth-Jeanjean S, Tournebize R, Diancourt L, Grimont P, Virulent clones of Klebsiella pneumoniae: identification and evolutionary scenario based on genomic and phenotypic characterization, PLoS ONE 2009;4(3):e4982.

Osorio y Fortéa J, de La Llave E, Regnault B, Coppée JY, Milon G, Lang T, Prina E, Transcriptional signatures of BALB/c mouse macrophages housing multiplying Leishmania amazonensis amastigotes, BMC Genomics 2009;10:119.

Pagès F, Peyrefitte CN, Mve MT, Jarjaval F, Brisse S, Iteman I, Gravier P, Tolou H, Nkoghe D, Grandadam M, Aedes albopictus mosquito: the main vector of the 2007 Chikungunya outbreak in Gabon, PLoS ONE 2009;4(3):e4691.

Ibrahim ML, Steenkeste N, Khim N, Adam HH, Konaté L, Coppée JY, Ariey F, Duchemin JB, Field-based evidence of fast and global increase of Plasmodium falciparum drug-resistance by DNA-microarrays and PCR/RFLP in Niger, Malar. J. 2009;8:32.

Quach H, Barreiro LB, Laval G, Zidane N, Patin E, Kidd KK, Kidd JR, Bouchier C, Veuille M, Antoniewski C, Quintana-Murci L, Signatures of purifying and local positive selection in human miRNAs, Am. J. Hum. Genet. 2009 Mar;84(3):316-27.

Ishida K, Welker M, Christiansen G, Cadel-Six S, Bouchier C, Dittmann E, Hertweck C, Tandeau de Marsac N, Plasticity and evolution of aeruginosin biosynthesis in cyanobacteria, Appl. Environ. Microbiol. 2009 Apr;75(7):2017-26.

Ben Hassine S, Arcangioli B, Tdp1 protects against oxidative DNA damage in non-dividing fission yeast, EMBO J. 2009 Mar;28(6):632-40.

Verdu P, Austerlitz F, Estoup A, Vitalis R, Georges M, Théry S, Froment A, Le Bomin S, Gessain A, Hombert JM, Van der Veen L, Quintana-Murci L, Bahuchet S, Heyer E, Origins and genetic diversity of pygmy hunter-gatherers from Western Central Africa, Curr. Biol. 2009 Feb;19(4):312-8.

Bousquet-Dubouch MP, Baudelet E, Guérin F, Matondo M, Uttenweiler-Joseph S, Burlet-Schiltz O, Monsarrat B, Affinity purification strategy to capture human endogenous proteasome complexes diversity and to identify proteasome-interacting proteins, Mol. Cell Proteomics 2009 May;8(5):1150-64.

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Assunção WG, Tabata LF, Barão VA, Rocha EP, Comparison of stress distribution between complete denture and implant-retained overdenture-2D FEA, J Oral Rehabil 2008 Oct;35(10):766-74.

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Sperandio B, Regnault B, Guo J, Zhang Z, Stanley SL, Sansonetti PJ, Pédron T, Virulent Shigella flexneri subverts the host innate immune response through manipulation of antimicrobial peptide gene expression, J. Exp. Med. 2008 May;205(5):1121-32.

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Decourty L, Saveanu C, Zemam K, Hantraye F, Frachon E, Rousselle JC, Fromont-Racine M, Jacquier A, Linking functionally related genes by sensitive and quantitative characterization of genetic interaction profiles, Proc. Natl. Acad. Sci. U.S.A. 2008 Apr;105(15):5821-6.

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Fernandez MI, Regnault B, Mulet C, Tanguy M, Jay P, Sansonetti PJ, Pédron T, Maturation of paneth cells induces the refractory state of newborn mice to Shigella infection, J. Immunol. 2008 Apr;180(7):4924-30.

Osorio Y Fortéa J, Prina E, Lang T, Milon G, Davory C, Coppée JY, Regnault B, AffyGCQC: a web-based interface to detect outlying genechips with extreme studentized deviate tests, J Bioinform Comput Biol 2008 Apr;6(2):317-34.

Labalette C, Nouët Y, Sobczak-Thepot J, Armengol C, Levillayer F, Gendron MC, Renard CA, Regnault B, Chen J, Buendia MA, Wei Y, The LIM-only protein FHL2 regulates cyclin D1 expression and cell proliferation, J. Biol. Chem. 2008 May;283(22):15201-8.

Zalloua PA, Xue Y, Khalife J, Makhoul N, Debiane L, Platt DE, Royyuru AK, Herrera RJ, Hernanz DF, Blue-Smith J, Wells RS, Comas D, Bertranpetit J, Tyler-Smith C, , Y-chromosomal diversity in Lebanon is structured by recent historical events, Am. J. Hum. Genet. 2008 Apr;82(4):873-82.

Tuikue Ndam N, Bischoff E, Proux C, Lavstsen T, Salanti A, Guitard J, Nielsen MA, Coppée JY, Gaye A, Theander T, David PH, Deloron P, Plasmodium falciparum transcriptome analysis reveals pregnancy malaria associated gene expression, PLoS ONE 2008;3(3):e1855.

Treangen TJ, Ambur OH, Tonjum T, Rocha EP, The impact of the neisserial DNA uptake sequences on genome evolution and stability, Genome Biol. 2008;9(3):R60.

Reynaud Y, Saulnier D, Mazel D, Goarant C, Le Roux F, Correlation between detection of a plasmid and high-level virulence of Vibrio nigripulchritudo, a pathogen of the shrimp Litopenaeus stylirostris, Appl. Environ. Microbiol. 2008 May;74(10):3038-47.

Soler Bistué AJ, Birshan D, Tomaras AP, Dandekar M, Tran T, Newmark J, Bui D, Gupta N, Hernandez K, Sarno R, Zorreguieta A, Actis LA, Tolmasky ME, Klebsiella pneumoniae multiresistance plasmid pMET1: similarity with the Yersinia pestis plasmid pCRY and integrative conjugative elements, PLoS ONE 2008;3(3):e1800.

Baharoglu Z, Bradley AS, Le Masson M, Tsaneva I, Michel B, ruvA Mutants that resolve Holliday junctions but do not reverse replication forks, PLoS Genet. 2008 Mar;4(3):e1000012.

Goyard S, Knechtle P, Chauvel M, Mallet A, Prévost MC, Proux C, Coppée JY, Schwarz P, Schwartz P, Dromer F, Park H, Filler SG, Janbon G, d'Enfert C, The Yak1 kinase is involved in the initiation and maintenance of hyphal growth in Candida albicans, Mol. Biol. Cell 2008 May;19(5):2251-66.

Barnadas C, Tichit M, Bouchier C, Ratsimbasoa A, Randrianasolo L, Raherinjafy R, Jahevitra M, Picot S, Ménard D, Plasmodium vivax dhfr and dhps mutations in isolates from Madagascar and therapeutic response to sulphadoxine-pyrimethamine, Malar. J. 2008 Feb;7:35.

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Vilasco M, Larrea E, Vitour D, Dabo S, Breiman A, Regnault B, Riezu JI, Eid P, Prieto J, Meurs EF, The protein kinase IKKepsilon can inhibit HCV expression independently of IFN and its own expression is downregulated in HCV-infected livers, Hepatology 2006 Dec;44(6):1635-47.

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Le Roux F, Binesse J, Saulnier D, Mazel D, Construction of a Vibrio splendidus mutant lacking the metalloprotease gene vsm by use of a novel counterselectable suicide vector, Appl. Environ. Microbiol. 2007 Feb;73(3):777-84.

Escudero JA, San Millan A, Catalan A, de la Campa AG, Rivero E, Lopez G, Dominguez L, Moreno MA, Gonzalez-Zorn B, First characterization of fluoroquinolone resistance in Streptococcus suis, Antimicrob. Agents Chemother. 2007 Feb;51(2):777-82.

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Achaz G, Boyer F, Rocha EP, Viari A, Coissac E, Repseek, a tool to retrieve approximate repeats from large DNA sequences, Bioinformatics 2007 Jan;23(1):119-21.

Loot C, Santiago N, Sanz A, Casacuberta JM, The proteins encoded by the pogo-like Lemi1 element bind the TIRs and subterminal repeated motifs of the Arabidopsis Emigrant MITE: consequences for the transposition mechanism of MITEs, Nucleic Acids Res. 2006;34(18):5238-46.

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Hurst LD, Feil EJ, Rocha EP, Protein evolution: causes of trends in amino-acid gain and loss, Nature 2006 Aug;442(7105):E11-2; discussion E12.

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Mazel D, Integrons: agents of bacterial evolution, Nat. Rev. Microbiol. 2006 Aug;4(8):608-20.

Brüggemann H, Hagman A, Jules M, Sismeiro O, Dillies MA, Gouyette C, Kunst F, Steinert M, Heuner K, Coppée JY, Buchrieser C, Virulence strategies for infecting phagocytes deduced from the in vivo transcriptional program of Legionella pneumophila, Cell. Microbiol. 2006 Aug;8(8):1228-40.

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Neyrolles O, Gicquel B, Quintana-Murci L, Towards a crucial role for DC-SIGN in tuberculosis and beyond, Trends Microbiol. 2006 Sep;14(9):383-7.

Lebreton A, Saveanu C, Decourty L, Jacquier A, Fromont-Racine M, Nsa2 is an unstable, conserved factor required for the maturation of 27 SB pre-rRNAs, J. Biol. Chem. 2006 Sep;281(37):27099-108.

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Iverson-Cabral SL, Astete SG, Cohen CR, Rocha EP, Totten PA, Intrastrain heterogeneity of the mgpB gene in Mycoplasma genitalium is extensive in vitro and in vivo and suggests that variation is generated via recombination with repetitive chromosomal sequences, Infect. Immun. 2006 Jul;74(7):3715-26.

Rocha EP, The quest for the universals of protein evolution, Trends Genet. 2006 Aug;22(8):412-6.

Carré-Mlouka A, Méjean A, Quillardet P, Ashida H, Saito Y, Yokota A, Callebaut I, Sekowska A, Dittmann E, Bouchier C, de Marsac NT, A new rubisco-like protein coexists with a photosynthetic rubisco in the planktonic cyanobacteria Microcystis, J. Biol. Chem. 2006 Aug;281(34):24462-71.

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Swidan F, Rocha EP, Shmoish M, Pinter RY, An integrative method for accurate comparative genome mapping, PLoS Comput. Biol. 2006 Aug;2(8):e75.

Weber C, Guigon G, Bouchier C, Frangeul L, Moreira S, Sismeiro O, Gouyette C, Mirelman D, Coppee JY, Guillén N, Stress by heat shock induces massive down regulation of genes and allows differential allelic expression of the Gal/GalNAc lectin in Entamoeba histolytica, Eukaryotic Cell 2006 May;5(5):871-5.

Bougnoux ME, Diogo D, François N, Sendid B, Veirmeire S, Colombel JF, Bouchier C, Van Kruiningen H, d'Enfert C, Poulain D, Multilocus sequence typing reveals intrafamilial transmission and microevolutions of Candida albicans isolates from the human digestive tract, J. Clin. Microbiol. 2006 May;44(5):1810-20.

Lebreton A, Saveanu C, Decourty L, Rain JC, Jacquier A, Fromont-Racine M, A functional network involved in the recycling of nucleocytoplasmic pre-60S factors, J. Cell Biol. 2006 May;173(3):349-60.

Soler Bistué AJ, Martín FA, Petroni A, Faccone D, Galas M, Tolmasky ME, Zorreguieta A, Vibrio cholerae InV117, a class 1 integron harboring aac(6′)-Ib and blaCTX-M-2, is linked to transposition genes, Antimicrob. Agents Chemother. 2006 May;50(5):1903-7.

MacDonald D, Demarre G, Bouvier M, Mazel D, Gopaul DN, Structural basis for broad DNA-specificity in integron recombination, Nature 2006 Apr;440(7088):1157-62.

Ariey F, Fandeur T, Durand R, Randrianarivelojosia M, Jambou R, Legrand E, Ekala MT, Bouchier C, Cojean S, Duchemin JB, Robert V, Le Bras J, Mercereau-Puijalon O, Invasion of Africa by a single pfcrt allele of South East Asian type, Malar. J. 2006;5:34.

Barreiro LB, Quach H, Krahenbuhl J, Khaliq S, Mohyuddin A, Mehdi SQ, Gicquel B, Neyrolles O, Quintana-Murci L, DC-SIGN interacts with Mycobacterium leprae but sequence variation in this lectin is not associated with leprosy in the Pakistani population, Hum. Immunol. 2006 Jan-Feb;67(1-2):102-7.

Oliveira PH, Batagov A, Ward J, Baganz F, Krabben P, Identification of erythrobactin, a hydroxamate-type siderophore produced by Saccharopolyspora erythraea, Lett. Appl. Microbiol. 2006 Apr;42(4):375-80.

Chaze T, Bouley J, Chambon C, Barboiron C, Picard B, Mapping of alkaline proteins in bovine skeletal muscle, Proteomics 2006 Apr;6(8):2571-5.

Fischer G, Rocha EP, Brunet F, Vergassola M, Dujon B, Highly variable rates of genome rearrangements between hemiascomycetous yeast lineages, PLoS Genet. 2006 Mar;2(3):e32.

Rosas-Magallanes V, Deschavanne P, Quintana-Murci L, Brosch R, Gicquel B, Neyrolles O, Horizontal transfer of a virulence operon to the ancestor of Mycobacterium tuberculosis, Mol. Biol. Evol. 2006 Jun;23(6):1129-35.

Couturier E, Rocha EP, Replication-associated gene dosage effects shape the genomes of fast-growing bacteria but only for transcription and translation genes, Mol. Microbiol. 2006 Mar;59(5):1506-18.

Koszul R, Dujon B, Fischer G, Stability of large segmental duplications in the yeast genome, Genetics 2006 Apr;172(4):2211-22.

Kehr JC, Zilliges Y, Springer A, Disney MD, Ratner DD, Bouchier C, Seeberger PH, de Marsac NT, Dittmann E, A mannan binding lectin is involved in cell-cell attachment in a toxic strain of Microcystis aeruginosa, Mol. Microbiol. 2006 Feb;59(3):893-906.

Baharoglu Z, Petranovic M, Flores MJ, Michel B, RuvAB is essential for replication forks reversal in certain replication mutants, EMBO J. 2006 Feb;25(3):596-604.

Tien MT, Girardin SE, Regnault B, Le Bourhis L, Dillies MA, Coppée JY, Bourdet-Sicard R, Sansonetti PJ, Pédron T, Anti-inflammatory effect of Lactobacillus casei on Shigella-infected human intestinal epithelial cells, J. Immunol. 2006 Jan;176(2):1228-37.

Patin E, Barreiro LB, Sabeti PC, Austerlitz F, Luca F, Sajantila A, Behar DM, Semino O, Sakuntabhai A, Guiso N, Gicquel B, McElreavey K, Harding RM, Heyer E, Quintana-Murci L, Deciphering the ancient and complex evolutionary history of human arylamine N-acetyltransferase genes, Am. J. Hum. Genet. 2006 Mar;78(3):423-36.

Behar DM, Metspalu E, Kivisild T, Achilli A, Hadid Y, Tzur S, Pereira L, Amorim A, Quintana-Murci L, Majamaa K, Herrnstadt C, Howell N, Balanovsky O, Kutuev I, Pshenichnov A, Gurwitz D, Bonne-Tamir B, Torroni A, Villems R, Skorecki K, The matrilineal ancestry of Ashkenazi Jewry: portrait of a recent founder event, Am. J. Hum. Genet. 2006 Mar;78(3):487-97.

Barreiro LB, Neyrolles O, Babb CL, Tailleux L, Quach H, McElreavey K, Helden PD, Hoal EG, Gicquel B, Quintana-Murci L, Promoter variation in the DC-SIGN-encoding gene CD209 is associated with tuberculosis, PLoS Med. 2006 Feb;3(2):e20.

Mayer T, Jagla B, Wyler MR, Kelly PD, Aulner N, Beard M, Barger G, Többen U, Smith DH, Brandén L, Rothman JE, Cell-based assays using primary endothelial cells to study multiple steps in inflammation, Meth. Enzymol. 2006;414:266-83.

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Marqué S, Poirel L, Héritier C, Brisse S, Blasco MD, Filip R, Coman G, Naas T, Nordmann P, Regional occurrence of plasmid-mediated carbapenem-hydrolyzing oxacillinase OXA-58 in Acinetobacter spp. in Europe, J. Clin. Microbiol. 2005 Sep;43(9):4885-8.

Huys G, Cnockaert M, Nemec A, Dijkshoorn L, Brisse S, Vaneechoutte M, Swings J, Repetitive-DNA-element PCR fingerprinting and antibiotic resistance of pan-European multi-resistant Acinetobacter baumannii clone III strains, J. Med. Microbiol. 2005 Sep;54(Pt 9):851-6.

Collura A, Blaisonneau J, Baldacci G, Francesconi S, The fission yeast Crb2/Chk1 pathway coordinates the DNA damage and spindle checkpoint in response to replication stress induced by topoisomerase I inhibitor, Mol. Cell. Biol. 2005 Sep;25(17):7889-99.

Rocha EP, Cornet E, Michel B, Comparative and evolutionary analysis of the bacterial homologous recombination systems, PLoS Genet. 2005 Aug;1(2):e15.

Val ME, Bouvier M, Campos J, Sherratt D, Cornet F, Mazel D, Barre FX, The single-stranded genome of phage CTX is the form used for integration into the genome of Vibrio cholerae, Mol. Cell 2005 Aug;19(4):559-66.

Gutierrez MC, Brisse S, Brosch R, Fabre M, Omaïs B, Marmiesse M, Supply P, Vincent V, Ancient origin and gene mosaicism of the progenitor of Mycobacterium tuberculosis, PLoS Pathog. 2005 Sep;1(1):e5.

Grüner AC, Hez-Deroubaix S, Snounou G, Hall N, Bouchier C, Letourneur F, Landau I, Druilhe P, Insights into the P. y. yoelii hepatic stage transcriptome reveal complex transcriptional patterns, Mol. Biochem. Parasitol. 2005 Aug;142(2):184-92.

Khim N, Bouchier C, Ekala MT, Incardona S, Lim P, Legrand E, Jambou R, Doung S, Puijalon OM, Fandeur T, Countrywide survey shows very high prevalence of Plasmodium falciparum multilocus resistance genotypes in Cambodia, Antimicrob. Agents Chemother. 2005 Aug;49(8):3147-52.

Diancourt L, Passet V, Verhoef J, Grimont PA, Brisse S, Multilocus sequence typing of Klebsiella pneumoniae nosocomial isolates, J. Clin. Microbiol. 2005 Aug;43(8):4178-82.

Fevre C, Jbel M, Passet V, Weill FX, Grimont PA, Brisse S, Six groups of the OXY beta-Lactamase evolved over millions of years in Klebsiella oxytoca, Antimicrob. Agents Chemother. 2005 Aug;49(8):3453-62.

González-Zorn B, Catalan A, Escudero JA, Domínguez L, Teshager T, Porrero C, Moreno MA, Genetic basis for dissemination of armA, J. Antimicrob. Chemother. 2005 Sep;56(3):583-5.

Fang G, Rocha E, Danchin A, How essential are nonessential genes?, Mol. Biol. Evol. 2005 Nov;22(11):2147-56.

Pain A, Renauld H, Berriman M, Murphy L, Yeats CA, Weir W, Kerhornou A, Aslett M, Bishop R, Bouchier C, Cochet M, Coulson RM, Cronin A, de Villiers EP, Fraser A, Fosker N, Gardner M, Goble A, Griffiths-Jones S, Harris DE, Katzer F, Larke N, Lord A, Maser P, McKellar S, Mooney P, Morton F, Nene V, O'Neil S, Price C, Quail MA, Rabbinowitsch E, Rawlings ND, Rutter S, Saunders D, Seeger K, Shah T, Squares R, Squares S, Tivey A, Walker AR, Woodward J, Dobbelaere DA, Langsley G, Rajandream MA, McKeever D, Shiels B, Tait A, Barrell B, Hall N, Genome of the host-cell transforming parasite Theileria annulata compared with T. parva, Science 2005 Jul;309(5731):131-3.

Skurnik D, Le Menac'h A, Zurakowski D, Mazel D, Courvalin P, Denamur E, Andremont A, Ruimy R, Integron-associated antibiotic resistance and phylogenetic grouping of Escherichia coli isolates from healthy subjects free of recent antibiotic exposure, Antimicrob. Agents Chemother. 2005 Jul;49(7):3062-5.

Jagla B, Aulner N, Kelly PD, Song D, Volchuk A, Zatorski A, Shum D, Mayer T, De Angelis DA, Ouerfelli O, Rutishauser U, Rothman JE, Sequence characteristics of functional siRNAs, RNA 2005 Jun;11(6):864-72.

Wyers F, Rougemaille M, Badis G, Rousselle JC, Dufour ME, Boulay J, Régnault B, Devaux F, Namane A, Séraphin B, Libri D, Jacquier A, Cryptic pol II transcripts are degraded by a nuclear quality control pathway involving a new poly(A) polymerase, Cell 2005 Jun;121(5):725-37.

LaCava J, Houseley J, Saveanu C, Petfalski E, Thompson E, Jacquier A, Tollervey D, RNA degradation by the exosome is promoted by a nuclear polyadenylation complex, Cell 2005 Jun;121(5):713-24.

Torchet C, Badis G, Devaux F, Costanzo G, Werner M, Jacquier A, The complete set of H/ACA snoRNAs that guide rRNA pseudouridylations in Saccharomyces cerevisiae, RNA 2005 Jun;11(6):928-38.

Froment C, Uttenweiler-Joseph S, Bousquet-Dubouch MP, Matondo M, Borges JP, Esmenjaud C, Lacroix C, Monsarrat B, Burlet-Schiltz O, A quantitative proteomic approach using two-dimensional gel electrophoresis and isotope-coded affinity tag labeling for studying human 20S proteasome heterogeneity, Proteomics 2005 Jun;5(9):2351-63.

Moulédous L, Neasta J, Uttenweiler-Joseph S, Stella A, Matondo M, Corbani M, Monsarrat B, Meunier JC, Long-term morphine treatment enhances proteasome-dependent degradation of G beta in human neuroblastoma SH-SY5Y cells: correlation with onset of adenylate cyclase sensitization, Mol. Pharmacol. 2005 Aug;68(2):467-76.

Monot M, Honoré N, Garnier T, Araoz R, Coppée JY, Lacroix C, Sow S, Spencer JS, Truman RW, Williams DL, Gelber R, Virmond M, Flageul B, Cho SN, Ji B, Paniz-Mondolfi A, Convit J, Young S, Fine PE, Rasolofo V, Brennan PJ, Cole ST, On the origin of leprosy, Science 2005 May;308(5724):1040-2.

Najjar I, Baran-Marszak F, Le Clorennec C, Laguillier C, Schischmanoff O, Youlyouz-Marfak I, Schlee M, Bornkamm GW, Raphaël M, Feuillard J, Fagard R, Latent membrane protein 1 regulates STAT1 through NF-kappaB-dependent interferon secretion in Epstein-Barr virus-immortalized B cells, J. Virol. 2005 Apr;79(8):4936-43.

Demarre G, Guérout AM, Matsumoto-Mashimo C, Rowe-Magnus DA, Marlière P, Mazel D, A new family of mobilizable suicide plasmids based on broad host range R388 plasmid (IncW) and RP4 plasmid (IncPalpha) conjugative machineries and their cognate Escherichia coli host strains, Res. Microbiol. 2005 Mar;156(2):245-55.

Biskri L, Bouvier M, Guérout AM, Boisnard S, Mazel D, Comparative study of class 1 integron and Vibrio cholerae superintegron integrase activities, J. Bacteriol. 2005 Mar;187(5):1740-50.

Carretto E, Barbarini D, Couto I, De Vitis D, Marone P, Verhoef J, De Lencastre H, Brisse S, Identification of coagulase-negative staphylococci other than Staphylococcus epidermidis by automated ribotyping, Clin. Microbiol. Infect. 2005 Mar;11(3):177-84.

Figueiredo LM, Rocha EP, Mancio-Silva L, Prevost C, Hernandez-Verdun D, Scherf A, The unusually large Plasmodium telomerase reverse-transcriptase localizes in a discrete compartment associated with the nucleolus, Nucleic Acids Res. 2005;33(3):1111-22.

Huntzinger E, Boisset S, Saveanu C, Benito Y, Geissmann T, Namane A, Lina G, Etienne J, Ehresmann B, Ehresmann C, Jacquier A, Vandenesch F, Romby P, Staphylococcus aureus RNAIII and the endoribonuclease III coordinately regulate spa gene expression, EMBO J. 2005 Feb;24(4):824-35.

Abitbol M, Bernex F, Puy H, Jouault H, Deybach JC, Guénet JL, Montagutelli X, A mouse model provides evidence that genetic background modulates anemia and liver injury in erythropoietic protoporphyria, Am. J. Physiol. Gastrointest. Liver Physiol. 2005 Jun;288(6):G1208-16.

Brisse S, Duijkeren Ev, Identification and antimicrobial susceptibility of 100 Klebsiella animal clinical isolates, Vet. Microbiol. 2005 Feb;105(3-4):307-12.

Forissier JE, Bonne G, Bouchier C, Duboscq-Bidot L, Richard P, Briault S, Moraine C, Dubourg O, Schwartz K, Komajda M, [Apical left ventricular aneurysm without atrio-ventricular block due to a lamin A/C gene mutation], Arch Mal Coeur Vaiss 2005 Jan;98(1):67-70.

Talla E, Anthouard V, Bouchier C, Frangeul L, Dujon B, The complete mitochondrial genome of the yeast Kluyveromyces thermotolerans, FEBS Lett. 2005 Jan;579(1):30-40.

Petit-Bertron AF, Pedron T, Gross U, Coppée JY, Sansonetti PJ, Cavaillon JM, Adib-Conquy M, Adherence modifies the regulation of gene expression induced by interleukin-10, Cytokine 2005 Jan;29(1):1-12.

Quintana-Murci L, Gal I, Bakhan T, Quach H, Sayar SH, Shiri-Sverdlov R, Baruch RG, McElreavey K, Dagan E, Narod S, Friedman E, The Tyr978X BRCA1 mutation: occurrence in non-Jewish Iranians and haplotype in French-Canadian and non-Ashkenazi Jews, Fam. Cancer 2005;4(2):85-8.

Holmes AM, Kaykov A, Arcangioli B, Molecular and cellular dissection of mating-type switching steps in Schizosaccharomyces pombe, Mol. Cell. Biol. 2005 Jan;25(1):303-11.

Nemec A, Dolzani L, Brisse S, van den Broek P, Dijkshoorn L, Diversity of aminoglycoside-resistance genes and their association with class 1 integrons among strains of pan-European Acinetobacter baumannii clones, J. Med. Microbiol. 2004 Dec;53(Pt 12):1233-40.

Kaykov A, Arcangioli B, A programmed strand-specific and modified nick in S. pombe constitutes a novel type of chromosomal imprint, Curr. Biol. 2004 Nov;14(21):1924-8.

Rocha EP, Codon usage bias from tRNA’s point of view: redundancy, specialization, and efficient decoding for translation optimization, Genome Res. 2004 Nov;14(11):2279-86.

Cazalet C, Rusniok C, Brüggemann H, Zidane N, Magnier A, Ma L, Tichit M, Jarraud S, Bouchier C, Vandenesch F, Kunst F, Etienne J, Glaser P, Buchrieser C, Evidence in the Legionella pneumophila genome for exploitation of host cell functions and high genome plasticity, Nat. Genet. 2004 Nov;36(11):1165-73.

Chaix R, Austerlitz F, Khegay T, Jacquesson S, Hammer MF, Heyer E, Quintana-Murci L, The genetic or mythical ancestry of descent groups: lessons from the Y chromosome, Am. J. Hum. Genet. 2004 Dec;75(6):1113-6.

Rocha EP, Order and disorder in bacterial genomes, Curr. Opin. Microbiol. 2004 Oct;7(5):519-27.

Brisse S, Cordevant C, Vandamme P, Bidet P, Loukil C, Chabanon G, Lange M, Bingen E, Species distribution and ribotype diversity of Burkholderia cepacia complex isolates from French patients with cystic fibrosis, J. Clin. Microbiol. 2004 Oct;42(10):4824-7.

Brisse S, van Himbergen T, Kusters K, Verhoef J, Development of a rapid identification method for Klebsiella pneumoniae phylogenetic groups and analysis of 420 clinical isolates, Clin. Microbiol. Infect. 2004 Oct;10(10):942-5.

Xhemalce B, Seeler JS, Thon G, Dejean A, Arcangioli B, Role of the fission yeast SUMO E3 ligase Pli1p in centromere and telomere maintenance, EMBO J. 2004 Oct;23(19):3844-53.

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.

Brisse S, Issenhuth-Jeanjean S, Grimont PA, Molecular serotyping of Klebsiella species isolates by restriction of the amplified capsular antigen gene cluster, J. Clin. Microbiol. 2004 Aug;42(8):3388-98.

Turlan C, Loot C, Chandler M, IS911 partial transposition products and their processing by the Escherichia coli RecG helicase, Mol. Microbiol. 2004 Aug;53(4):1021-33.

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.

Matsumoto-Mashimo C, Guerout AM, Mazel D, A new family of conditional replicating plasmids and their cognate Escherichia coli host strains, Res. Microbiol. 2004 Jul-Aug;155(6):455-61.

Badis G, Saveanu C, Fromont-Racine M, Jacquier A, Targeted mRNA degradation by deadenylation-independent decapping, Mol. Cell 2004 Jul;15(1):5-15.

Haeggman S, Löfdahl S, Paauw A, Verhoef J, Brisse S, Diversity and evolution of the class A chromosomal beta-lactamase gene in Klebsiella pneumoniae, Antimicrob. Agents Chemother. 2004 Jul;48(7):2400-8.

Kim N, Bouchier C, Ekala MT, Mercereau-Puijalon O, Fandeur T, [Chemoresistance and polymorphism in falciparum malaria in Cambodia], Med Mal Infect 2004 Jun;34 Suppl 1:S61-4.

Wang Y, Rocha EP, Leung FC, Danchin A, Cytosine methylation is not the major factor inducing CpG dinucleotide deficiency in bacterial genomes, J. Mol. Evol. 2004 Jun;58(6):692-700.

Rocha EP, The replication-related organization of bacterial genomes, Microbiology (Reading, Engl.) 2004 Jun;150(Pt 6):1609-27.

Léger-Silvestre I, Milkereit P, Ferreira-Cerca S, Saveanu C, Rousselle JC, Choesmel V, Guinefoleau C, Gas N, Gleizes PE, The ribosomal protein Rps15p is required for nuclear exit of the 40S subunit precursors in yeast, EMBO J. 2004 Jun;23(12):2336-47.

Behar DM, Hammer MF, Garrigan D, Villems R, Bonne-Tamir B, Richards M, Gurwitz D, Rosengarten D, Kaplan M, Della Pergola S, Quintana-Murci L, Skorecki K, MtDNA evidence for a genetic bottleneck in the early history of the Ashkenazi Jewish population, Eur. J. Hum. Genet. 2004 May;12(5):355-64.

Quintana-Murci L, Chaix R, Wells RS, Behar DM, Sayar H, Scozzari R, Rengo C, Al-Zahery N, Semino O, Santachiara-Benerecetti AS, Coppa A, Ayub Q, Mohyuddin A, Tyler-Smith C, Qasim Mehdi S, Torroni A, McElreavey K, Where west meets east: the complex mtDNA landscape of the southwest and Central Asian corridor, Am. J. Hum. Genet. 2004 May;74(5):827-45.

Mlouka A, Comte K, Castets AM, Bouchier C, Tandeau de Marsac N, The gas vesicle gene cluster from Microcystis aeruginosa and DNA rearrangements that lead to loss of cell buoyancy, J. Bacteriol. 2004 Apr;186(8):2355-65.

Grimont PA, Grimont F, Efstratiou A, De Zoysa A, Mazurova I, Ruckly C, Lejay-Collin M, Martin-Delautre S, Regnault B, , International nomenclature for Corynebacterium diphtheriae ribotypes, Res. Microbiol. 2004 Apr;155(3):162-6.

van Dessel H, Dijkshoorn L, van der Reijden T, Bakker N, Paauw A, van den Broek P, Verhoef J, Brisse S, Identification of a new geographically widespread multiresistant Acinetobacter baumannii clone from European hospitals, Res. Microbiol. 2004 Mar;155(2):105-12.

Kaykov A, Holmes AM, Arcangioli B, Formation, maintenance and consequences of the imprint at the mating-type locus in fission yeast, EMBO J. 2004 Feb;23(4):930-8.

Quintana-Murci L, Bigham A, Rouba H, Barakat A, McElreavey K, Hammer M, Y-chromosomal STR haplotypes in Berber and Arabic-speaking populations from Morocco, Forensic Sci. Int. 2004 Feb;140(1):113-5.

Donnini M, Lapucci A, Papucci L, Witort E, Jacquier A, Brewer G, Nicolin A, Capaccioli S, Schiavone N, Identification of TINO: a new evolutionarily conserved BCL-2 AU-rich element RNA-binding protein, J. Biol. Chem. 2004 May;279(19):20154-66.

Montagutelli X, de Vienne D, [The experimental populations of genetic mapping], Med Sci (Paris) 2008 Jan;24(1):77-80.

Behar DM, Garrigan D, Kaplan ME, Mobasher Z, Rosengarten D, Karafet TM, Quintana-Murci L, Ostrer H, Skorecki K, Hammer MF, Contrasting patterns of Y chromosome variation in Ashkenazi Jewish and host non-Jewish European populations, Hum. Genet. 2004 Mar;114(4):354-65.

Galy V, Gadal O, Fromont-Racine M, Romano A, Jacquier A, Nehrbass U, Nuclear retention of unspliced mRNAs in yeast is mediated by perinuclear Mlp1, Cell 2004 Jan;116(1):63-73.

Hommais F, Krin E, Coppée JY, Lacroix C, Yeramian E, Danchin A, Bertin P, GadE (YhiE): a novel activator involved in the response to acid environment in Escherichia coli, Microbiology (Reading, Engl.) 2004 Jan;150(Pt 1):61-72.

Krausz C, Quintana-Murci L, Forti G, Y chromosome polymorphisms in medicine, Ann. Med. 2004;36(8):573-83.

Jonas D, Spitzmüller B, Daschner FD, Verhoef J, Brisse S, Discrimination of Klebsiella pneumoniae and Klebsiella oxytoca phylogenetic groups and other Klebsiella species by use of amplified fragment length polymorphism, Res. Microbiol. 2004 Jan-Feb;155(1):17-23.

Loot C, Turlan C, Chandler M, Host processing of branched DNA intermediates is involved in targeted transposition of IS911, Mol. Microbiol. 2004 Jan;51(2):385-93.

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.

Forissier JF, Bonne G, Bouchier C, Duboscq-Bidot L, Richard P, Wisnewski C, Briault S, Moraine C, Dubourg O, Schwartz K, Komajda M, Apical left ventricular aneurysm without atrio-ventricular block due to a lamin A/C gene mutation, Eur. J. Heart Fail. 2003 Dec;5(6):821-5.

Rocha EP, Danchin A, Gene essentiality determines chromosome organisation in bacteria, Nucleic Acids Res. 2003 Nov;31(22):6570-7.

Bougnoux ME, Tavanti A, Bouchier C, Gow NA, Magnier A, Davidson AD, Maiden MC, D'Enfert C, Odds FC, Collaborative consensus for optimized multilocus sequence typing of Candida albicans, J. Clin. Microbiol. 2003 Nov;41(11):5265-6.

Rocha EP, DNA repeats lead to the accelerated loss of gene order in bacteria, Trends Genet. 2003 Nov;19(11):600-3.

Onteniente L, Brisse S, Tassios PT, Vergnaud G, Evaluation of the polymorphisms associated with tandem repeats for Pseudomonas aeruginosa strain typing, J. Clin. Microbiol. 2003 Nov;41(11):4991-7.

Mashimo T, Glaser P, Lucas M, Simon-Chazottes D, Ceccaldi PE, Montagutelli X, Desprès P, Guénet JL, Structural and functional genomics and evolutionary relationships in the cluster of genes encoding murine 2′,5′-oligoadenylate synthetases, Genomics 2003 Nov;82(5):537-52.

Rocha EP, Danchin A, An analysis of determinants of amino acids substitution rates in bacterial proteins, Mol. Biol. Evol. 2004 Jan;21(1):108-16.

Biskri L, Mazel D, Erythromycin esterase gene ere(A) is located in a functional gene cassette in an unusual class 2 integron, Antimicrob. Agents Chemother. 2003 Oct;47(10):3326-31.

de Lahondès R, Ribes V, Arcangioli B, Fission yeast Sap1 protein is essential for chromosome stability, Eukaryotic Cell 2003 Oct;2(5):910-21.

Zei G, Lisa A, Fiorani O, Magri C, Quintana-Murci L, Semino O, Santachiara-Benerecetti AS, From surnames to the history of Y chromosomes: the Sardinian population as a paradigm, Eur. J. Hum. Genet. 2003 Oct;11(10):802-7.

Kovtunovych G, Lytvynenko T, Negrutska V, Lar O, Brisse S, Kozyrovska N, Identification of Klebsiella oxytoca using a specific PCR assay targeting the polygalacturonase pehX gene, Res. Microbiol. 2003 Oct;154(8):587-92.

Janvier M, Regnault B, Grimont P, Development and use of fluorescent 16S rRNA-targeted probes for the specific detection of Methylophaga species by in situ hybridization in marine sediments, Res. Microbiol. 2003 Sep;154(7):483-90.

Meister P, Poidevin M, Francesconi S, Tratner I, Zarzov P, Baldacci G, Nuclear factories for signalling and repairing DNA double strand breaks in living fission yeast, Nucleic Acids Res. 2003 Sep;31(17):5064-73.

Fromont-Racine M, Senger B, Saveanu C, Fasiolo F, Ribosome assembly in eukaryotes, Gene 2003 Aug;313:17-42.

van Westreenen M, Paauw A, Fluit AC, Brisse S, van Dijk W, Verhoef J, Occurrence and spread of SHV extended-spectrum beta-lactamase-producing Klebsiella pneumoniae isolates in Curacao, J. Antimicrob. Chemother. 2003 Sep;52(3):530-2.

Sielaff H, Dittmann E, Tandeau De Marsac N, Bouchier C, Von Döhren H, Börner T, Schwecke T, The mcyF gene of the microcystin biosynthetic gene cluster from Microcystis aeruginosa encodes an aspartate racemase, Biochem. J. 2003 Aug;373(Pt 3):909-16.

Sébillon P, Bouchier C, Bidot LD, Bonne G, Ahamed K, Charron P, Drouin-Garraud V, Millaire A, Desrumeaux G, Benaïche A, Charniot JC, Schwartz K, Villard E, Komajda M, Expanding the phenotype of LMNA mutations in dilated cardiomyopathy and functional consequences of these mutations, J. Med. Genet. 2003 Aug;40(8):560-7.

Desnoues N, Lin M, Guo X, Ma L, Carreño-Lopez R, Elmerich C, Nitrogen fixation genetics and regulation in a Pseudomonas stutzeri strain associated with rice, Microbiology (Reading, Engl.) 2003 Aug;149(Pt 8):2251-62.

Achaz G, Coissac E, Netter P, Rocha EP, Associations between inverted repeats and the structural evolution of bacterial genomes, Genetics 2003 Aug;164(4):1279-89.

Rocha EP, Fralick J, Vediyappan G, Danchin A, Norris V, A strand-specific model for chromosome segregation in bacteria, Mol. Microbiol. 2003 Aug;49(4):895-903.

Rocha EP, Danchin A, Essentiality, not expressiveness, drives gene-strand bias in bacteria, Nat. Genet. 2003 Aug;34(4):377-8.

Sylvius N, Duboscq-Bidot L, Bouchier C, Charron P, Benaiche A, Sébillon P, Komajda M, Villard E, Mutational analysis of the beta- and delta-sarcoglycan genes in a large number of patients with familial and sporadic dilated cardiomyopathy, Am. J. Med. Genet. A 2003 Jul;120A(1):8-12.

Guillemin I, Bouchier C, Garrigues T, Wisner A, Choumet V, Sequences and structural organization of phospholipase A2 genes from Vipera aspis aspis, V. aspis zinnikeri and Vipera berus berus venom. Identification of the origin of a new viper population based on ammodytin I1 heterogeneity, Eur. J. Biochem. 2003 Jul;270(13):2697-706.

McElreavey K, Quintana-Murci L, Male reproductive function and the human Y chromosome: is selection acting on the Y?, Reprod. Biomed. Online 2003 Jul-Aug;7(1):17-23.

Badis G, Fromont-Racine M, Jacquier A, A snoRNA that guides the two most conserved pseudouridine modifications within rRNA confers a growth advantage in yeast, RNA 2003 Jul;9(7):771-9.

Saveanu C, Namane A, Gleizes PE, Lebreton A, Rousselle JC, Noaillac-Depeyre J, Gas N, Jacquier A, Fromont-Racine M, Sequential protein association with nascent 60S ribosomal particles, Mol. Cell. Biol. 2003 Jul;23(13):4449-60.

Smeets MF, Francesconi S, Baldacci G, High dosage Rhp51 suppression of the MMS sensitivity of DNA structure checkpoint mutants reveals a relationship between Crb2 and Rhp51, Genes Cells 2003 Jul;8(7):573-86.

Baroud CN, Okkels F, Ménétrier L, Tabeling P, Reaction-diffusion dynamics: confrontation between theory and experiment in a microfluidic reactor, Phys Rev E Stat Nonlin Soft Matter Phys 2003 Jun;67(6 Pt 1):060104.

Quintana-Murci L, Veitia R, Fellous M, Semino O, Poloni ES, Genetic structure of Mediterranean populations revealed by Y-chromosome haplotype analysis, Am. J. Phys. Anthropol. 2003 Jun;121(2):157-71.

Lucas M, Mashimo T, Frenkiel MP, Simon-Chazottes D, Montagutelli X, Ceccaldi PE, Guénet JL, Desprès P, Infection of mouse neurones by West Nile virus is modulated by the interferon-inducible 2′-5′ oligoadenylate synthetase 1b protein, Immunol. Cell Biol. 2003 Jun;81(3):230-6.

Canchaya C, Proux C, Fournous G, Bruttin A, Brüssow H, Prophage genomics, Microbiol. Mol. Biol. Rev. 2003 Jun;67(2):238-76, table of contents.

Rocha EP, An appraisal of the potential for illegitimate recombination in bacterial genomes and its consequences: from duplications to genome reduction, Genome Res. 2003 Jun;13(6A):1123-32.

Charniot JC, Pascal C, Bouchier C, Sébillon P, Salama J, Duboscq-Bidot L, Peuchmaurd M, Desnos M, Artigou JY, Komajda M, Functional consequences of an LMNA mutation associated with a new cardiac and non-cardiac phenotype, Hum. Mutat. 2003 May;21(5):473-81.

Milohanic E, Glaser P, Coppée JY, Frangeul L, Vega Y, Vázquez-Boland JA, Kunst F, Cossart P, Buchrieser C, Transcriptome analysis of Listeria monocytogenes identifies three groups of genes differently regulated by PrfA, Mol. Microbiol. 2003 Mar;47(6):1613-25.

Rowe-Magnus DA, Guerout AM, Biskri L, Bouige P, Mazel D, Comparative analysis of superintegrons: engineering extensive genetic diversity in the Vibrionaceae, Genome Res. 2003 Mar;13(3):428-42.

Kanoh J, Francesconi S, Collura A, Schramke V, Ishikawa F, Baldacci G, Géli V, The fission yeast spSet1p is a histone H3-K4 methyltransferase that functions in telomere maintenance and DNA repair in an ATM kinase Rad3-dependent pathway, J. Mol. Biol. 2003 Feb;326(4):1081-94.

Barnabe C, Brisse S, Tibayrenc M, Phylogenetic diversity of bat trypanosomes of subgenus Schizotrypanum based on multilocus enzyme electrophoresis, random amplified polymorphic DNA, and cytochrome b nucleotide sequence analyses, Infect. Genet. Evol. 2003 Feb;2(3):201-8.

Brisse S, Henriksson J, Barnabé C, Douzery EJ, Berkvens D, Serrano M, De Carvalho MR, Buck GA, Dujardin JC, Tibayrenc M, Evidence for genetic exchange and hybridization in Trypanosoma cruzi based on nucleotide sequences and molecular karyotype, Infect. Genet. Evol. 2003 Feb;2(3):173-83.

Koszul R, Malpertuy A, Frangeul L, Bouchier C, Wincker P, Thierry A, Duthoy S, Ferris S, Hennequin C, Dujon B, The complete mitochondrial genome sequence of the pathogenic yeast Candida (Torulopsis) glabrata, FEBS Lett. 2003 Jan;534(1-3):39-48.

McElreavey K, Quintana-Murci L, Y chromosome haplogroups: a correlation with testicular dysgenesis syndrome?, APMIS 2003 Jan;111(1):106-13; discussion 114.

Fabre F, Chan A, Heyer WD, Gangloff S, Alternate pathways involving Sgs1/Top3, Mus81/ Mms4, and Srs2 prevent formation of toxic recombination intermediates from single-stranded gaps created by DNA replication, Proc. Natl. Acad. Sci. U.S.A. 2002 Dec;99(26):16887-92.

Cost GJ, Feng Q, Jacquier A, Boeke JD, Human L1 element target-primed reverse transcription in vitro, EMBO J. 2002 Nov;21(21):5899-910.

Wielders CL, Fluit AC, Brisse S, Verhoef J, Schmitz FJ, mecA gene is widely disseminated in Staphylococcus aureus population, J. Clin. Microbiol. 2002 Nov;40(11):3970-5.

Saveanu C, Miron S, Borza T, Craescu CT, Labesse G, Gagyi C, Popescu A, Schaeffer F, Namane A, Laurent-Winter C, Bârzu O, Gilles AM, Structural and nucleotide-binding properties of YajQ and YnaF, two Escherichia coli proteins of unknown function, Protein Sci. 2002 Nov;11(11):2551-60.

Proux C, van Sinderen D, Suarez J, Garcia P, Ladero V, Fitzgerald GF, Desiere F, Brüssow H, The dilemma of phage taxonomy illustrated by comparative genomics of Sfi21-like Siphoviridae in lactic acid bacteria, J. Bacteriol. 2002 Nov;184(21):6026-36.

Patsalis PC, Sismani C, Quintana-Murci L, Taleb-Bekkouche F, Krausz C, McElreavey K, Effects of transmission of Y chromosome AZFc deletions, Lancet 2002 Oct;360(9341):1222-4.

Bandelt HJ, Quintana-Murci L, Salas A, Macaulay V, The fingerprint of phantom mutations in mitochondrial DNA data, Am. J. Hum. Genet. 2002 Nov;71(5):1150-60.

Rocha EP, Pradillon O, Bui H, Sayada C, Denamur E, A new family of highly variable proteins in the Chlamydophila pneumoniae genome, Nucleic Acids Res. 2002 Oct;30(20):4351-60.

Manni F, Leonardi P, Barakat A, Rouba H, Heyer E, Klintschar M, McElreavey K, Quintana-Murci L, Y-chromosome analysis in Egypt suggests a genetic regional continuity in Northeastern Africa, Hum. Biol. 2002 Oct;74(5):645-58.

Leverstein-van Hall MA, Fluit AC, Paauw A, Box AT, Brisse S, Verhoef J, Evaluation of the Etest ESBL and the BD Phoenix, VITEK 1, and VITEK 2 automated instruments for detection of extended-spectrum beta-lactamases in multiresistant Escherichia coli and Klebsiella spp, J. Clin. Microbiol. 2002 Oct;40(10):3703-11.

Shor E, Gangloff S, Wagner M, Weinstein J, Price G, Rothstein R, Mutations in homologous recombination genes rescue top3 slow growth in Saccharomyces cerevisiae, Genetics 2002 Oct;162(2):647-62.

Rocha E, Is there a role for replication fork asymmetry in the distribution of genes in bacterial genomes?, Trends Microbiol. 2002 Sep;10(9):393-5.

Mashimo T, Lucas M, Simon-Chazottes D, Frenkiel MP, Montagutelli X, Ceccaldi PE, Deubel V, Guenet JL, Despres P, A nonsense mutation in the gene encoding 2′-5′-oligoadenylate synthetase/L1 isoform is associated with West Nile virus susceptibility in laboratory mice, Proc. Natl. Acad. Sci. U.S.A. 2002 Aug;99(17):11311-6.

Loot C, Turlan C, Rousseau P, Ton-Hoang B, Chandler M, A target specificity switch in IS911 transposition: the role of the OrfA protein, EMBO J. 2002 Aug;21(15):4172-82.

Rowe-Magnus DA, Mazel D, The role of integrons in antibiotic resistance gene capture, Int. J. Med. Microbiol. 2002 Jul;292(2):115-25.

Achaz G, Rocha EP, Netter P, Coissac E, Origin and fate of repeats in bacteria, Nucleic Acids Res. 2002 Jul;30(13):2987-94.

Francesconi S, Smeets M, Grenon M, Tillit J, Blaisonneau J, Baldacci G, Fission yeast chk1 mutants show distinct responses to different types of DNA damaging treatments, Genes Cells 2002 Jul;7(7):663-73.

Rocha EP, Danchin A, Base composition bias might result from competition for metabolic resources, Trends Genet. 2002 Jun;18(6):291-4.

van Dessel H, Kamp-Hopmans TE, Fluit AC, Brisse S, de Smet AM, Dijkshoorn L, Troelstra A, Verhoef J, Mascini EM, Outbreak of a susceptible strain of Acinetobacter species 13 (sensu Tjernberg and Ursing) in an adult neurosurgical intensive care unit, J. Hosp. Infect. 2002 Jun;51(2):89-95.

Brisse S, Fussing V, Ridwan B, Verhoef J, Willems RJ, Automated ribotyping of vancomycin-resistant Enterococcus faecium isolates, J. Clin. Microbiol. 2002 Jun;40(6):1977-84.

Rocha EP, Blanchard A, Genomic repeats, genome plasticity and the dynamics of Mycoplasma evolution, Nucleic Acids Res. 2002 May;30(9):2031-42.

Rocha EP, Matic I, Taddei F, Over-representation of repeats in stress response genes: a strategy to increase versatility under stressful conditions?, Nucleic Acids Res. 2002 May;30(9):1886-94.

Brisse S, Stefani S, Verhoef J, Van Belkum A, Vandamme P, Goessens W, Comparative evaluation of the BD Phoenix and VITEK 2 automated instruments for identification of isolates of the Burkholderia cepacia complex, J. Clin. Microbiol. 2002 May;40(5):1743-8.

Amrani YM, Voegtlé D, Montagutelli X, Cazenave PA, Six A, The Ig light chain restricted B6.kappa(-)lambda(SEG) mouse strain suggests that the IGL locus genomic organization is subject to constant evolution, Immunogenetics 2002 May;54(2):106-19.

Feuerbach F, Galy V, Trelles-Sticken E, Fromont-Racine M, Jacquier A, Gilson E, Olivo-Marin JC, Scherthan H, Nehrbass U, Nuclear architecture and spatial positioning help establish transcriptional states of telomeres in yeast, Nat. Cell Biol. 2002 Mar;4(3):214-21.

Rowe-Magnus DA, Guerout AM, Mazel D, Bacterial resistance evolution by recruitment of super-integron gene cassettes, Mol. Microbiol. 2002 Mar;43(6):1657-69.

Le Masson I, Saveanu C, Chevalier A, Namane A, Gobin R, Fromont-Racine M, Jacquier A, Mann C, Spc24 interacts with Mps2 and is required for chromosome segregation, but is not implicated in spindle pole body duplication, Mol. Microbiol. 2002 Mar;43(6):1431-43.

Henriksson J, Dujardin JC, Barnabé C, Brisse S, Timperman G, Venegas J, Pettersson U, Tibayrenc M, Solari A, Chromosomal size variation in Trypanosoma cruzi is mainly progressive and is evolutionarily informative, Parasitology 2002 Mar;124(Pt 3):277-86.

Baroud CN, Plapp BB, She ZS, Swinney HL, Anomalous self-similarity in a turbulent rapidly rotating fluid, Phys. Rev. Lett. 2002 Mar;88(11):114501.

Fromont-Racine M, Rain JC, Legrain P, Building protein-protein networks by two-hybrid mating strategy, Meth. Enzymol. 2002;350:513-24.

Hetet G, Grandchamp B, Bouchier C, Nicaud V, Tiret L, Roizès G, Desnos M, Schwartz K, Dorent R, Komajda M, , Idiopathic dilated cardiomyopathy: lack of association with haemochromatosis gene in the CARDIGENE study, Heart 2001 Dec;86(6):702-3.

Schaper S, Fromont-Racine M, Linder P, de la Cruz J, Namane A, Yaniv M, A yeast homolog of chromatin assembly factor 1 is involved in early ribosome assembly, Curr. Biol. 2001 Nov;11(23):1885-90.

Saveanu C, Bienvenu D, Namane A, Gleizes PE, Gas N, Jacquier A, Fromont-Racine M, Nog2p, a putative GTPase associated with pre-60S subunits and required for late 60S maturation steps, EMBO J. 2001 Nov;20(22):6475-84.

Rocha EP, Danchin A, Ongoing evolution of strand composition in bacterial genomes, Mol. Biol. Evol. 2001 Sep;18(9):1789-99.

Brisse S, Verhoef J, Tibayrenc M, Characterisation of large and small subunit rRNA and mini-exon genes further supports the distinction of six Trypanosoma cruzi lineages, Int. J. Parasitol. 2001 Sep;31(11):1218-26.

Fitch W, Brisse S, Stevens J, Tibayrenc M, Infectious diseases and the golden age of phylogenetics: an E-debate, Infect. Genet. Evol. 2001 Jul;1(1):69-74.

Rocha EP, Danchin A, Viari A, Evolutionary role of restriction/modification systems as revealed by comparative genome analysis, Genome Res. 2001 Jun;11(6):946-58.

Wielders CL, Vriens MR, Brisse S, de Graaf-Miltenburg LA, Troelstra A, Fleer A, Schmitz FJ, Verhoef J, Fluit AC, In-vivo transfer of mecA DNA to Staphylococcus aureus [corrected], Lancet 2001 May;357(9269):1674-5.

Chambaud I, Heilig R, Ferris S, Barbe V, Samson D, Galisson F, Moszer I, Dybvig K, Wróblewski H, Viari A, Rocha EP, Blanchard A, The complete genome sequence of the murine respiratory pathogen Mycoplasma pulmonis, Nucleic Acids Res. 2001 May;29(10):2145-53.

Brisse S, Verhoef J, Phylogenetic diversity of Klebsiella pneumoniae and Klebsiella oxytoca clinical isolates revealed by randomly amplified polymorphic DNA, gyrA and parC genes sequencing and automated ribotyping, Int. J. Syst. Evol. Microbiol. 2001 May;51(Pt 3):915-24.

Garapin A, Ma L, Pescher P, Lagranderie M, Marchal G, Mixed immune response induced in rodents by two naked DNA genes coding for mycobacterial glycosylated proteins, Vaccine 2001 Apr;19(20-22):2830-41.

Saveanu C, Fromont-Racine M, Harington A, Ricard F, Namane A, Jacquier A, Identification of 12 new yeast mitochondrial ribosomal proteins including 6 that have no prokaryotic homologues, J. Biol. Chem. 2001 May;276(19):15861-7.

Urdaci MC, Regnault B, Grimont PA, Identification by in situ hybridization of segmented filamentous bacteria in the intestine of diarrheic rainbow trout (Oncorhynchus mykiss), Res. Microbiol. 2001 Jan-Feb;152(1):67-73.

Quintana-Murci L, Fellous M, The Human Y Chromosome: The Biological Role of a “Functional Wasteland”, J. Biomed. Biotechnol. 2001;1(1):18-24.

Sylvius N, Tesson F, Gayet C, Charron P, Bénaïche A, Peuchmaurd M, Duboscq-Bidot L, Feingold J, Beckmann JS, Bouchier C, Komajda M, A new locus for autosomal dominant dilated cardiomyopathy identified on chromosome 6q12-q16, Am. J. Hum. Genet. 2001 Jan;68(1):241-6.

Tesson F, Sylvius N, Pilotto A, Dubosq-Bidot L, Peuchmaurd M, Bouchier C, Benaiche A, Mangin L, Charron P, Gavazzi A, Tavazzi L, Arbustini E, Komajda M, Epidemiology of desmin and cardiac actin gene mutations in a european population of dilated cardiomyopathy, Eur. Heart J. 2000 Nov;21(22):1872-6.

Villarino A, Bouvet OM, Regnault B, Martin-Delautre S, Grimont PAD , Exploring the frontier between life and death in Escherichia coli: evaluation of different viability markers in live and heat- or UV-killed cells, Res. Microbiol. 2000 Nov;151(9):755-68.

Brisse S, Dujardin JC, Tibayrenc M, Identification of six Trypanosoma cruzi lineages by sequence-characterised amplified region markers, Mol. Biochem. Parasitol. 2000 Nov;111(1):95-105.

Wolf B, Rey LC, Brisse S, Moreira LB, Milatovic D, Fleer A, Roord JJ, Verhoef J, Molecular epidemiology of penicillin-resistant Streptococcus pneumoniae colonizing children with community-acquired pneumonia and children attending day-care centres in Fortaleza, Brazil, J. Antimicrob. Chemother. 2000 Nov;46(5):757-65.

Brisse S, Milatovic D, Fluit AC, Kusters K, Toelstra A, Verhoef J, Schmitz FJ, Molecular surveillance of European quinolone-resistant clinical isolates of Pseudomonas aeruginosa and Acinetobacter spp. using automated ribotyping, J. Clin. Microbiol. 2000 Oct;38(10):3636-45.

Regnault B, Martin-Delautre S, Lejay-Collin M, Lefèvre M, Grimont PA, Oligonucleotide probe for the visualization of Escherichia coli/Escherichia fergusonii cells by in situ hybridization: specificity and potential applications, Res. Microbiol. 2000 Sep;151(7):521-33.

Schlegel L, Grimont F, Collins MD, Régnault B, Grimont PA, Bouvet A, Streptococcus infantarius sp. nov., Streptococcus infantarius subsp. infantarius subsp. nov. and Streptococcus infantarius subsp. coli subsp. nov., isolated from humans and food, Int. J. Syst. Evol. Microbiol. 2000 Jul;50 Pt 4:1425-34.

Rocha EP, Danchin A, Viari A, The DB case: pattern matching evidence is not significant, Mol. Microbiol. 2000 Jul;37(1):216-8.

Dujardin JC, Henriksson J, Victoir K, Brisse S, Gamboa D, Arevalo J, Le Ray D, Genomic rearrangements in trypanosomatids: an alternative to the “one gene” evolutionary hypotheses?, Mem. Inst. Oswaldo Cruz 2000 Jul-Aug;95(4):527-34.

Schmitz FJ, Fluit AC, Milatovic D, Verhoef J, Heinz HP, Brisse S, In vitro potency of moxifloxacin, clinafloxacin and sitafloxacin against 248 genetically defined clinical isolates of Staphylococcus aureus, J. Antimicrob. Chemother. 2000 Jul;46(1):109-13.

Rocha EP, Sekowska A, Danchin A, Sulphur islands in the Escherichia coli genome: markers of the cell’s architecture?, FEBS Lett. 2000 Jun;476(1-2):8-11.

Gangloff S, Soustelle C, Fabre F, Homologous recombination is responsible for cell death in the absence of the Sgs1 and Srs2 helicases, Nat. Genet. 2000 Jun;25(2):192-4.

Barnabé C, Brisse S, Tibayrenc M, Population structure and genetic typing of Trypanosoma cruzi, the agent of Chagas disease: a multilocus enzyme electrophoresis approach, Parasitology 2000 May;120 ( Pt 5):513-26.

Brisse S, Verduin CM, Milatovic D, Fluit A, Verhoef J, Laevens S, Vandamme P, Tümmler B, Verbrugh HA, van Belkum A, Distinguishing species of the Burkholderia cepacia complex and Burkholderia gladioli by automated ribotyping, J. Clin. Microbiol. 2000 May;38(5):1876-84.

Regnault B, Martin-Delautre S, Grimont PA, Problems associated with the direct viable count procedure applied to gram-positive bacteria, Int. J. Food Microbiol. 2000 Apr;55(1-3):281-4.

Villarino A, Bouvet O, Regnault B, Delautre S, Grimont PA, Cellular activities in ultra-violet killed Escherichia coli, Int. J. Food Microbiol. 2000 Apr;55(1-3):245-7.

Milatovic D, Schmitz FJ, Brisse S, Verhoef J, Fluit AC, In vitro activities of sitafloxacin (DU-6859a) and six other fluoroquinolones against 8,796 clinical bacterial isolates, Antimicrob. Agents Chemother. 2000 Apr;44(4):1102-7.

Rocha EP, Guerdoux-Jamet P, Moszer I, Viari A, Danchin A, Implication of gene distribution in the bacterial chromosome for the bacterial cell factory, J. Biotechnol. 2000 Mar;78(3):209-19.

Jagla B, Schuchhardt J, Adaptive encoding neural networks for the recognition of human signal peptide cleavage sites, Bioinformatics 2000 Mar;16(3):245-50.

Brisse S, Milatovic D, Fluit AC, Verhoef J, Schmitz FJ, Epidemiology of quinolone resistance of Klebsiella pneumoniae and Klebsiella oxytoca in Europe, Eur. J. Clin. Microbiol. Infect. Dis. 2000 Jan;19(1):64-8.

Brisse S, Barnabé C, Tibayrenc M, Identification of six Trypanosoma cruzi phylogenetic lineages by random amplified polymorphic DNA and multilocus enzyme electrophoresis, Int. J. Parasitol. 2000 Jan;30(1):35-44.

Rothstein R, Michel B, Gangloff S, Replication fork pausing and recombination or “gimme a break”, Genes Dev. 2000 Jan;14(1):1-10.

Willig TN, Draptchinskaia N, Dianzani I, Ball S, Niemeyer C, Ramenghi U, Orfali K, Gustavsson P, Garelli E, Brusco A, Tiemann C, Pérignon JL, Bouchier C, Cicchiello L, Dahl N, Mohandas N, Tchernia G, Mutations in ribosomal protein S19 gene and diamond blackfan anemia: wide variations in phenotypic expression, Blood 1999 Dec;94(12):4294-306.

Schmitz FJ, Fluit AC, Brisse S, Verhoef J, Köhrer K, Milatovic D, Molecular epidemiology of quinolone resistance and comparative in vitro activities of new quinolones against European Staphylococcus aureus isolates, FEMS Immunol. Med. Microbiol. 1999 Dec;26(3-4):281-7.

Rocha EP, Danchin A, Viari A, Functional and evolutionary roles of long repeats in prokaryotes, Res. Microbiol. 1999 Nov-Dec;150(9-10):725-33.

Moszer I, Rocha EP, Danchin A, Codon usage and lateral gene transfer in Bacillus subtilis, Curr. Opin. Microbiol. 1999 Oct;2(5):524-8.

Brisse S, Fluit AC, Wagner U, Heisig P, Milatovic D, Verhoef J, Scheuring S, Köhrer K, Schmitz FJ, Association of alterations in ParC and GyrA proteins with resistance of clinical isolates of Enterococcus faecium to nine different fluoroquinolones, Antimicrob. Agents Chemother. 1999 Oct;43(10):2513-6.

Rocha EP, Danchin A, Viari A, Analysis of long repeats in bacterial genomes reveals alternative evolutionary mechanisms in Bacillus subtilis and other competent prokaryotes, Mol. Biol. Evol. 1999 Sep;16(9):1219-30.

Rocha EP, Danchin A, Viari A, Translation in Bacillus subtilis: roles and trends of initiation and termination, insights from a genome analysis, Nucleic Acids Res. 1999 Sep;27(17):3567-76.

Rocha EP, Danchin A, Viari A, Bacterial DNA strand compositional asymmetry: response, Trends Microbiol. 1999 Aug;7(8):308.

Brisse S, Milatovic D, Fluit AC, Verhoef J, Martin N, Scheuring S, Köhrer K, Schmitz FJ, Comparative in vitro activities of ciprofloxacin, clinafloxacin, gatifloxacin, levofloxacin, moxifloxacin, and trovafloxacin against Klebsiella pneumoniae, Klebsiella oxytoca, Enterobacter cloacae, and Enterobacter aerogenes clinical isolates with alterations in GyrA and ParC proteins, Antimicrob. Agents Chemother. 1999 Aug;43(8):2051-5.

Autiero M, Culerrier R, Bouchier C, Basmaciogullari S, Gaubin M, El Marhomy S, Blanchet P, Paradis V, Jardin A, Guardiola J, Piatier-Tonneau D, Abnormal restriction pattern of PIP gene associated with human primary prostate cancers, DNA Cell Biol. 1999 Jun;18(6):481-7.

Rothstein R, Gangloff S, The shuffling of a mortal coil, Nat. Genet. 1999 May;22(1):4-6.

Rocha EP, Danchin A, Viari A, Universal replication biases in bacteria, Mol. Microbiol. 1999 Apr;32(1):11-6.

Gangloff S, de Massy B, Arthur L, Rothstein R, Fabre F, The essential role of yeast topoisomerase III in meiosis depends on recombination, EMBO J. 1999 Mar;18(6):1701-11.

Bañuls AL, Brisse S, Sidibé I, Noël S, Tibayrenc M, A phylogenetic analysis by multilocus enzyme electrophoresis and multiprimer random amplified polymorphic DNA fingerprinting of the Leishmania genome project Friedlin reference strain, Folia Parasitol. 1999;46(1):10-4.

Grenon M, Tillit J, Piard K, Baldacci G, Francesconi S, The S/M checkpoint at 37 degrees C and the recovery of viability of the mutant poldeltats3 require the crb2+/rhp9+ gene in fission yeast, Mol. Gen. Genet. 1999 Jan;260(6):522-34.

Perderiset M, Maga G, Piard K, Francesconi S, Tratner I, Hübscher U, Baldacci G, Mutant DNA polymerase delta from thermosensitive Schizosaccharomyces pombe strains display reduced stimulation by proliferating cell nuclear antigen, Biochem. J. 1998 Nov;335 ( Pt 3):581-8.

Cornélis F, Fauré S, Martinez M, Prud'homme JF, Fritz P, Dib C, Alves H, Barrera P, de Vries N, Balsa A, Pascual-Salcedo D, Maenaut K, Westhovens R, Migliorini P, Tran TH, Delaye A, Prince N, Lefevre C, Thomas G, Poirier M, Soubigou S, Alibert O, Lasbleiz S, Fouix S, Bouchier C, Lioté F, Loste MN, Lepage V, Charron D, Gyapay G, Lopes-Vaz A, Kuntz D, Bardin T, Weissenbach J, , New susceptibility locus for rheumatoid arthritis suggested by a genome-wide linkage study, Proc. Natl. Acad. Sci. U.S.A. 1998 Sep;95(18):10746-50.

Rocha EP, Viari A, Danchin A, Oligonucleotide bias in Bacillus subtilis: general trends and taxonomic comparisons, Nucleic Acids Res. 1998 Jun;26(12):2971-80.

Brisse S, Barnabé C, Tibayrenc M, Trypanosoma cruzi: How Many Relevant Phylogenetic Subdivisions are There?, Parasitol. Today (Regul. Ed.) 1998 May;14(5):178-9.

Brisse S, Barnabé C, Bañuls AL, Sidibé I, Noël S, Tibayrenc M, A phylogenetic analysis of the Trypanosoma cruzi genome project CL Brener reference strain by multilocus enzyme electrophoresis and multiprimer random amplified polymorphic DNA fingerprinting, Mol. Biochem. Parasitol. 1998 May;92(2):253-63.

Regnault B, Grimont F, Grimont PA, Universal ribotyping method using a chemically labelled oligonucleotide probe mixture, Res. Microbiol. 1997 Nov;148(8):649-59.

Francesconi S, Grenon M, Bouvier D, Baldacci G, p56(chk1) protein kinase is required for the DNA replication checkpoint at 37 degrees C in fission yeast, EMBO J. 1997 Mar;16(6):1332-41.

Autiero M, Bouchier C, Basmaciogullari S, Zaborski P, el Marhomy S, Martin M, Guardiola J, Piatier-Tonneau D, Isolation from a human seminal vesicle library of the cDNA for gp17, a CD4 binding factor, Immunogenetics 1997;46(4):345-8.

Bouvet A, Grimont F, Collins MD, Benaoudia F, Devine C, Regnault B, Grimont PA, Streptococcus infantarius sp. nov. related to Streptococcus bovis and Streptococcus equinus, Adv. Exp. Med. Biol. 1997;418:393-5.

Gangloff S, Zou H, Rothstein R, Gene conversion plays the major role in controlling the stability of large tandem repeats in yeast, EMBO J. 1996 Apr;15(7):1715-25.

Choumet V, Bouchier C, Délot E, Faure G, Saliou B, Bon C, Structure and function relationship of crotoxin, a heterodimeric neurotoxic phospholipase A2 from the venom of a South-American rattlesnake, Adv. Exp. Med. Biol. 1996;391:197-202.

Rothstein R, Gangloff S, Hyper-recombination and Bloom’s syndrome: microbes again provide clues about cancer, Genome Res. 1995 Dec;5(5):421-6.

Francesconi S, De Recondo AM, Baldacci G, DNA polymerase delta is required for the replication feedback control of cell cycle progression in Schizosaccharomyces pombe, Mol. Gen. Genet. 1995 Mar;246(5):561-9.

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