• 2022
  Pipoli da Fonseca J, Kornobis E, Turc E, Enouf V, Lemée L, Cokelaer T, Monot M, , Capturing SARS-CoV-2 from patient samples with low viral abundance: a comparative analysis., Sci Rep 2022 Nov; 12(1): 19274.
• 2021
  Julian R. Garneau, Véronique Legrand, Martial Marbouty, Maximilian O. Press, Dean R. Vik, Louis-Charles Fortier, Matthew B. Sullivan, David Bikard , Marc Monot, High‑throughput identification of viral termini and packaging mechanisms in virome datasets using PhageTermVirome, Sci Rep 11, 18319 (2021)..
• 2021
  Najjar I, Motreff L, Ma L, Lemée L, Briolat V, Monot M, , How Did Institut Pasteur’s NGS Core Facility, Biomics, Manage the Coronavirus Disease 2019 Crisis?, J Biomol Tech 2021 07; 32(2): 50-56.
• 2021
  Tremblay YDN, Durand BAR, Hamiot A, Martin-Verstraete I, Oberkampf M, Monot M, Dupuy B, Metabolic adaption to extracellular pyruvate triggers biofilm formation in Clostridioides difficile., ISME J 2021 Jun; (): .
• 2021
  Boudry P, Piattelli E, Drouineau E, Peltier J, Boutserin A, Lejars M, Hajnsdorf E, Monot M, Dupuy B, Martin-Verstraete I, Gautheret D, Toffano-Nioche C, Soutourina O, , Identification of RNAs bound by Hfq reveals widespread RNA partners and a sporulation regulator in the human pathogen Clostridioides difficile., RNA Biol 2021 Feb; (): 1-22.
• 2019
  Dubois T, Tremblay YDN, Hamiot A, Martin-Verstraete I, Deschamps J, Monot M, Briandet R, Dupuy B, , A microbiota-generated bile salt induces biofilm formation in Clostridium difficile., NPJ Biofilms Microbiomes 2019 05; 5(1): 14.
• 2018
  I. Poquet, L. Saujet, A. Canette, M. Monot, J. Mihajlovic, J.-M. Ghigo, O. Soutourina, R. Briandet, I. Martin-Verstraete, and B. Dupuy , Clostridium difficile biofilm: remodeling metabolism and cell surface to build a sparse and heterogeneously aggregated architecture, Front Microbiol. 2018 Sep 12;9:2084. doi: 10.3389/fmicb.2018.02084. eCollection 2018..
• 2018
  Maikova A, Peltier J, Boudry P, Hajnsdorf E, Kint N, Monot M, Poquet I, Martin-Verstraete I, Dupuy B, Soutourina O, Discovery of new type I toxin-antitoxin systems adjacent to CRISPR arrays in Clostridium difficile, Nucleic Acids Res. 2018 May;46(9):4733-4751.
• 2018
  Janezic S, Garneau JR, Monot M, Comparative Genomics of Clostridium difficile, Adv. Exp. Med. Biol. 2018;1050:59-75.
• 2017
  Garneau JR, Sekulovic O, Dupuy B, Soutourina O, Monot M, Fortier LC, High prevalence and genetic diversity of large phiCD211/phiCDIF1296T-like prophages in Clostridioides difficile, Appl. Environ. Microbiol. 2017 Nov;.
• 2017
  Garneau JR, Depardieu F, Fortier LC, Bikard D, Monot M, PhageTerm: a tool for fast and accurate determination of phage termini and packaging mechanism using next-generation sequencing data, Sci Rep 2017 Aug;7(1):8292.
• 2017
  Blasdel BG, Chevallereau A, Monot M, Lavigne R, Debarbieux L, Comparative transcriptomics analyses reveal the conservation of an ancestral infectious strategy in two bacteriophage genera, ISME J 2017 May;.
• 2017
  Kint N, Janoir C, Monot M, Hoys S, Soutourina O, Dupuy B, Martin-Verstraete I, The alternative sigma factor σ plays a crucial role in adaptive strategies of Clostridium difficile during gut infection, Environ. Microbiol. 2017 May;19(5):1933-1958.
• 2017
  Brintha P. Girinathan, Marc Monot, Daniel Boyle, Kathleen N. McAllister, Joseph A. Sorg, Bruno Dupuy, Revathi Govind, Effect of tcdR Mutation on Sporulation in the Epidemic Clostridium difficile Strain R20291, Effect of tcdR Mutation on Sporulation in the Epidemic Clostridium difficile Strain R20291 Brintha P. Girinathan, Marc Monot, Daniel Boyle, Kathleen N. McAllister, Joseph A. Sorg, Bruno Dupuy, Revathi Govind mSphere Feb 2017, 2 (1) e00383-16; DOI: 10.1128/mSphere.00383-16.
• 2016
  Collery MM, Kuehne SA, McBride SM, Kelly ML, Monot M, Cockayne A, Dupuy B, Minton NP, What’s a SNP between friends: The influence of single nucleotide polymorphisms on virulence and phenotypes of Clostridium difficile strain 630 and derivatives, Virulence 2017 Aug;8(6):767-781.
• 2016
  Dubois T, Dancer-Thibonnier M, Monot M, Hamiot A, Bouillaut L, Soutourina O, Martin-Verstraete I, Dupuy B, Control of Clostridium difficile Physiopathology in Response to Cysteine Availability, Infect. Immun. 2016 Aug;84(8):2389-405.
• 2016
  Chevallereau A, Blasdel BG, De Smet J, Monot M, Zimmermann M, Kogadeeva M, Sauer U, Jorth P, Whiteley M, Debarbieux L, Lavigne R, Next-Generation “-omics” Approaches Reveal a Massive Alteration of Host RNA Metabolism during Bacteriophage Infection of Pseudomonas aeruginosa, PLoS Genet. 2016 Jul;12(7):e1006134.
• 2016
  Kansau I, Barketi-Klai A, Monot M, Hoys S, Dupuy B, Janoir C, Collignon A, Deciphering Adaptation Strategies of the Epidemic Clostridium difficile 027 Strain during Infection through In Vivo Transcriptional Analysis, PLoS ONE 2016;11(6):e0158204.
• 2016
  André G, Haudecoeur E, Courtois E, Monot M, Dupuy B, Rodionov DA, Martin-Verstraete I, Cpe1786/IscR of Clostridium perfringens represses expression of genes involved in Fe-S cluster biogenesis, Res. Microbiol. 2016 Mar;.
• 2015
  Monot M, Eckert C, Lemire A, Hamiot A, Dubois T, Tessier C, Dumoulard B, Hamel B, Petit A, Lalande V, Ma L, Bouchier C, Barbut F, Dupuy B, Clostridium difficile: New Insights into the Evolution of the Pathogenicity Locus, Sci Rep 2015;5:15023.
• 2015
  Boudry P, Semenova E, Monot M, Datsenko KA, Lopatina A, Sekulovic O, Ospina-Bedoya M, Fortier LC, Severinov K, Dupuy B, Soutourina O, Function of the CRISPR-Cas System of the Human Pathogen Clostridium difficile, MBio 2015;6(5).
• 2015
  Brézillon C, Haustant M, Dupke S, Corre JP, Lander A, Franz T, Monot M, Couture-Tosi E, Jouvion G, Leendertz FH, Grunow R, Mock ME, Klee SR, Goossens PL, Capsules, toxins and AtxA as virulence factors of emerging Bacillus cereus biovar anthracis, PLoS Negl Trop Dis 2015 Apr;9(4):e0003455.
• 2015
  Wasels F, Spigaglia P, Barbanti F, Monot M, Villa L, Dupuy B, Carattoli A, Mastrantonio P, Integration of erm(B)-containing elements through large chromosome fragment exchange in Clostridium difficile, Mob Genet Elements 2015 Jan-Feb;5(1):12-16.
• 2015
  Lévi-Meyrueis C, Monteil V, Sismeiro O, Dillies MA, Kolb A, Monot M, Dupuy B, Duarte SS, Jagla B, Coppée JY, Beraud M, Norel F, Repressor activity of the RpoS/σS-dependent RNA polymerase requires DNA binding, Nucleic Acids Res. 2015 Feb;43(3):1456-68.
• 2014
  Wasels F, Monot M, Spigaglia P, Barbanti F, Ma L, Bouchier C, Dupuy B, Mastrantonio P, Inter- and intraspecies transfer of a Clostridium difficile conjugative transposon conferring resistance to MLSB, Microb. Drug Resist. 2014 Dec;20(6):555-60.
• 2014
  Boudry P, Gracia C, Monot M, Caillet J, Saujet L, Hajnsdorf E, Dupuy B, Martin-Verstraete I, Soutourina O, Pleiotropic role of the RNA chaperone protein Hfq in the human pathogen Clostridium difficile, J. Bacteriol. 2014 Sep;196(18):3234-48.
• 2014
  Moura I, Monot M, Tani C, Spigaglia P, Barbanti F, Norais N, Dupuy B, Bouza E, Mastrantonio P, Multidisciplinary analysis of a nontoxigenic Clostridium difficile strain with stable resistance to metronidazole, Antimicrob. Agents Chemother. 2014 Aug;58(8):4957-60.
• 2014
  Barketi-Klai A, Monot M, Hoys S, Lambert-Bordes S, Kuehne SA, Minton N, Collignon A, Dupuy B, Kansau I, The flagellin FliC of Clostridium difficile is responsible for pleiotropic gene regulation during in vivo infection, PLoS ONE 2014;9(5):e96876.
• 2014
  Lévi-Meyrueis C, Monteil V, Sismeiro O, Dillies MA, Monot M, Jagla B, Coppée JY, Dupuy B, Norel F, Expanding the RpoS/σS-network by RNA sequencing and identification of σS-controlled small RNAs in Salmonella, PLoS ONE 2014;9(5):e96918.
• 2014
  Monot M, Orgeur M, Camiade E, Brehier C, Dupuy B, COV2HTML: a visualization and analysis tool of bacterial next generation sequencing (NGS) data for postgenomics life scientists, OMICS 2014 Mar;18(3):184-95.
• 2014
  Kurka H, Ehrenreich A, Ludwig W, Monot M, Rupnik M, Barbut F, Indra A, Dupuy B, Liebl W, Sequence similarity of Clostridium difficile strains by analysis of conserved genes and genome content is reflected by their ribotype affiliation, PLoS ONE 2014;9(1):e86535.
• 2013
  El Meouche I, Peltier J, Monot M, Soutourina O, Pestel-Caron M, Dupuy B, Pons JL, Characterization of the SigD regulon of C. difficile and its positive control of toxin production through the regulation of tcdR, PLoS ONE 2013;8(12):e83748.
• 2013
  Saujet L, Pereira FC, Serrano M, Soutourina O, Monot M, Shelyakin PV, Gelfand MS, Dupuy B, Henriques AO, Martin-Verstraete I, Genome-wide analysis of cell type-specific gene transcription during spore formation in Clostridium difficile, PLoS Genet. 2013;9(10):e1003756.
• 2013
  Pereira FC, Saujet L, Tomé AR, Serrano M, Monot M, Couture-Tosi E, Martin-Verstraete I, Dupuy B, Henriques AO, The spore differentiation pathway in the enteric pathogen Clostridium difficile, PLoS Genet. 2013;9(10):e1003782.
• 2013
  Janoir C, Denève C, Bouttier S, Barbut F, Hoys S, Caleechum L, Chapetón-Montes D, Pereira FC, Henriques AO, Collignon A, Monot M, Dupuy B, Adaptive strategies and pathogenesis of Clostridium difficile from in vivo transcriptomics, Infect. Immun. 2013 Oct;81(10):3757-69.
• 2013
  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.
• 2012
  Antunes A, Camiade E, Monot M, Courtois E, Barbut F, Sernova NV, Rodionov DA, Martin-Verstraete I, Dupuy B, Global transcriptional control by glucose and carbon regulator CcpA in Clostridium difficile, Nucleic Acids Res. 2012 Nov;40(21):10701-18.
• 2011
  Saujet L, Monot M, Dupuy B, Soutourina O, Martin-Verstraete I, The key sigma factor of transition phase, SigH, controls sporulation, metabolism, and virulence factor expression in Clostridium difficile, J. Bacteriol. 2011 Jul;193(13):3186-96.
• 2011
  Barbut F, Monot M, Rousseau A, Cavelot S, Simon T, Burghoffer B, Lalande V, Tankovic J, Petit JC, Dupuy B, Eckert C, Rapid diagnosis of Clostridium difficile infection by multiplex real-time PCR, Eur. J. Clin. Microbiol. Infect. Dis. 2011 Oct;30(10):1279-85.
• 2011
  Singh P, Busso P, Paniz-Mondolfi A, Aranzazu N, Monot M, Honore N, de Faria Fernandes Belone A, Virmond M, Villarreal-Olaya ME, Rivas C, Cole ST, Molecular drug susceptibility testing and genotyping of Mycobacterium leprae strains from South America, Antimicrob. Agents Chemother. 2011 Jun;55(6):2971-3.
• 2011
  Monot M, Boursaux-Eude C, Thibonnier M, Vallenet D, Moszer I, Medigue C, Martin-Verstraete I, Dupuy B, Reannotation of the genome sequence of Clostridium difficile strain 630, J. Med. Microbiol. 2011 Aug;60(Pt 8):1193-9.
• 2010
  André G, Haudecoeur E, Monot M, Ohtani K, Shimizu T, Dupuy B, Martin-Verstraete I, Global regulation of gene expression in response to cysteine availability in Clostridium perfringens, BMC Microbiol. 2010;10:234.
• 2010
  Molina-Torres CA, Castro-Garza J, Ocampo-Candiani J, Monot M, Cole ST, Vera-Cabrera L, Effect of serial subculturing on the genetic composition and cytotoxic activity of Mycobacterium tuberculosis, J. Med. Microbiol. 2010 Apr;59(Pt 4):384-91.
• 2009
  Monot M, Honoré N, Garnier T, Zidane N, Sherafi D, Paniz-Mondolfi A, Matsuoka M, Taylor GM, Donoghue HD, Bouwman A, Mays S, Watson C, Lockwood D, Khamesipour A, Khamispour A, Dowlati Y, Jianping S, Rea TH, Vera-Cabrera L, Stefani MM, Banu S, Macdonald M, Sapkota BR, Spencer JS, Thomas J, Harshman K, Singh P, Busso P, Gattiker A, Rougemont J, Brennan PJ, Cole ST, Comparative genomic and phylogeographic analysis of Mycobacterium leprae, Nat. Genet. 2009 Dec;41(12):1282-9.
• 2009
  Taylor GM, Blau S, Mays S, Monot M, Lee OYC, Minnikin DE, Besra GS, Cole ST, Rutland P, Mycobasterium leprae genotype amplified from an archeological case of lepromatous leprosy in Central Asia., J Arch Science 2009; 36:2408-2414.
• 2008
  Monot M, Honoré N, Balière C, Ji B, Sow S, Brennan PJ, Cole ST, Are variable-number tandem repeats appropriate for genotyping Mycobacterium leprae?, J. Clin. Microbiol. 2008 Jul;46(7):2291-7.
• 2008
  Frigui W, Bottai D, Majlessi L, Monot M, Josselin E, Brodin P, Garnier T, Gicquel B, Martin C, Leclerc C, Cole ST, Brosch R, Control of M. tuberculosis ESAT-6 secretion and specific T cell recognition by PhoP, PLoS Pathog. 2008 Feb;4(2):e33.
• 2006
  Aráoz R, Honoré N, Banu S, Demangel C, Cissoko Y, Arama C, Uddin MK, Hadi SK, Monot M, Cho SN, Ji B, Brennan PJ, Sow S, Cole ST, Towards an immunodiagnostic test for leprosy, Microbes Infect. 2006 Jul;8(8):2270-6.
• 2006
  Aráoz R, Honoré N, Cho S, Kim JP, Cho SN, Monot M, Demangel C, Brennan PJ, Cole ST, Antigen discovery: a postgenomic approach to leprosy diagnosis, Infect. Immun. 2006 Jan;74(1):175-82.
• 2005
  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.