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Mathieu A, Dion M, Deng L, Tremblay D, Moncaut E, Shah SA, Stokholm J, Krogfelt KA, Schjørring S, Bisgaard H, Nielsen DS, Moineau S, Petit MA. Virulent coliphages in 1-year-old children fecal samples are fewer, but more infectious than temperate coliphages. Nat Commun. 2020 Jan 17;11(1):378. doi:10.1038/s41467-019-14042-z.

Sausset R, Petit MA, Gaboriau-Routhiau V, De Paepe M. New insights into intestinal phages. Mucosal Immunol. 2020 


Bertrand C, Thibessard A, Bruand C, Lecointe F, Leblond P. Bacterial NHEJ: a never ending story. Mol Microbiol. 2019 May;111(5):1139-1151. Review. 

Cornuault JK, Moncaut E, Loux V, Mathieu A, Sokol H, Petit MA, De Paepe M. The enemy from within: a prophage of Roseburia intestinalis systematically turns lytic in the mouse gut, driving bacterial adaptation by CRISPR spacer acquisition. ISME J. 2019 Dec 11.

Dugat-Bony E, Lossouarn J, De Paepe M, Sarthou AS, Fedala Y, Petit MA, Chaillou S. Viral metagenomic analysis of the cheese surface: A comparative study of rapid procedures for extracting viral particles.Food Microbiol. 2020 Feb;85:103278.

Lossouarn, J.; Briet, A.; Moncaut, E.; Furlan, S.; Bouteau, A.; Son, O.; Leroy, M.; DuBow, M.S.; Lecointe, F.; Serror, P.; Petit, M.-A. Enterococcus faecalis Countermeasures Defeat a Virulent Picovirinae Bacteriophage. Viruses 2019, 11, 48.


Cornuault, J., Petit, M.A., Mariadassou, M., Benevides, L., Moncaut, E., Langella, P., Sokol, H., De Paepe, M. (2018) Phages infecting Faecalibacterium prausnitzii belong to novel viral genera that help decipher intestinal viromes. Microbiome

Ansaldi M, Debarbieux L, Gandon S, Petit MA, Tavares P, Boulanger P. (2018) "French Phage Network"-Third Meeting Report. Viruses 10(3). pii: E123. doi: 10.3390/v10030123


Diard M., Bakkeren E., Cornuault JK., Moor K., Hausmann A., Sellin ME., Loverdo C., Aertsen A., Ackermann M., De Paepe M., Slack E.,  Hardt WD. (2017) Inflammation boosts bacteriophage transfer between Salmonella spp. (2017)  Science 355(6330):1211-1215. doi: 10.1126/science.aaf8451. Epub 2017 Mar 16.

Brézellec P., Petit M.A., Pasek S., Vallet-Gely I., Possoz C., Ferat J.L.  (2017) Domestication of Lambda Phage Genes into a Putative Third Type of Replicative Helicase Matchmaker. Genome Biol Evol. 9(6):1561-1566. doi: 10.1093/gbe/evx111.


Enault F.,Briet A., Bouteille L., Roux S., Sullivan M.B., Petit M.A. (2016) Phages rarely encode antibiotic resistance genes: a cautionary tale for virome analysis. ISME Journal (doi: 10.1038/ismej.2016.90)

Delattre H., Souiai O., Fagoonee K., Guerois R., Petit M.-A. (2016) Phagonaute: A web-based interface for phage synteny browsing and protein function prediction.Virology 496, 42-50.

Hoff G, Bertrand C, Zhang L, Piotrowski E, Chipot L, Bontemps C, Confalonieri F, McGovern S, Lecointe F, Thibessard A, Leblond P (2016) Multiple and Variable NHEJ-Like Genes Are Involved in Resistance to DNA Damage in Streptomyces ambofaciens. Front Microbiol.7:1901.

McGovern S, Baconnais S, Roblin P, Nicolas P, Drevet P, Simonson H, Piétrement O, Charbonnier JB, Le Cam E, Noirot P, Lecointe F (2016) C-terminal region of bacterial Ku controls DNA bridging, DNA threading and recruitment of DNA ligase D for double strand breaks repair. Nucleic Acids Res. pii: gkw149

Bonanno L, Petit MA, Loukiadis E, Michel V, Auvray F. (2016) Heterogeneity in induction level, infection ability and morphology of Stx phages from dairy and human Shiga toxin-producing E. coli (STEC) O26:H11 isolates. Appl Environ Microbiol. pii: AEM.03463-15.

De Paepe M., Tournier L., Moncaut E., Son O., Langella Ph., Petit M.-A. (2016) Carriage of lambda latent virus is costly for its bacterial host due to frequent reactivation in monoxenic mouse intestine. PLoS Genet. 12(2): e1005861.doi:10.1371/journal.pgen.1005861


Menouni R, Hutinet G, Petit MA, Ansaldi M. (2015) Bacterial genome remodeling through bacteriophage recombination. FEMS Microbiol Lett.362(1):1-10.


Lopes A, Tavares P, Petit MA, Guérois R, Zinn-Justin S. (2014) Automated classification of tailed bacteriophages according to their neck organization. BMC Genomics.15:1027.

De Paepe M, Leclerc M, Tinsley CR, Petit MA.(2014) Bacteriophages : an underestimated role in human and animal health? Front Cell Infect Microbiol. 4:39. doi: 10.3389/fcimb.2014.00039.

De Paepe M, Hutinet G, Son O, Amarir-Bouhram J, Schbath S, Petit MA. (2014) Temperate phages acquire DNA from defective prophages by relaxed homologous recombination: the role of Rad52-like recombinases. PLoS Genet. 2014 Mar 6;10(3):e1004181.

Vayssier-Taussat M, Albina E, Citti C, Cosson JF, Jacques MA, Lebrun MH, Le Loir Y, Ogliastro M, Petit MA, Roumagnac P, Candresse T. (2014) Shifting the paradigm from pathogens to pathobiome: new concepts in the light of meta-omics. Front Cell Infect Microbiol. 4:29. doi: 10.3389/fcimb.2014.00029. eCollection 2014. Review.

De Paepe M, Petit MA (2014) Killing the killers. Elife. 2014 Sep 2;3:e04168. doi: 10.7554/eLife.04168. Comment


Amarir-Bouhram J, Goin M, Petit MA. (2011) Low efficiency of homology-facilitated illegitimate recombination during conjugation in Escherichia coli. PLoS One. 6(12):e28876.

Touzain F, Petit MA, Schbath S, El Karoui M. (2011) DNA motifs that sculpt the bacterial chromosome. Nat Rev Microbiol. 9(1):15-26.

Lopes A., Amarir-Bouhram J., Faure G., Petit M.-A., Guerois R. (2010). Detection of novel recombinases in bacteriophage genomes unveils Rad52, Rad51 and Gp2.5 remote homologs. Nucleic Acids Research 38, 3952-3962

Touzain, F., Denamur E., Médigue C., Barbe V., El Karoui M., Petit MA (2010). Small Variable Segments Constitute a Major Type of Diversity of Bacterial Genomes at the Species Level. Genome Biology 11, R45

Deloger M, El Karoui M, Petit MA. (2009). A genomic distance based on MUM indicates discontinuity between most bacterial species and genera. J Bacteriol. 2009 Jan;191(1):91-9. PMID: 18978054

Touchon, M., Hoede, C., Tenaillon, O., Barbe, V., Baeriswyl, S., Bidet, P., Bingen, E., Bonacorsi, S., Bouchier, C., Bouvet, O., Calteau, A., Chiapello, H., Clermont, O., Cruveiller, S., Danchin, A., Diard, M., Dossat, C., Karoui, M.E., Frapy, E., Garry, L., Ghigo, J.M., Gilles, A.M., Johnson, J., Le Bouguenec, C., Lescat, M., Mangenot, S., Martinez-Jehanne, V., Matic, I., Nassif, X., Oztas, S., Petit, M.A., Pichon, C., Rouy, Z., Ruf, C.S., Schneider, D., Tourret, J., Vacherie, B., Vallenet, D., Medigue, C., Rocha, E.P. and Denamur, E. (2009). Organised genome dynamics in the Escherichia coli species results in highly diverse adaptive paths. PLoS Genet, 5, e1000344.

Romain Mercier, Marie-Agnès Petit, Sophie Schbath, Stéphane Robin, Meriem El Karoui, Frédéric Boccard and Olivier Espeli. (2008). The MatP/matS site specific system organizes the Terminus region of the E. coli chromosome into a Macrodomain. Cell.;135(3):475-85.PMID: 18984159

Martinsohn JT, Radman M, Petit MA. (2008). The lambda red proteins promote efficient recombination between diverged sequences: implications for bacteriophage genome mosaicism. PLoS Genet.4, e1000065.PMID: 1845198

Chiapello H, Gendrault A, Caron C, Blum J, Petit MA, El Karoui M. (2008). MOSAIC: an online database dedicated to the comparative genomics of bacterial strains at the intra-species level. BMC Bioinformatics 9, 498.

Ana Gomez, Tatjana Galic, Jean-François Mariet, Ivan Matic, Miroslav Radman, Marie-Agnès Petit. (2005). Creating new genes by plasmid recombination in Escherichia coli and Bacillus subtilis. Appl. Environ. Microb. 71, 7607-7609

X. Veaute, S. Delmas, M. Selva, J. Jeusset, E. Le Cam, Matic, I., F. Fabre, M.-A. Petit (2005). UvrD helicase, unlike Rep helicase, dismantles the RecA nucleoprotein filament. EMBO J. 24, 180-189

M.-A Petit , S. D. Ehrlich (2002). Essential bacterial helicases that counteract the toxicity of recombination proteins . EMBO J.21, 3137-3147

M.-F. Noirot-Gros, P. Soultanas, D. B. Wigley, S. D. Ehrlich, P. Noirot, M.-A. Petit (2002). The beta-propeller protein YxaL increases the processivity of the PcrA helicase. Mol. Genet. Genomics267, 391-400

B. Carrasco, S. Fernandez, M.-A. Petit, J. Alonso (2001. Genetic recombination in Bacillus subtilis 168 : Effect of DhelD on DNA repair and homologous recombination. J. Bacteriol. 183 , 5772-5777

M.-A. Petit, S. D. Ehrlich (2000). The NAD-dependent ligase encoded by yerG is an essential gene of Bacillus subtilis. Nucleic Acid Research28, 4642-4648

M.-A. Petit, K. Yoshida, Y. Fujita, S.D. Ehrlich (2000). The 409 bp tandem repeat spanning gene yxaK and yxaL is absent from the Bacillus subtilis chromosome. Microbiology146, 2091-2092

M.-A. Petit, E. Dervyn, M. Rose, K.D. Entian, S. McGovern, S.D. Ehrlich, C. Bruand (1998). PcrA is an essential DNA helicase of Bacillus subtilis fulfilling functions both in repair and rolling circle replication. Molec. Microbiol.29, 261-273.

L. Jannière, V. Bidnenko, S. McGovern, S.D. Ehrlich, M.-A Petit (1997). Replication terminus for DNA polymerase I during initiation of pAMß1 replication : role of the plasmid-encoded resolution system. Molec. Microbiol.23, 525-535

L. Jannière, S. McGovern, C. Pujol, M.-A. Petit, S.D. Ehrlich (1996. In vivo analysis of the pAMß1 resolution system.Nucleic Acids Res. 24, 3431-3436.

M.-A. Petit, S.D. Ehrlich, L. Jannière (1995. pAMß1 resolvase has an atypical recombination site and requires a histone-like protein HU. Molec. Microbiol. 18, 271-282.

M.-A. Petit, Bedale, W., Osipiuk, J., Lu,C., McInnerney, P., Rajagopalan, M., Goodman, M., Echols, E. (1994). Sequential folding of UmuC by the Hsp70 and Hsp60 chaperone complexes of Escherichia coli. J. Biol. Chem.269, 23824-23828.

Hoffman, H.J., Lyman, S.K., Lu, C., Petit, M.-A., Echols, H. (1992). Activity of the Hsp70 chaperone complex-DnaK, DnaJ, and GrpE- in initiating phage lDNA replication by sequestering and releasing lP protein. Proc. Natl. Acad. Sci. USA, 89, 12108-12111.

M.-A. Petit, J.M. Mesas, Ph. Noirot, F. Morel , S.D. Ehrlich (1992. Induction of DNA amplification in Bacillus subtilis chromosome. EMBO J.11, 1317-1326.

M.-A. Petit, Dimpfl, J., Radman, M., Echols, H.(1991. Control of large chromosomal duplications in Escherichia coli by the mismatch repair system. Genetics129 , 327-332.

M.-A. Petit, Joliff, G., Mesas, J.M., Klier, A. Rapoport, G., Ehrlich S.D. (1990). Hypersecretion of a cellulase from Clostridium thermocellum in Bacillus subtilis by induction of chromosomal DNA amplification. Bio/technology8, 559-563.

M.-A. Petit, Bruand, C., Jannière, L., Ehrlich, S.D. (1990). Tn10 derived transposons active in Bacillus subtilis. J. Bacteriol. 172, 6736-6740.

P. Noirot, Petit, M.-A., Ehrlich, S.D. (1987). Plasmid replication stimulates DNA recombination in Bacillus subtilis .J. Mol. Biol. 196, 39-48