S. Abedon, Facilitation of CRISPR adaptation, Bacteriophage, vol.1, issue.3, pp.179-181, 2011.
DOI : 10.1098/rspb.2010.0055

S. Abedon, S. Kuhl, B. Blasdel, and E. Kutter, Phage treatment of human infections, Bacteriophage, vol.7, issue.2, pp.66-85, 2011.
DOI : 10.1016/S0041-1345(03)00525-6

B. Aldabe, Household transmission of haemolytic uraemic syndrome associated with Escherichia coli O104:H4, south-western France, Euro Surveill, vol.16, pp.1-3, 2011.
URL : https://hal.archives-ouvertes.fr/pasteur-01121005

J. Alonso, P. Tavares, R. Lurz, and T. Trautner, Bacteriophage SPP1, The bacteriophages, pp.331-349, 2006.

C. Bevins and N. Salzman, Paneth cells, antimicrobial peptides and maintenance of intestinal homeostasis, Nature Reviews Microbiology, vol.272, issue.5, pp.356-368, 2011.
DOI : 10.1074/jbc.272.38.23729

G. Bogosian, Bacteriophages in commercial microbiology and fermentation facilities p 667? 673 The bacteriophages, In Calendar RL, 2006.

H. Brüssow, Phage therapy: the Escherichia coli experience, Microbiology, vol.151, issue.7, pp.2133-2140, 2005.
DOI : 10.1099/mic.0.27849-0

B. Burrowes, D. Harper, J. Anderson, M. Mcconville, and M. Enright, Bacteriophage therapy: potential uses in the control of antibiotic-resistant pathogens, Expert Review of Anti-infective Therapy, vol.8, issue.9, pp.775-785, 2011.
DOI : 10.1073/pnas.93.8.3188

T. Callaway, O157:H7 Populations in Ruminant Gastrointestinal Tracts, Foodborne Pathogens and Disease, vol.5, issue.2, pp.183-191, 2008.
DOI : 10.1089/fpd.2007.0057

S. Chibani-chennoufi, In Vitro and In Vivo Bacteriolytic Activities of Escherichia coli Phages: Implications for Phage Therapy, Antimicrobial Agents and Chemotherapy, vol.48, issue.7, pp.2558-2569, 2004.
DOI : 10.1128/AAC.48.7.2558-2569.2004

M. Clokie, A. Millard, A. Letarov, and S. Heaphy, Phages in nature, Bacteriophage, vol.152, issue.1, pp.31-45, 2011.
DOI : 10.1098/rstb.2009.0036

A. Croswell, E. Amir, P. Teggatz, M. Barman, and N. Salzman, Prolonged Impact of Antibiotics on Intestinal Microbial Ecology and Susceptibility to Enteric Salmonella Infection, Infection and Immunity, vol.77, issue.7, pp.2741-2753, 2009.
DOI : 10.1128/IAI.00006-09

M. Croxen and B. Finlay, Molecular mechanisms of Escherichia coli pathogenicity, Nature Reviews Microbiology, vol.9, issue.1, pp.26-38, 2010.
DOI : 10.4049/jimmunol.181.4.2672

L. Debarbieux, Lung Infections, The Journal of Infectious Diseases, vol.201, issue.7, pp.1096-1104, 2010.
DOI : 10.1086/651135
URL : https://hal.archives-ouvertes.fr/pasteur-01425464

E. Denamur, The 2011 Shiga toxin-producing Escherichia coli O104:H4 German outbreak: a lesson in genomic plasticity, Clinical Microbiology and Infection, vol.17, issue.8, pp.1124-1125, 2011.
DOI : 10.1111/j.1469-0691.2011.03620.x

E. Denou, T4 phages against Escherichia coli diarrhea: Potential and problems, Virology, vol.388, issue.1, pp.21-30, 2009.
DOI : 10.1016/j.virol.2009.03.009

J. Furet, Comparative assessment of human and farm animal faecal microbiota using real-time quantitative PCR, FEMS Microbiology Ecology, vol.4, issue.3, pp.351-362, 2009.
DOI : 10.1111/j.1348-0421.2002.tb02709.x

M. Gabig, The cell surface protein Ag43 facilitates phage infection of Escherichia coli in the presence of bile salts and carbohydrates, Microbiology, vol.168, issue.5, pp.1533-1542, 2002.
DOI : 10.1016/0378-1119(85)90120-9

A. Górski, Bacteriophage therapy for the treatment of infections, Curr. Opin. Investig. Drugs, vol.10, pp.766-774, 2009.

S. Harrington, The Pic Protease of Enteroaggregative Escherichia coli Promotes Intestinal Colonization and Growth in the Presence of Mucin, Infection and Immunity, vol.77, issue.6, pp.2465-2473, 2009.
DOI : 10.1128/IAI.01494-08

N. Jamalludeen, R. Johnson, P. Shewen, and C. Gyles, Evaluation of bacteriophages for prevention and treatment of diarrhea due to experimental enterotoxigenic Escherichia coli O149 infection of pigs, Veterinary Microbiology, vol.136, issue.1-2, pp.135-141, 2009.
DOI : 10.1016/j.vetmic.2008.10.021

G. Kang, A. Pulimood, M. Mathan, and V. Mathan, Enteroaggregative Escherichia Coli infection in a rabbit model, Pathology, vol.33, issue.3, pp.341-346, 2001.
DOI : 10.1080/00313020126303

P. Kaur, A. Chakraborti, and A. Asea, Enteroaggregative Escherichia coli: an emerging enteric food borne pathogen, Interdiscip. Perspect. Infect. Dis, p.254159, 2010.

M. Kutateladze and R. Adamia, Bacteriophages as potential new therapeutics to replace or supplement antibiotics, Trends in Biotechnology, vol.28, issue.12, pp.591-595, 2010.
DOI : 10.1016/j.tibtech.2010.08.001

V. Martinez-jéhanne, Role of Deoxyribose Catabolism in Colonization of the Murine Intestine by Pathogenic Escherichia coli Strains, Infection and Immunity, vol.77, issue.4, pp.1442-1450, 2009.
DOI : 10.1128/IAI.01039-08

D. Maura, Intestinal colonization by enteroaggregative Escherichia coli supports long-term bacteriophage replication in mice, Environmental Microbiology, vol.189, issue.8, pp.1844-1854, 2012.
DOI : 10.1128/JB.00838-07

E. Mcconnell, A. Basit, and S. Murdan, Measurements of rat and mouse gastrointestinal pH, fluid and lymphoid tissue, and implications for in-vivo experiments, Journal of Pharmacy and Pharmacology, vol.58, issue.1, pp.63-70, 2008.
DOI : 10.1211/jpp.58.10.0004

C. Mcvay, M. Velasquez, and J. Fralick, Phage Therapy of Pseudomonas aeruginosa Infection in a Mouse Burn Wound Model, Antimicrobial Agents and Chemotherapy, vol.51, issue.6, pp.1934-1938, 2007.
DOI : 10.1128/AAC.01028-06

C. Mossoro, Chronic Diarrhea, Hemorrhagic Colitis, and Hemolytic-Uremic Syndrome Associated with HEp-2 Adherent Escherichia coli in Adults Infected with Human Immunodeficiency Virus in Bangui, Central African Republic, Journal of Clinical Microbiology, vol.40, issue.8, pp.3086-3088, 2002.
DOI : 10.1128/JCM.40.8.3086-3088.2002

M. Muniesa, J. Hammerl, S. Hertwig, B. Appel, and H. Brussow, ABSTRACT, Applied and Environmental Microbiology, vol.78, issue.12, pp.4065-4073, 2012.
DOI : 10.1128/AEM.00217-12

I. Piva, Virulence Markers of Enteroaggregative Escherichia coli Isolated from Children and Adults with Diarrhea in Brasilia, Brazil, Journal of Clinical Microbiology, vol.41, issue.5, pp.1827-1832, 2003.
DOI : 10.1128/JCM.41.5.1827-1832.2003

D. Rasko, Strain Causing an Outbreak of Hemolytic???Uremic Syndrome in Germany, New England Journal of Medicine, vol.365, issue.8, pp.709-717, 2011.
DOI : 10.1056/NEJMoa1106920

R. Raya, O157, Bacteriophage, vol.148, issue.1, pp.15-24, 2011.
DOI : 10.1016/S0092-8674(05)80091-1

R. Raya, Isolation and Characterization of a New T-Even Bacteriophage, CEV1, and Determination of Its Potential To Reduce Escherichia coli O157:H7 Levels in Sheep, Applied and Environmental Microbiology, vol.72, issue.9, pp.6405-6410, 2006.
DOI : 10.1128/AEM.03011-05

L. Rivas, In Vivo and Ex Vivo Evaluations of Bacteriophages e11/2 and e4/1c for Use in the Control of Escherichia coli O157:H7, Applied and Environmental Microbiology, vol.76, issue.21, pp.7210-7216, 2010.
DOI : 10.1128/AEM.01530-10

E. Ryan, S. Gorman, R. Donnelly, and B. Gilmore, Recent advances in bacteriophage therapy: how delivery routes, formulation, concentration and timing influence the success of phage therapy, Journal of Pharmacy and Pharmacology, vol.14, issue.10, pp.1253-1264, 2011.
DOI : 10.1016/j.drudis.2009.03.006

J. Sarantuya, Typical Enteroaggregative Escherichia coli Is the Most Prevalent Pathotype among E. coli Strains Causing Diarrhea in Mongolian Children, Journal of Clinical Microbiology, vol.42, issue.1, pp.133-139, 2004.
DOI : 10.1128/JCM.42.1.133-139.2004

F. Scheutz, Characteristics of the enteroaggregative Shiga toxin/verotoxin-producing Escherichia coli O104:H4 strain causing the outbreak of haemolytic uraemic syndrome in Germany, Euro Surveill, vol.16, pp.1-6, 2011.

H. Sheng, H. Knecht, I. Kudva, and C. Hovde, Application of Bacteriophages To Control Intestinal Escherichia coli O157:H7 Levels in Ruminants, Applied and Environmental Microbiology, vol.72, issue.8, pp.5359-5366, 2006.
DOI : 10.1128/AEM.00099-06

H. Smith and M. Huggins, Effectiveness of Phages in Treating Experimental Escherichia coli Diarrhoea in Calves, Piglets and Lambs, Microbiology, vol.129, issue.8, pp.2659-2675, 1983.
DOI : 10.1099/00221287-129-8-2659

H. Smith, M. Huggins, and K. Shaw, The Control of Experimental Escherichia coli Diarrhoea in Calves by Means of Bacteriophages, Microbiology, vol.133, issue.5, pp.1111-1126, 1987.
DOI : 10.1099/00221287-133-5-1111

Y. Tanji, Therapeutic use of phage cocktail for controlling Escherichia coli O157:H7 in gastrointestinal tract of mice, Journal of Bioscience and Bioengineering, vol.100, issue.3, pp.280-287, 2005.
DOI : 10.1263/jbb.100.280

G. Taubes, The Bacteria Fight Back, Science, vol.321, issue.5887, pp.356-361, 2008.
DOI : 10.1126/science.321.5887.356

M. Touchon, Organised Genome Dynamics in the Escherichia coli Species Results in Highly Diverse Adaptive Paths, PLoS Genetics, vol.68, issue.1, 2009.
DOI : 10.1371/journal.pgen.1000344.s016
URL : https://hal.archives-ouvertes.fr/hal-00390293

S. Tzipori, Studies with enteroaggregative Escherichia coli in the gnotobiotic piglet gastroenteritis model, Infect. Immun, vol.60, pp.5302-5306, 1992.

C. Wanke, Enteroaggregative Escherichia coli as a Potential Cause of Diarrheal Disease in Adults Infected with Human Immunodeficiency Virus, Journal of Infectious Diseases, vol.178, issue.1, pp.185-190, 1998.
DOI : 10.1086/515595

M. Weiss, In vivo replication of T4 and T7 bacteriophages in germ-free mice colonized with Escherichia coli, Virology, vol.393, issue.1, pp.16-23, 2009.
DOI : 10.1016/j.virol.2009.07.020