D. A. Antonopoulos, M. Susan, H. G. Huse, T. M. Morrison, M. L. Schmidt et al., Reproducible Community Dynamics of the Gastrointestinal Microbiota Following Antibiotic Perturbation, vol.77, pp.2367-75, 2009.

M. Arumugam, J. Raes, E. Pelletier, D. L. Paslier, T. Yamada et al., « Enterotypes of the human gut microbiome, The Effect of Infections on Susceptibility to Autoimmune and Allergic Diseases, vol.473, pp.911-931, 2002.

J. A. Barnard, G. Et, and . Warwick, « Butyrate rapidly induces growth inhibition and differentiation in HT-29 cells, Cell Growth & Differentiation, vol.4, issue.6, p.495, 1993.

H. Bauer, R. E. Horowitz, S. M. Levenson, and H. Popper, « The Response of the Lymphatic Tissue to the Microbial Flora. Studies on Germfree Mice, The American Journal of Pathology, vol.42, pp.471-83, 1963.

M. Baumgart, B. Dogan, M. Rishniw, G. Weitzman, B. Bosworth et al., « Culture Independent Analysis of Ileal Mucosa Reveals a Selective Increase in Invasive Escherichia Coli of Novel Phylogeny Relative to Depletion of Clostridiales in Crohn's Disease Involving the Ileum, The ISME Journal, vol.1, issue.5, pp.403-421, 2007.

M. Begley, C. Hill, G. M. Et-cormac, and . Gahan, Bile Salt Hydrolase Activity in Probiotics, vol.72, pp.1729-1767, 2006.

A. M. Berg, P. Ciarán, F. A. Kelly, and . Farraye, Clostridium Difficile Infection in the Inflammatory Bowel Disease Patient, vol.19, pp.194-204, 2013.

M. Bermudez-brito, S. Muñoz-quezada, C. Gomez-llorente, E. Matencio, M. J. Bernal et al., « Cell-Free Culture Supernatant of Bifidobacterium breve CNCM I-4035 Decreases ProInflammatory Cytokines in Human Dendritic Cells Challenged with Salmonella typhi through TLR Activation, PLoS ONE, vol.8, issue.3, 2013.

, « Cell-Free Culture Supernatant of Bifidobacterium Breve CNCM I-4035 Decreases Pro-Inflammatory Cytokines in Human Dendritic Cells Challenged with Salmonella Typhi through TLR Activation, PLOS ONE, vol.8, issue.3, p.59370, 2013.

A. ;. Bernalier-donadille and . Gastroenterologie, « [Fermentative metabolism by the human gut microbiota, Clinique Et Biologique, vol.34, issue.10, pp.70016-70022, 2010.

G. Biasucci, M. Rubini, S. Riboni, L. Morelli, E. Bessi et al., « Mode of Delivery Affects the Bacterial Community in the Newborn Gut, Early Human Development, vol.86, pp.13-15, 2010.

M. Breban, J. Tap, A. Leboime, R. Said-nahal, P. Langella et al., « Faecal Microbiota Study Reveals Specific Dysbiosis in Spondyloarthritis, Annals of the Rheumatic Diseases, vol.76, issue.9, pp.1614-1636, 2017.

P. J. Brennan, M. Brigl, and M. B. Brenner, « Invariant Natural Killer T Cells: An Innate Activation Scheme Linked to Diverse Effector Functions », Nature Reviews Immunology, vol.13, issue.2, pp.101-118, 2013.

K. Brown, K. Valenta, D. Fisman, and A. Simor, et Nick Daneman. 2015. « Hospital Ward Antibiotic Prescribing and the Risks of Clostridium Difficile Infection, vol.175, pp.626-659


K. Brown, D. Decoffe, E. Molcan, D. L. Et, and . Gibson, Diet-Induced Dysbiosis of the Intestinal Microbiota and the Effects on Immunity and Disease, vol.4, pp.1095-1119, 2012.

R. Canani, M. D. Berni, L. Costanzo, M. Leone, R. Pedata et al., « Potential beneficial effects of butyrate in intestinal and extraintestinal diseases, World Journal of Gastroenterology : WJG, vol.17, issue.12, pp.1519-1547, 2011.

A. T. Cao, S. Yao, B. Gong, R. I. Nurieva, C. O. Elson et al., « Interleukin (IL)21 Promotes Intestinal IgA Response to Microbiota, Mucosal Immunology, vol.8, issue.5, pp.1072-82, 2015.

J. Cosnes, C. Gower-rousseau, P. Seksik, and A. Cortot, Epidemiology and Natural History of Inflammatory Bowel Diseases, 2011.
URL : https://hal.archives-ouvertes.fr/hal-00631553

, Gastroenterology, vol.140, issue.6, pp.1785-1794

. Couturier-maillard, T. Aurélie, A. Secher, S. Rehman, A. Normand et al., « NOD2-mediated dysbiosis predisposes mice to transmissible colitis and colorectal cancer, The Journal of Clinical Investigation, vol.123, issue.2, pp.700-711, 2013.

D. Filippo, C. , D. Cavalieri, M. D. Paola, M. Ramazzotti et al., « Impact of Diet in Shaping Gut Microbiota Revealed by a Comparative Study in Children from Europe and Rural Africa, Proceedings of the National Academy of Sciences of the United States of America, vol.107, pp.14691-96, 2010.

S. Devkota, Y. Wang, M. W. Musch, V. Leone, H. Fehlner-peach et al., « Dietary-Fat-Induced Taurocholic Acid Promotes Pathobiont Expansion and Colitis in Il10-/Mice », Nature, vol.487, issue.7405, pp.104-112, 2012.


J. F. Dopheide, P. Knopf, G. C. Zeller, M. Vosseler, N. Abegunewardene et al., « Low IL10/TNF? Ratio in Patients with Coronary Artery Disease and Reduced Left Ventricular Ejection Fraction with a Poor Prognosis After 10 Years, Inflammation, vol.38, issue.2, pp.911-933, 2015.

D. Ehrlich and S. ;. Gastroenterologie, Clinique Et Biologique, vol.34

, , pp.70017-70025

R. Dziarski, S. Y. Park, D. R. Kashyap, S. E. Dowd, and D. Gupta, « Pglyrp-Regulated Gut Microflora Prevotella falsenii, Parabacteroides distasonis and Bacteroides eggerthii Enhance and Alistipes finegoldii Attenuates Colitis in Mice, PLoS ONE, vol.11, issue.1, 2016.

E. G. Zoetendal, W. M. De-vos, D. L. Antoon, W. M. Akkermans, J. Akkermans-van-vliet et al., The Host Genotype Affects the Bacterial Community in the Human Gastronintestinal Tract, vol.13, pp.129-163, 2001.

M. Fallani, D. Young, J. Scott, E. Norin, S. Amarri et al., « Intestinal Microbiota of 6-Week-Old Infants across Europe: Geographic Influence beyond Delivery Mode, Breast-Feeding, 2010.

, Antibiotics ».Journal of Pediatric Gastroenterology and Nutrition, vol.51, issue.1, pp.77-84

K. Farkas, S. Yeruva, Z. Rakonczay, L. Ludolph, T. Molnár et al., New Therapeutic Targets in Ulcerative Colitis: The Importance of Ion Transporters in the Human Colon, vol.17, pp.884-98, 2011.

K. E. Fujimura, S. V. Et, and . Lynch, Microbiota in Allergy and Asthma and the Emerging Relationship with the Gut Microbiome, vol.17, pp.592-602, 2015.

E. Furrie, S. Macfarlane, G. Thomson, and G. T. Macfarlane, « Toll-like Receptors-2,-3 and-4 Expression Patterns on Human Colon and Their Regulation by Mucosal-Associated Bacteria, Immunology, vol.115, issue.4, p.565, 2005.

F. Gerbe, E. Sidot, D. J. Smyth, M. Ohmoto, I. Matsumoto et al., « Intestinal Epithelial Tuft Cells Initiate Type 2 Mucosal Immunity to Helminth Parasites », Nature, vol.529, issue.7585, pp.226-256, 2016.

D. Haller, S. Blum, C. Bode, W. P. Hammes, and E. J. Schiffrin, « Activation of Human Peripheral Blood Mononuclear Cells by Nonpathogenic Bacteria In Vitro: Evidence of NK Cells as Primary Targets, Infection and Immunity, vol.68, issue.2, pp.752-59, 2000.

A. Hamaï, J. Muret, A. Cavalcanti, S. Bonvalot, and S. Chouaïb, Le facteur de nécrose tumorale: de la biologie à la thérapie oncologique, 2009.

. Hématologie, , pp.291-304

J. A. Hawrelak, « The Causes of Intestinal Dysbiosis: A Review, vol.9, p.18, 2004.

S. Hedges and M. Svensson, et Catharina Svanborg. 1992. « Interleukin-6 Response of Epithelial Cell Lines to Bacterial Stimulation In Vitro, vol.60, p.7

M. A. Hildebrandt, C. Hoffmann, S. A. Sherrill-mix, S. A. Keilbaugh, M. Hamady et al., High-Fat Diet Determines the Composition of the Murine Gut Microbiome Independently of Obesity, vol.137, pp.1716-1724, 2009.

R. Hughes, E. A. Magee, and E. S. Bingham, « Protein Degradation in the Large Intestine: Relevance to Colorectal Cancer, Current Issues in Intestinal Microbiology, vol.1, issue.2, pp.51-58, 2000.

. Ichinohe, I. K. Takeshi, Y. Pang, D. R. Kumamoto, J. H. Peaper et al., « Microbiota regulates immune defense against respiratory tract influenza A virus infection, Proceedings of the National Academy of Sciences of the United States of America, vol.108, pp.5354-59, 2011.

A. S. Ismail, C. L. Behrendt, and L. V. Hooper, Reciprocal Interactions between Commensal Bacteria and Gamma Delta Intraepithelial Lymphocytes during, 2009.

, Mucosal Injury ». Journal of Immunology, vol.182, issue.5, pp.3047-54, 1950.

S. Iyer, . Subramanian, G. Et, and . Cheng, « Role of Interleukin 10 Transcriptional Regulation in Inflammation and Autoimmune Disease, Critical reviews in immunology, vol.32, issue.1, pp.23-63, 2012.

C. Jernberg, S. Löfmark, C. Edlund, J. K. Et, and . Jansson, « Long-Term Ecological Impacts of Antibiotic Administration on the Human Intestinal, 2007.

». Microbiota, The ISME Journal, vol.1, issue.1, pp.56-66

M. E. Johansson, J. K. Gustafsson, J. Holmén-larsson, K. S. Jabbar, L. Xia et al., « Bacteria penetrate the normally impenetrable inner colon mucus layer in both murine colitis models and patients with ulcerative colitis, Gut, vol.63, issue.2, pp.281-91, 2014.

H. Kandori, K. Hirayama, M. Takeda, and E. K. Doi, « Histochemical, LectinHistochemical and Morphometrical Characteristics of Intestinal Goblet Cells of Germfree and Conventional Mice, Experimental Animals, vol.45, issue.2, pp.155-60, 1996.

K. Lucia, M. , K. Shimpei, M. Mikako, . Et-fagarasan et al., The role of the adaptive immune system in regulation of gut microbiota, vol.260, pp.67-75, 2014.

B. L. Kelsall, M. Et, and . Rescigno, « Mucosal Dendritic Cells in Immunity and Inflammation ». News. Nature Immunology. 1 novembre, 2004.

O. Kim, A. Yoen, M. Monsel, P. Bertrand, J. Coriat et al., et Minou Adib-Conquy. 2010. « Differential down-regulation of HLA-DR on monocyte subpopulations during systemic inflammation, vol.14, p.61

Y. S. Kim, B. Samuel, and . Ho, « Intestinal Goblet Cells and Mucins in Health and Disease: Recent Insights and Progress, Current Gastroenterology Reports, vol.12, issue.5, pp.319-349, 2010.

H. L. Klaasen, P. J. Van-der-heijden, W. Stok, F. G. Poelma, J. P. Koopman et al., « Apathogenic, Intestinal, Segmented, Filamentous Bacteria Stimulate the Mucosal Immune System of Mice, Infection and Immunity, vol.61, issue.1, pp.303-309, 1993.

G. Kleiner, A. Marcuzzi, V. Zanin, L. Monasta, G. Et et al., Cytokine Levels in the Serum of Healthy Subjects, 2013.

L. Serre, C. Barbier-de, C. L. Ellis, J. Lee, A. L. Hartman et al., Propensity to High-Fat Diet-Induced Obesity in Rats Is Associated with Changes in the Gut Microbiota and Gut Inflammation, 2010.

, American Journal of Physiology. Gastrointestinal and Liver Physiology, vol.299, issue.2, pp.440-448

R. M. Laird, J. Benjamin, M. F. Wolf, S. M. Princiotta, and . Hayes, « ?? T Cells Acquire Effector Fates in the Thymus and Differentiate into Cytokine-Producing Effectors in a Listeria Model of Infection Independently of CD28 Costimulation », PLoS ONE, vol.8, issue.5, 2013.

B. Lamas, M. L. Richard, V. Leducq, H. Pham, M. Michel et al., « CARD9 impacts colitis by altering gut microbiota metabolism of tryptophan into aryl hydrocarbon receptor ligands », Nature medicine, vol.22, issue.6, pp.598-605, 2016.

E. Larsson, V. Tremaroli, Y. S. Lee, O. Koren, I. Nookaew et al., Analysis of gut microbial regulation of host gene expression along the length of the gut and regulation of gut microbial ecology through MyD88, Gut, vol.61, issue.8, pp.1124-1155, 2012.

S. Lee, G. P. Melanie, Z. Donaldson, S. Mikulski, K. Boyajian et al., Bacterial Colonization Factors Control Specificity and Stability of the Gut Microbiota, vol.501, pp.426-455, 2013.


. Levy, A. A. Maayan, C. A. Kolodziejczyk, E. Thaiss, and . Elinav, « Dysbiosis and the Immune System », Nature Reviews Immunology, vol.17, issue.4, pp.219-251, 2017.

R. E. Ley, J. Peter, S. Turnbaugh, J. I. Klein, and . Gordon, Microbial Ecology: Human Gut Microbes Associated with Obesity, vol.444, pp.1022-1045, 2006.

. Lin, N. Y. Zhonghua, N. Chiang, D. Chai, W. P. Seshasayee et al., « In Vivo Antigen-Driven Plasmablast Enrichment in Combination with Antigen-Specific Cell Sorting to Facilitate the Isolation of Rare Monoclonal Antibodies from Human B Cells », Nature Protocols, vol.9, issue.7, pp.1563-77, 2014.

A. J. Macpherson, Y. Köller, K. D. Et, and . Mccoy, The bilateral responsiveness between intestinal microbes and IgA, vol.36, pp.460-70, 2015.

C. Manichanh, . Rigottier-gois, . Bonnaud, . Gloux, L. Pelletier et al., « Reduced diversity of faecal microbiota in Crohn's disease revealed by a metagenomic approach, Gut, vol.55, issue.2, pp.205-216, 2006.


A. Marcobal, A. M. Southwick, K. A. Earle, and J. L. Sonnenburg, « A Refined Palate: Bacterial Consumption of Host Glycans in the Gut, Glycobiology, vol.23, issue.9, pp.1038-1084, 2013.

R. Martín, E. Jiménez, H. Heilig, L. Fernández, L. María et al., « Isolation of Bifidobacteria from Breast Milk and Assessment of the Bifidobacterial Population by PCR-Denaturing Gradient Gel Electrophoresis and Quantitative Real-Time PCR, Applied and Environmental Microbiology, vol.75, issue.4, pp.965-69, 2009.

S. K. Mazmanian, . Cui-hua, A. O. Liu, D. L. Tzianabos, and . Kasper, « An Immunomodulatory Molecule of Symbiotic Bacteria Directs Maturation of the Host Immune System, Cell, vol.122, issue.1, pp.107-125, 2005.

J. R. Mcdole, W. Leroy, K. G. Wheeler, B. Mcdonald, V. Wang et al., « Goblet cells deliver luminal antigen to CD103+ DCs in the small intestine, Nature, vol.483, issue.7389, pp.345-394, 2012.

A. Mcintyre, P. R. Gibson, and G. P. Young, « Butyrate Production from Dietary Fibre and Protection against Large Bowel Cancer in a Rat Model, » Gut, vol.34, issue.3, p.386, 1993.

M. Monteiro-sepulveda, S. Touch, C. Mendes-sá, S. André, C. Poitou et al., Jejunal T Cell Inflammation in Human Obesity Correlates with Decreased Enterocyte Insulin Signaling, vol.22, pp.113-137, 2015.

L. O. Moreira, D. S. Et, and . Zamboni, NOD1 and NOD2 Signaling in Infection and Inflammation, vol.3, 2012.


A. M. Mowat, W. W. Et, and . Agace, « Regional Specialization within the Intestinal Immune System », Nature Reviews. Immunology, vol.14, issue.10, pp.667-85, 2014.

M. E. Mulligan, D. Citron, E. Gabay, B. D. Kirby, W. L. George et al., Alterations in Human Fecal Flora, Including Ingrowth of Clostridium Difficile, vol.26, p.343, 1984.

A. M. Neyrinck, W. Sam-possemiers, F. D. Verstraete, P. D. Backer, N. M. Cani et al., « Dietary modulation of clostridial cluster XIVa gut bacteria (Roseburia spp.) by chitin-glucan fiber improves host metabolic alterations induced by high-fat diet in mice, The Journal of Nutritional Biochemistry, vol.23, issue.1, pp.51-59, 2012.

E. Nood, A. Van, M. Vrieze, S. Nieuwdorp, E. G. Fuentes et al., Duodenal Infusion of Donor Feces for Recurrent Clostridium Difficile, 2013.

, , 2013.


B. Pigneur, H. Et, and . Sokol, « Fecal Microbiota Transplantation in Inflammatory Bowel Disease: The Quest for the Holy Grail, Mucosal Immunology, vol.9, issue.6, pp.1360-65, 2016.

K. Pokusaeva, G. F. Fitzgerald, and . Et-douwe-van-sinderen, Carbohydrate Metabolism in Bifidobacteria, vol.6, pp.285-306, 2011.

S. E. Pryde, H. Sylvia, G. L. Duncan, C. S. Hold, H. J. Stewart et al., The Microbiology of Butyrate Formation in the Human Colon, vol.217, pp.133-172, 2002.

J. Qin, R. Li, J. Raes, M. Arumugam, C. Kristoffer-solvsten-burgdorf et al., « A human gut microbial gene catalog established by metagenomic sequencing », Nature, vol.464, issue.7285, pp.59-65, 2010.

E. Quévrain, M. A. Maubert, C. Michon, F. Chain, R. Marquant et al., « Identification of an Anti-Inflammatory Protein from Faecalibacterium Prausnitzii, a Commensal Bacterium Deficient in Crohn's Disease », Gut, vol.65, issue.3, pp.415-440, 2016.

S. Rautava and R. Luoto, Seppo Salminen, et Erika Isolauri. 2012. « Microbial Contact during Pregnancy, Intestinal Colonization and Human Disease », Nature Reviews Gastroenterology & Hepatology, vol.9, issue.10, pp.565-76


A. Rehman, C. Sina, O. Gavrilova, R. Häsler, S. Ott et al., « Nod2 Is Essential for Temporal Development of Intestinal Microbial Communities, Gut, vol.60, issue.10, pp.1354-62, 2011.

D. Reikvam, A. Henrik, A. Erofeev, V. Sandvik, F. L. Grcic et al.,

. Meza-zepeda and . Et-finn-eirik-johansen, « Depletion of Murine Intestinal Microbiota: Effects on Gut Mucosa and Epithelial Gene Expression, PloS One, vol.6, issue.3, p.17996, 2011.

M. Rescigno, « Intestinal Microbiota and Its Effects on the Immune System, Cellular Microbiology, vol.16, issue.7, pp.1004-1017, 2014.

, « Review on Nod-Like Receptors (NLR) or CATERPILLER-InvivoGen ». s. d. Consulté le 8 août 2017

S. Roock, . De, M. O. Merel-van-elk, . Hoekstra, J. Berent et al., Gut Derived Lactic Acid Bacteria Induce Strain Specific CD4+ T Cell Responses in Human PBMC », vol.30, pp.845-51, 2011.

J. L. Round, K. Et-sarkis, and . Mazmanian, « Inducible Foxp3+ Regulatory T-Cell Development by a Commensal Bacterium of the Intestinal Microbiota, Proceedings of the National Academy of Sciences, vol.107, pp.12204-12213, 2010.


S. Rutz and C. Eidenschenk, et Wenjun Ouyang. 2013. « IL-22, Not Simply a Th17 Cytokine, vol.252, pp.116-148


S. Saha, X. Jing, S. Y. Park, S. Wang, X. Li et al., « Peptidoglycan Recognition Proteins Protect Mice from Experimental Colitis by Promoting Normal Gut Flora and Preventing Induction of Interferon-?, Cell host & microbe, vol.8, issue.2, pp.147-62, 2010.


A. Santacruz, A. Marcos, J. Wärnberg, A. Martí, M. Martinmatillas et al., « Interplay between Weight Loss and Gut Microbiota Composition in Overweight Adolescents, Obesity (Silver Spring, Md.), vol.17, issue.10, pp.1906-1921, 2009.

R. Satokari, S. Fuentes, E. Mattila, J. Jalanka, W. M. De-vos et al., « Fecal Transplantation Treatment of Antibiotic-Induced, Noninfectious Colitis and Long-Term Microbiota Follow-Up, Case Reports in Medicine, 2014.

J. U. Scher, A. Sczesnak, R. S. Longman, N. Segata, C. Ubeda et al., « Expansion of Intestinal Prevotella Copri Correlates with Enhanced Susceptibility to Arthritis, vol.2, p.1202, 2013.

P. Schnupf, V. Gaboriau-routhiau, and N. Cerf-bensussan, « Host interactions with Segmented Filamentous Bacteria: An unusual trade-off that drives the post-natal maturation of the gut immune system ». Seminars in Immunology, Microbiota and the immune system, an amazing mutualism forged by co-evolution, vol.25, pp.342-51, 2013.

. Sekirov, N. M. Inna, M. Tam, M. L. Jogova, Y. Robertson et al., « Antibiotic-Induced Perturbations of the Intestinal Microbiota Alter Host Susceptibility to Enteric Infection, Infection and Immunity, vol.76, issue.10, pp.4726-4762, 2008.

P. Seksik, L. Rigottier-gois, G. Gramet, M. Sutren, P. Pochart et al., « Alterations of the Dominant Faecal Bacterial Groups in Patients with Crohn's Disease of the Colon, Gut, vol.52, issue.2, pp.237-279, 2003.

A. Seth, D. B. Fang-yan, R. K. Polk, and . Rao, « Probiotics Ameliorate the Hydrogen Peroxide-Induced Epithelial Barrier Disruption by a PKC-and MAP KinaseDependent Mechanism, American Journal of Physiology. Gastrointestinal and Liver Physiology, vol.294, issue.4, pp.1060-1069, 2008.

N. Shulzhenko, A. Morgun, W. Hsiao, M. Battle, M. Yao et al., « Crosstalk between B lymphocytes, microbiota and the intestinal epithelium governs immunity versus metabolism in the gut », Nature medicine, vol.17, issue.12, pp.1585-93, 2011.

H. Sokol, B. Pigneur, L. Watterlot, O. Lakhdari, L. G. Bermúdezhumarán et al., « Faecalibacterium Prausnitzii Is an Anti-Inflammatory Commensal Bacterium Identified by Gut Microbiota Analysis of Crohn Disease Patients, Proceedings of the National Academy of Sciences of the United States of America, vol.105, pp.16731-16767, 2008.

F. Sommer and F. Bäckhed, « The Gut Microbiota-Masters of Host Development and Physiology », Nature Reviews. Microbiology, vol.11, issue.4, pp.227-265, 2013.

J. A. Sorg, A. L. Et, and . Sonenshein, Bile Salts and Glycine as Cogerminants for Clostridium Difficile Spores, vol.190, pp.2505-2517, 2008.

J. C. Stearns, A. Michael, R. J. Zulyniak, N. C. De-souza, M. Campbell et al., « Ethnic and diet-related differences in the healthy infant microbiome, Genome Medicine, vol.9, 2017.


B. Stecher, L. Maier, and W. Hardt, « "Blooming" in the Gut: How Dysbiosis Might Contribute to Pathogen Evolution », Nature Reviews Microbiology, vol.11, issue.4, pp.277-84, 2013.

J. A. Stewart, S. Vinton, A. Chadwick, and . Murray, « Investigations into the Influence of Host Genetics on the Predominant Eubacteria in the Faecal Microflora of Children », Journal of Medical Microbiology, vol.54, pp.1239-1281, 2005.

W. Strober, N. Asano, I. Fuss, A. Kitani, T. Et et al., « Cellular and Molecular Mechanisms Underlying NOD2 Risk-Associated Polymorphisms in Crohn's Disease », Immunological Reviews, vol.260, issue.1, pp.249-60, 2014.

A. Suau, R. Bonnet, M. Sutren, J. Godon, G. R. Gibson et al., « Direct Analysis of Genes Encoding 16S rRNA from Complex Communities Reveals Many Novel Molecular Species within the Human Gut, Applied and Environmental Microbiology, vol.65, issue.11, pp.4799-4807, 1999.

N. K. Surana, D. L. Et, and . Kasper, « The yin yang of bacterial polysaccharides: Lessons learned from B. fragilis PSA », Immunological reviews, vol.245, issue.1, pp.13-26, 2012.

R. Syme, R. Bajwa, L. Robertson, D. Stewart, and S. Glück, « Comparison of CD34 and Monocyte-Derived Dendritic Cells from Mobilized Peripheral Blood from Cancer Patients, STEM CELLS, vol.23, issue.1, pp.74-81, 2005.

K. Takahashi, Y. Sugi, K. Nakano, M. Tsuda, K. Kurihara et al., Epigenetic Control of the Host Gene by Commensal Bacteria in Large Intestinal Epithelial Cells, The Journal of Biological Chemistry, vol.286, issue.41, p.35755, 2011.

T. Tanaka, M. Narazaki, T. Et, and . Kishimoto, « IL-6 in Inflammation, Cold Spring Harbor Perspectives in Biology, vol.6, issue.10, 2014.

J. Tap, S. Mondot, F. Levenez, E. Pelletier, C. Caron et al., Towards the Human Intestinal Microbiota Phylogenetic Core, vol.11, pp.2574-84, 2009.

P. Toivanen, J. Vaahtovuo, E. Et, and . Eerola, « Influence of Major Histocompatibility Complex on Bacterial Composition of Fecal Flora, Infection and Immunity, vol.69, issue.4, pp.2372-77, 2001.

J. Tomas, L. Wrzosek, N. Bouznad, S. Bouet, C. Mayeur et al., « Primocolonization Is Associated with Colonic Epithelial Maturation during Conventionalization, FASEB Journal: Official Publication of the Federation of American Societies for Experimental Biology, vol.27, issue.2, pp.645-55, 2013.

K. Tsilingiri, T. Barbosa, G. Penna, F. Caprioli, A. Sonzogni et al., Probiotic and Postbiotic Activity in Health and Disease: Comparison on a Novel Polarised Ex-Vivo Organ Culture Model, vol.61, pp.1007-1022, 2012.

P. J. Turnbaugh, F. Bäckhed, L. Fulton, and J. I. Gordon, « DietInduced Obesity Is Linked to Marked but Reversible Alterations in the Mouse Distal Gut Microbiome, Cell Host & Microbe, vol.3, issue.4, pp.213-236, 2008.


P. J. Turnbaugh, M. Hamady, T. Yatsunenko, B. L. Cantarel, A. Duncan et al., « A core gut microbiome in obese and lean twins », Nature, vol.457, issue.7228, pp.480-84, 2009.

P. J. Turnbaugh, K. Vanessa, J. J. Ridaura, F. E. Faith, R. Rey et al., The Effect of Diet on the Human Gut Microbiome: A Metagenomic Analysis in Humanized Gnotobiotic Mice, vol.1, pp.6-14, 2009.

C. Ubeda and E. G. Pamer, « Antibiotics, microbiota, and immune defense, Trends in immunology, vol.33, issue.9, pp.459-66, 2012.

A. W. Walker, J. D. Sanderson, C. Churcher, C. Gareth, B. N. Parkes et al., High-Throughput Clone Library Analysis of the MucosaAssociated Microbiota Reveals Dysbiosis and Differences between Inflamed and NonInflamed Regions of the Intestine in Inflammatory Bowel Disease, vol.11, 2011.

K. L. Walton, J. He, B. L. Kelsall, R. B. Sartor, and N. C. Fisher, « Dendritic Cells in Germ-Free and Specific Pathogen-Free Mice Have Similar Phenotypes and in Vitro Antigen Presenting Function », Immunology Letters, vol.102, issue.1, pp.16-24, 2006.

M. Wlodarska, B. Willing, K. M. Keeney, A. Menendez, K. S. Bergstrom et al., Antibiotic Treatment Alters the Colonic Mucus Layer and Predisposes the Host to Exacerbated Citrobacter rodentiumInduced Colitis, Infection and Immunity, vol.79, issue.4, pp.1536-1581, 2011.


K. Wolk, E. Witte, U. Hoffmann, W. Doecke, S. Endesfelder et al., « IL-22 Induces Lipopolysaccharide-Binding Protein in Hepatocytes: A Potential Systemic Role of IL-22 in Crohn's Disease », Journal of Immunology, vol.178, issue.9, pp.5973-81, 1950.

Q. Yan, Y. Gu, X. Li, W. Yang, L. Jia et al., Alterations of the Gut Microbiome in Hypertension, 2017.

T. Yatsunenko, F. E. Rey, M. J. Manary, I. Trehan, M. G. Dominguezbello et al., « Human gut microbiome viewed across age and geography », Nature, vol.486, issue.7402, pp.222-249, 2012.

C. Zhang, M. Zhang, S. Wang, R. Han, Y. Cao et al., « Interactions between Gut Microbiota, Host Genetics and Diet Relevant to Development of Metabolic Syndromes in Mice, The ISME Journal, vol.4, issue.2, pp.232-273, 2010.

J. Zimmer, B. Lange, J. Frick, H. Sauer, K. Zimmermann et al., « A Vegan or Vegetarian Diet Substantially Alters the Human Colonic Faecal Microbiota, European Journal of Clinical Nutrition, vol.66, issue.1, pp.53-60, 2012.