TY - JOUR AU - Sender, R. AU - Fuchs, S. AU - Milo, R. PY - 2016 DA - 2016// TI - Revised estimates for the number of human and Bacteria cells in the body JO - PLoS Biol VL - 14 UR - https://doi.org/10.1371/journal.pbio.1002533 DO - 10.1371/journal.pbio.1002533 ID - Sender2016 ER - TY - JOUR AU - Rosenbaum, M. AU - Knight, R. AU - Leibel, R. L. PY - 2015 DA - 2015// TI - The gut microbiota in human energy homeostasis and obesity JO - Trends Endocrinol Metab VL - 26 UR - https://doi.org/10.1016/j.tem.2015.07.002 DO - 10.1016/j.tem.2015.07.002 ID - Rosenbaum2015 ER - TY - JOUR AU - Cani, P. D. PY - 2017 DA - 2017// TI - Gut microbiota - at the intersection of everything? JO - Nat Rev Gastroenterol Hepatol VL - 14 UR - https://doi.org/10.1038/nrgastro.2017.54 DO - 10.1038/nrgastro.2017.54 ID - Cani2017 ER - TY - JOUR AU - Lynch, S. V. AU - Pedersen, O. PY - 2016 DA - 2016// TI - The human intestinal microbiome in health and disease JO - N Engl J Med VL - 375 UR - https://doi.org/10.1056/NEJMra1600266 DO - 10.1056/NEJMra1600266 ID - Lynch2016 ER - TY - JOUR AU - Cussotto, S. AU - Sandhu, K. V. AU - Dinan, T. G. AU - Cryan, J. F. PY - 2018 DA - 2018// TI - The neuroendocrinology of the microbiota-gut-brain Axis: a Behavioural perspective JO - Front Neuroendocrinol VL - 51 UR - https://doi.org/10.1016/j.yfrne.2018.04.002 DO - 10.1016/j.yfrne.2018.04.002 ID - Cussotto2018 ER - TY - STD TI - Breton J, Déchelotte P, Ribet D. Intestinal microbiota and anorexia nervosa. Clin Nutr Exp. 2019;28:11–21. https://doi.org/10.1016/j.yclnex.2019.05.001. ID - ref6 ER - TY - JOUR AU - Roy, T. AU - Debedat, J. AU - Marquet, F. AU - Da-Cunha, C. AU - Ichou, F. AU - Guerre-Millo, M. PY - 2018 DA - 2018// TI - Comparative evaluation of microbiota engraftment following fecal microbiota transfer in mice models: age, kinetic and microbial status matter JO - Front Microbiol VL - 9 UR - https://doi.org/10.3389/fmicb.2018.03289 DO - 10.3389/fmicb.2018.03289 ID - Roy2018 ER - TY - JOUR AU - Kennedy, E. A. AU - King, K. Y. AU - Baldridge, M. T. PY - 2018 DA - 2018// TI - Mouse microbiota models: comparing germ-free mice and antibiotics treatment as tools for modifying gut bacteria JO - Front Physiol VL - 9 UR - https://doi.org/10.3389/fphys.2018.01534 DO - 10.3389/fphys.2018.01534 ID - Kennedy2018 ER - TY - JOUR AU - Lundberg, R. AU - Toft, M. F. AU - August, B. AU - Hansen, A. K. AU - Hansen, C. H. PY - 2016 DA - 2016// TI - Antibiotic-treated versus germ-free rodents for microbiota transplantation studies JO - Gut Microbes VL - 7 UR - https://doi.org/10.1080/19490976.2015.1127463 DO - 10.1080/19490976.2015.1127463 ID - Lundberg2016 ER - TY - JOUR AU - Rakoff-Nahoum, S. AU - Paglino, J. AU - Eslami-Varzaneh, F. AU - Edberg, S. AU - Medzhitov, R. PY - 2004 DA - 2004// TI - Recognition of commensal microflora by toll-like receptors is required for intestinal homeostasis JO - Cell. VL - 118 UR - https://doi.org/10.1016/j.cell.2004.07.002 DO - 10.1016/j.cell.2004.07.002 ID - Rakoff-Nahoum2004 ER - TY - JOUR AU - Ochoa-Reparaz, J. AU - Mielcarz, D. W. AU - Ditrio, L. E. AU - Burroughs, A. R. AU - Foureau, D. M. AU - Haque-Begum, S. PY - 2009 DA - 2009// TI - Role of gut commensal microflora in the development of experimental autoimmune encephalomyelitis JO - J Immunol VL - 183 UR - https://doi.org/10.4049/jimmunol.0900747 DO - 10.4049/jimmunol.0900747 ID - Ochoa-Reparaz2009 ER - TY - JOUR AU - Hill, D. A. AU - Hoffmann, C. AU - Abt, M. C. AU - Du, Y. AU - Kobuley, D. AU - Kirn, T. J. PY - 2010 DA - 2010// TI - Metagenomic analyses reveal antibiotic-induced temporal and spatial changes in intestinal microbiota with associated alterations in immune cell homeostasis JO - Mucosal Immunol VL - 3 UR - https://doi.org/10.1038/mi.2009.132 DO - 10.1038/mi.2009.132 ID - Hill2010 ER - TY - JOUR AU - Reikvam, D. H. AU - Erofeev, A. AU - Sandvik, A. AU - Grcic, V. AU - Jahnsen, F. L. AU - Gaustad, P. PY - 2011 DA - 2011// TI - Depletion of murine intestinal microbiota: effects on gut mucosa and epithelial gene expression JO - PLoS One VL - 6 UR - https://doi.org/10.1371/journal.pone.0017996 DO - 10.1371/journal.pone.0017996 ID - Reikvam2011 ER - TY - JOUR AU - Kuss, S. K. AU - Best, G. T. AU - Etheredge, C. A. AU - Pruijssers, A. J. AU - Frierson, J. M. AU - Hooper, L. V. PY - 2011 DA - 2011// TI - Intestinal microbiota promote enteric virus replication and systemic pathogenesis JO - Science. VL - 334 UR - https://doi.org/10.1126/science.1211057 DO - 10.1126/science.1211057 ID - Kuss2011 ER - TY - JOUR AU - Oh, J. Z. AU - Ravindran, R. AU - Chassaing, B. AU - Carvalho, F. A. AU - Maddur, M. S. AU - Bower, M. PY - 2014 DA - 2014// TI - TLR5-mediated sensing of gut microbiota is necessary for antibody responses to seasonal influenza vaccination JO - Immunity. VL - 41 UR - https://doi.org/10.1016/j.immuni.2014.08.009 DO - 10.1016/j.immuni.2014.08.009 ID - Oh2014 ER - TY - JOUR AU - Hintze, K. J. AU - Cox, J. E. AU - Rompato, G. AU - Benninghoff, A. D. AU - Ward, R. E. AU - Broadbent, J. PY - 2014 DA - 2014// TI - Broad scope method for creating humanized animal models for animal health and disease research through antibiotic treatment and human fecal transfer JO - Gut Microbes VL - 5 UR - https://doi.org/10.4161/gmic.28403 DO - 10.4161/gmic.28403 ID - Hintze2014 ER - TY - JOUR AU - Yan, J. AU - Herzog, J. W. AU - Tsang, K. AU - Brennan, C. A. AU - Bower, M. A. AU - Garrett, W. S. PY - 2016 DA - 2016// TI - Gut microbiota induce IGF-1 and promote bone formation and growth JO - Proc Natl Acad Sci U S A VL - 113 UR - https://doi.org/10.1073/pnas.1607235113 DO - 10.1073/pnas.1607235113 ID - Yan2016 ER - TY - JOUR AU - Emal, D. AU - Rampanelli, E. AU - Stroo, I. AU - Butter, L. M. AU - Teske, G. J. AU - Claessen, N. PY - 2017 DA - 2017// TI - Depletion of gut microbiota protects against renal ischemia-reperfusion injury JO - J Am Soc Nephrol VL - 28 UR - https://doi.org/10.1681/ASN.2016030255 DO - 10.1681/ASN.2016030255 ID - Emal2017 ER - TY - JOUR AU - Li, F. AU - Hao, X. AU - Chen, Y. AU - Bai, L. AU - Gao, X. AU - Lian, Z. PY - 2017 DA - 2017// TI - The microbiota maintain homeostasis of liver-resident gammadeltaT-17 cells in a lipid antigen/CD1d-dependent manner JO - Nat Commun VL - 7 UR - https://doi.org/10.1038/ncomms13839 DO - 10.1038/ncomms13839 ID - Li2017 ER - TY - JOUR AU - Hugon, P. AU - Lagier, J. C. AU - Robert, C. AU - Lepolard, C. AU - Papazian, L. AU - Musso, D. PY - 2013 DA - 2013// TI - Molecular studies neglect apparently gram-negative populations in the human gut microbiota JO - J Clin Microbiol VL - 51 UR - https://doi.org/10.1128/JCM.00473-13 DO - 10.1128/JCM.00473-13 ID - Hugon2013 ER - TY - JOUR AU - Vandeputte, D. AU - Kathagen, G. AU - D'Hoe, K. AU - Vieira-Silva, S. AU - Valles-Colomer, M. AU - Sabino, J. PY - 2017 DA - 2017// TI - Quantitative microbiome profiling links gut community variation to microbial load JO - Nature. VL - 551 UR - https://doi.org/10.1038/nature24460 DO - 10.1038/nature24460 ID - Vandeputte2017 ER - TY - JOUR AU - Gensollen, T. AU - Iyer, S. S. AU - Kasper, D. L. AU - Blumberg, R. S. PY - 2016 DA - 2016// TI - How colonization by microbiota in early life shapes the immune system JO - Science. VL - 352 UR - https://doi.org/10.1126/science.aad9378 DO - 10.1126/science.aad9378 ID - Gensollen2016 ER - TY - JOUR AU - Ge, X. AU - Ding, C. AU - Zhao, W. AU - Xu, L. AU - Tian, H. AU - Gong, J. PY - 2017 DA - 2017// TI - Antibiotics-induced depletion of mice microbiota induces changes in host serotonin biosynthesis and intestinal motility JO - J Transl Med VL - 15 UR - https://doi.org/10.1186/s12967-016-1105-4 DO - 10.1186/s12967-016-1105-4 ID - Ge2017 ER - TY - JOUR AU - Grasa, L. AU - Abecia, L. AU - Forcen, R. AU - Castro, M. AU - Jalon, J. A. AU - Latorre, E. PY - 2015 DA - 2015// TI - Antibiotic-induced depletion of murine microbiota induces mild inflammation and changes in toll-like receptor patterns and intestinal motility JO - Microb Ecol VL - 70 UR - https://doi.org/10.1007/s00248-015-0613-8 DO - 10.1007/s00248-015-0613-8 ID - Grasa2015 ER - TY - JOUR AU - Wichmann, A. AU - Allahyar, A. AU - Greiner, T. U. AU - Plovier, H. AU - Lunden, G. O. AU - Larsson, T. PY - 2013 DA - 2013// TI - Microbial modulation of energy availability in the colon regulates intestinal transit JO - Cell Host Microbe VL - 14 UR - https://doi.org/10.1016/j.chom.2013.09.012 DO - 10.1016/j.chom.2013.09.012 ID - Wichmann2013 ER - TY - JOUR AU - Vandeputte, D. AU - Falony, G. AU - Vieira-Silva, S. AU - Tito, R. Y. AU - Joossens, M. AU - Raes, J. PY - 2016 DA - 2016// TI - Stool consistency is strongly associated with gut microbiota richness and composition, enterotypes and bacterial growth rates JO - Gut. VL - 65 UR - https://doi.org/10.1136/gutjnl-2015-309618 DO - 10.1136/gutjnl-2015-309618 ID - Vandeputte2016 ER - TY - JOUR AU - Hadizadeh, F. AU - Walter, S. AU - Belheouane, M. AU - Bonfiglio, F. AU - Heinsen, F. A. AU - Andreasson, A. PY - 2017 DA - 2017// TI - Stool frequency is associated with gut microbiota composition JO - Gut. VL - 66 UR - https://doi.org/10.1136/gutjnl-2016-311935 DO - 10.1136/gutjnl-2016-311935 ID - Hadizadeh2017 ER - TY - JOUR AU - Barrett, K. E. PY - 2017 DA - 2017// TI - Endogenous and exogenous control of gastrointestinal epithelial function: building on the legacy of Bayliss and Starling JO - J Physiol VL - 595 UR - https://doi.org/10.1113/JP272227 DO - 10.1113/JP272227 ID - Barrett2017 ER - TY - JOUR AU - Abt, M. C. AU - Osborne, L. C. AU - Monticelli, L. A. AU - Doering, T. A. AU - Alenghat, T. AU - Sonnenberg, G. F. PY - 2012 DA - 2012// TI - Commensal bacteria calibrate the activation threshold of innate antiviral immunity JO - Immunity. VL - 37 UR - https://doi.org/10.1016/j.immuni.2012.04.011 DO - 10.1016/j.immuni.2012.04.011 ID - Abt2012 ER - TY - JOUR AU - Baldridge, M. T. AU - Nice, T. J. AU - McCune, B. T. AU - Yokoyama, C. C. AU - Kambal, A. AU - Wheadon, M. PY - 2015 DA - 2015// TI - Commensal microbes and interferon-lambda determine persistence of enteric murine norovirus infection JO - Science. VL - 347 UR - https://doi.org/10.1126/science.1258025 DO - 10.1126/science.1258025 ID - Baldridge2015 ER - TY - JOUR AU - Prest, E. I. AU - Hammes, F. AU - Kotzsch, S. AU - Loosdrecht, M. C. AU - Vrouwenvelder, J. S. PY - 2013 DA - 2013// TI - Monitoring microbiological changes in drinking water systems using a fast and reproducible flow cytometric method JO - Water Res VL - 47 UR - https://doi.org/10.1016/j.watres.2013.07.051 DO - 10.1016/j.watres.2013.07.051 ID - Prest2013 ER - TY - STD TI - Breton J, Tirelle P, Hasanat S, Pernot A, L’huillier C, do Rego JC, et al. Gut microbiota alteration in a mouse model of Anorexia Nervosa. Clin Nutr. 2020. https://doi.org/10.1016/j.clnu.2020.05.002. ID - ref32 ER - TY - JOUR AU - Liu, C. M. AU - Kachur, S. AU - Dwan, M. G. AU - Abraham, A. G. AU - Aziz, M. AU - Hsueh, P. R. PY - 2012 DA - 2012// TI - FungiQuant: a broad-coverage fungal quantitative real-time PCR assay JO - BMC Microbiol VL - 12 UR - https://doi.org/10.1186/1471-2180-12-255 DO - 10.1186/1471-2180-12-255 ID - Liu2012 ER - TY - STD TI - Doré J, Ehrlich SD, Levenez F, Pelletier E, Alberti A, Bertrand L, et al. IHMS_SOP 06 V1: standard operating procedure for fecal samples DNA extraction, protocol Q. Int Hum Microb Stand. 2015.. ID - ref34 ER -