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Structure, Function and Diversity of the Healthy Human Microbiome
Nature, 2012 Studies of the human microbiome have revealed that even healthy individuals differ remarkably in the microbes that occupy habitats such as the gut, skin and vagina. Much of this diversity remains unexplained, although diet, environment, host genetics and C. Huttenhower, D. Gevers, R. Knight, Sahar Abubucker, J. Badger, A. Chinwalla, H. Creasy, A. Earl, Michael G. Fitzgerald, R. Fulton, M. Giglio, Kymberlie Hallsworth-Pepin, E. Lobos, R. Madupu, V. Magrini, John Martin, M. Mitreva, D. Muzny, E. Sodergren, J. Versalovic, A. Wollam, K. Worley, J. Wortman, Sarah K. Young, Qiandong Zeng, K. Aagaard, Olukemi O. Abolude, E. Allen-Vercoe, E. Alm, Lucia Alvarado, G. Andersen, S. Anderson, Elizabeth L. Appelbaum, H. Arachchi, G. Armitage, Cesar Arze, T. Ayvaz, Carl C. Baker, L. Begg, Tsegahiwot Belachew, Veena Bhonagiri, Monika Bihan, M. Blaser, Toby Bloom, Vivien R. Bonazzi, J. Brooks, G. Buck, C. Buhay, D. Busam, Joseph L. Campbell, S. Canon, B. Cantarel, P. Chain, I. Chen, Lei Chen, Shaila Chhibba, Ken Chu, Dawn M. Ciulla, J. Clemente, S. Clifton, S. Conlan, J. Crabtree, M. Cutting, Noam J. Davidovics, Catherine C. Davis, T. DeSantis, C. Deal, Kimberley D. Delehaunty, F. Dewhirst, E. Deych, Yan Ding, D. Dooling, Shannon P. Dugan, W. Dunne, A. S. Durkin, Robert C. Edgar, R. Erlich, Candace N. Farmer, R. Farrell, Karoline Faust, M. Feldgarden, Victor Felix, Sheila A Fisher, A. Fodor, L. Forney, Les Foster, V. D. Francesco, Jonathan Friedman, Dennis C. Friedrich, C. Fronick, L. Fulton, Hongyu Gao, Nathalia Garcia, G. Giannoukos, C. Giblin, Maria Y. Giovanni, J. Goldberg, Johannes Goll, Antonio Gonzalez, Allison D. Griggs, Sharvari Gujja, S. Haake, B. Haas, Holli A. Hamilton, Emily L. Harris, Theresa A. Hepburn, Brandi N. Herter, D. Hoffmann, M. Holder, Clinton Howarth, Katherine H. Huang, Susan M. Huse, J. Izard, J. Jansson, Huaiyang Jiang, Catherine Jordan, Vandita Joshi, J. Katancik, W. Keitel, S. Kelley, C. Kells, N. King, D. Knights, H. Kong, O. Koren, S. Koren, Karthik Kota, C. Kovar, N. Kyrpides, P. S. Rosa, Sandy Lee, K. P. Lemon, N. Lennon, Cecil M. Lewis, L. Lewis, R. Ley, Kelvin Li, K. Liolios, Bo Liu, Yue Liu, C. Lo, C. Lozupone, R. Lunsford, T. Madden, A. Mahurkar, P. Mannon, E. Mardis, V. Markowitz, K. Mavromatis, J. McCorrison, Daniel McDonald, J. Mcewen, A. McGuire, P. Mcinnes, Teena Mehta, K. Mihindukulasuriya, J. Miller, P. Minx, I. Newsham, C. Nusbaum, M. O'Laughlin, Joshua Orvis, I. Pagani, Krishna Palaniappan, Shital M. Patel, Matthew D. Pearson, Jane L. Peterson, M. Podar, C. Pohl, K. Pollard, Mihai Pop, M. Priest, L. Proctor, X. Qin, J. Raes, J. Ravel, J. Reid, Mina Rho, R. Rhodes, Kevin P. Riehle, M. Rivera, B. Rodriguez-Mueller, Y. Rogers, M. C. Ross, C. Russ, Ravi K. Sanka, P. Sankar, J. Sathirapongsasuti, J. Schloss, P. Schloss, T. Schmidt, M. Scholz, L. Schriml, Alyxandria M. Schubert, N. Segata, J. Segre, W. Shannon, R. Sharp, T. Sharpton, N. Shenoy, N. Sheth, Gina A. Simone, Indresh Singh, C. Smillie, J. Sobel, Daniel D. Sommer, P. Spicer, G. Sutton, S. Sykes, D. Tabbaa, M. Thiagarajan, Chad Tomlinson, M. Torralba, Todd J. Treangen, R. Truty, T. Vishnivetskaya, Jason R. Walker, Lu Wang, Zhengyuan O. Wang, D. Ward, W. Warren, M. Watson, Christopher Wellington, K. Wetterstrand, J. White, Katarzyna Wilczek-Boney, Yuanqing Wu, K. Wylie, T. Wylie, C. Yandava, Liang Ye, Yuzhen Ye, Shibu Yooseph, Bonnie P. Youmans, Lan Zhang, Yanjiao Zhou, Yiming Zhu, L. Zoloth, Jeremy D. Zucker, B. Birren, R. Gibbs, S. Highlander, B. Methé, K. Nelson, J. Petrosino, G. Weinstock, R. Wilson, O. White +247 moresemanticscholar +1 more sourceShort-term consumption of a high-fat diet increases host susceptibility to Listeria monocytogenes infection
Microbiome, 2019 Background A westernized diet comprising a high caloric intake from animal fats is known to influence the development of pathological inflammatory conditions.Vanessa Las Heras, Adam G. Clooney, Feargal J. Ryan, Raul Cabrera-Rubio, Pat G. Casey, Cara M. Hueston, Jorge Pinheiro, Justine K. Rudkin, Silvia Melgar, Paul D. Cotter, Colin Hill, Cormac G. M. Gahan +11 moredoaj +1 more sourceRectal Microbiome Composition Correlates with Humoral Immunity to HIV-1 in Vaccinated Rhesus Macaques. [PDF]
, 2019 The microbiome is an integral and dynamic component of the host and is emerging as a critical determinant of immune responses; however, its influence on vaccine immunogenicity is largely not well understood.Dinasarapu, Ashok R, Durbin-Johnson, Blythe P, Elizaldi, Sonny R, Iyer, Smita S, Kozlowski, Pamela A, Raeman, Reben, Rolston, Matthew, Settles, Matthew, Verma, Anil, Walter, Korey A +9 morecore +1 more sourceHuman gut microbiome viewed across age and geography
Nature, 2012 Gut microbial communities represent one source of human genetic and metabolic diversity. To examine how gut microbiomes differ among human populations, here we characterize bacterial species in fecal samples from 531 individuals, plus the gene content of Tanya Yatsunenko, F. Rey, M. Manary, Indi Trehan, M. Dominguez-Bello, M. Contreras, M. Magris, G. Hidalgo, R. Baldassano, A. Anokhin, A. Heath, B. Warner, Jens Reeder, Justin Kuczynski, J. Caporaso, C. Lozupone, C. Lauber, J. Clemente, D. Knights, R. Knight, J. Gordon +20 moresemanticscholar +1 more sourceAn IBD-associated pathobiont synergises with NSAID to promote colitis which is blocked by NLRP3 inflammasome and Caspase-8 inhibitors
Gut Microbes, 2023 Conflicting evidence exists on the association between consumption of non-steroidal anti-inflammatory drugs (NSAIDs) and symptomatic worsening of inflammatory bowel disease (IBD).Raminder Singh, Valerio Rossini, Stephen R. Stockdale, Gonzalo Saiz-Gonzalo, Naomi Hanrahan, Tanya D’ Souza, Adam Clooney, Lorraine A. Draper, Colin Hill, Ken Nally, Fergus Shanahan, Stefan Andersson-Engels, Silvia Melgar +12 moredoaj +1 more sourceAccessory microbiomes
Microbiology, 2023 In microbiome research, considerable effort has been invested in finding core microbiomes, which have been hypothesized to contain the species most important for host function. Much less attention has been paid to microbiome members that are present in only a subset of hosts. Such accessory microbiomes must in large part consist of species that have no openaire +2 more sourcesSaving seed microbiomes [PDF]
The ISME Journal, 2018 Abstract Plant seeds are home to diverse microbial communities whose composition is determined by plant genotype, environment, and management practices. Plant domestication is now recognized as an important driver of plant-associated microbial diversity.Gabriele Berg, Jos M Raaijmakersopenaire +3 more sourcesIsolation and characterisation of ΦcrAss002, a crAss-like phage from the human gut that infects Bacteroides xylanisolvens
Microbiome, 2021 Background The gut phageome comprises a complex phage community of thousands of individual strains, with a few highly abundant bacteriophages. CrAss-like phages, which infect bacteria of the order Bacteroidales, are the most abundant bacteriophage family Emma Guerin, Andrey N. Shkoporov, Stephen R. Stockdale, Joan Colom Comas, Ekaterina V. Khokhlova, Adam G. Clooney, Karen M. Daly, Lorraine A. Draper, Niamh Stephens, Dimitri Scholz, R. Paul Ross, Colin Hill +11 moredoaj +1 more source