movie_s2.mp4 (7.04 MB)
movie_s2.mp4
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posted on 2018-02-28, 23:33 authored by Daniel McDonaldDaniel McDonald, Adam Robbins-Pianka, Allison E. Mann, Alison Vrbanac, Amnon Amir, Angel Frazier, Antonio Gonzalez, Anupriya Tripathi, Ashkaan K. Fahimipour, Caitriona Brennen, Cameron Martino, Carlito Lebrilla, Catherine Lozupone, Cecil M. Lewis Jr., Charles Raison, Chi Zhang, Christian L. Lauber, Christina Warinner, Christopher A. Lowry, Chris Callewaert, Cinnamon Bloss, Curtis Huttenhower, Dan Knights, Dana Willner, Daniel McDonald, Daniela Domingos Galzerani, David J. Gonzalez, David A. Mills, Deepak Chopra, Dirk Gevers, Donna Berg-Lyons, Dorothy D. Sears, Doug Wendel, Elaine Wolfe, Elijah Lovelace, Embriette R. Hyde, Emily Pierce, Emily TerAvest, Emmanuel Montassier, Evan Bolyen, Frederic D. Bushman, Gail Ackermann, Gary D. Wu, George M. Church, Gholamali Rahnavard, Gordon Saxe, Grant Gogul, Gregory Humphrey, Hannah D. Holscher, Ivo Ugrina, J. Bruce German, J. Gregory Caporaso, Jack Gilbert, Jacob M. Wozniak, Jacqueline Kerr, Jacques Ravel, James Gaffney, James D. Lewis, James T. Morton, Jan S. Suchodolski, Janet K. Jansson, Jarrad T. Hampton-Marcell, Jason Bobe, Jeff Leach, Jeroen Raes, Jessica L. Green, Jessica L. Metcalf, John H. Chase, Jonathan A. Eisen, Jonathan Monk, Jose A. Navas-Molina, Jose C. Clemente, Joseph Petrosino, Joshua Ladau, Joshua Shorenstein, Julia Goodrich, Julia Gauglitz, Julian Jacobs, Justine W. Debelius, Karsten Zengler, Katherine S. Pollard, Kelly S. Swanson, Kim Lewis, Kris Mayer, Kyle Bittinger, Lindsay DeRight Goldasich, Lindsay Dillon, Livia S. Zaramela, Luke R. Thompson, Lynn M. Schriml, Maria G. Dominguez-Bello, Marta M. Jankowska, Martin Blaser, Matthew A. Jackson, Meg Pirrung, Michael Minson, Mike Kurisu, Nadim Ajami, Naseer Sangwan, Neil R. Gottel, Nicholas Chia, Noah Fierer, Owen White, Patrice D. Cani, Paul Wischmeyer, Pawel Gajer, Philip Strandwitz, Phillip Hugenholtz, Pieter C Dorrestein, Purna Kashyap, Rachel Dutton, Rachel S. Park, Ramnik J. Xavier, Rob Knight, Robert R. Dunn, Robert H. Mills, Rosa Krajmalnik-Brown, Ruth Ley, Sarah M. Owens, Scott T. Kelley, Scott Klemmer, Sébastien Matamoros, Shyamal Peddada, Siavash Mirarab, Stefan Janssen, Stephanie Moorman, Susan Holmes, Tara Schwartz, Tifani W. Eshoo-Anton, Tim Vigers, Timothy Spector, Tomasz Kosciolek, Varykina G. Thackray, Vineet Pandey, Will Van Treuren, Xin Fang, Yingfeng Chen, Yoshiki Vázquez-Baeza, Zhenjiang Zech Xu, Alexander A. Aksenov, Alexey V. Melnik, Alan Jarmusch, Justin Geier, Pavel Pevzner, Dmitry Meleshko, Bahar Behsaz, Nicolai Reeve, Ricardo Silva, Qiyun Zhu, Evguenia Kopylova, Clarisse Marotz, Larry Smarr, Tanya Nguyen, Hosein Mohimani, Lingjing Jiang, Austin Swafford, Dominic Nguyen, Se Jin Song, Karenina Sanders, Rodolfo Antonio Salido Benitez, Arthur Cole Heale, Dilip V. Jeste, Tanya T. Nguyen, Brennan, Caitriona, Max AbramsonPlacing changes in the microbiome in the context of the American Gut. We accumulated samples over sequencing runs to demonstrate the structural consistency in the data. We demonstrate that while the ICU dataset (https://www.ncbi.nlm.nih.gov/pubmed/27602409) falls within the American Gut samples, they do not fall close to most samples at any of the body sites. We then highlight samples from the United Kingdom, Australia, the United States and other countries to show that nationality does not overcome the variation in body site. We then highlight the utility of the American Gut in meta-analysis by reproducing results from (https://www.ncbi.nlm.nih.gov/pubmed/20668239) and (https://www.ncbi.nlm.nih.gov/pubmed/23861384), using the AGP dataset as the context for dynamic microbiome changes instead of the HMP dataset. We show rapid, complete recovery of C. diff patients following fecal material transplantation and also contextualized the change in an infant gut over time until it settles into an adult state. This demonstrates the power of the American Gut dataset, both as a cohesive study and as a context for other investigations.
