10.6084/m9.figshare.5936482.v1 Daniel McDonald Daniel McDonald Adam Robbins-Pianka Adam Robbins-Pianka Allison E. Mann Allison E. Mann Alison Vrbanac Alison Vrbanac Amnon Amir Amnon Amir Angel Frazier Angel Frazier Antonio Gonzalez Antonio Gonzalez Anupriya Tripathi Anupriya Tripathi Ashkaan K. Fahimipour Ashkaan K. Fahimipour Caitriona Brennen Caitriona Brennen Cameron Martino Cameron Martino Carlito Lebrilla Carlito Lebrilla Catherine Lozupone Catherine Lozupone Cecil M. Lewis Jr. Cecil M. Lewis Jr. Charles Raison Charles Raison Chi Zhang Chi Zhang Christian L. Lauber Christian L. Lauber Christina Warinner Christina Warinner Christopher A. Lowry Christopher A. Lowry Chris Callewaert Chris Callewaert Cinnamon Bloss Cinnamon Bloss Curtis Huttenhower Curtis Huttenhower Dan Knights Dan Knights Dana Willner Dana Willner Daniel McDonald Daniel McDonald Daniela Domingos Galzerani Daniela Domingos Galzerani David J. Gonzalez David J. Gonzalez David A. Mills David A. Mills Deepak Chopra Deepak Chopra Dirk Gevers Dirk Gevers Donna Berg-Lyons Donna Berg-Lyons Dorothy D. Sears Dorothy D. Sears Doug Wendel Doug Wendel Elaine Wolfe Elaine Wolfe Elijah Lovelace Elijah Lovelace Embriette R. Hyde Embriette R. Hyde Emily Pierce Emily Pierce Emily TerAvest Emily TerAvest Emmanuel Montassier Emmanuel Montassier Evan Bolyen Evan Bolyen Frederic D. Bushman Frederic D. Bushman Gail Ackermann Gail Ackermann Gary D. Wu Gary D. Wu George M. Church George M. Church Gholamali Rahnavard Gholamali Rahnavard Gordon Saxe Gordon Saxe Grant Gogul Grant Gogul Gregory Humphrey Gregory Humphrey Hannah D. Holscher Hannah D. Holscher Ivo Ugrina Ivo Ugrina J. Bruce German J. Bruce German J. Gregory Caporaso J. Gregory Caporaso Jack Gilbert Jack Gilbert Jacob M. Wozniak Jacob M. Wozniak Jacqueline Kerr Jacqueline Kerr Jacques Ravel Jacques Ravel James Gaffney James Gaffney James D. Lewis James D. Lewis James T. Morton James T. Morton Jan S. Suchodolski Jan S. Suchodolski Janet K. Jansson Janet K. Jansson Jarrad T. Hampton-Marcell Jarrad T. Hampton-Marcell Jason Bobe Jason Bobe Jeff Leach Jeff Leach Jeroen Raes Jeroen Raes Jessica L. Green Jessica L. Green Jessica L. Metcalf Jessica L. Metcalf John H. Chase John H. Chase Jonathan A. Eisen Jonathan A. Eisen Jonathan Monk Jonathan Monk Jose A. Navas-Molina Jose A. Navas-Molina Jose C. Clemente Jose C. Clemente Joseph Petrosino Joseph Petrosino Joshua Ladau Joshua Ladau Joshua Shorenstein Joshua Shorenstein Julia Goodrich Julia Goodrich Julia Gauglitz Julia Gauglitz Julian Jacobs Julian Jacobs Justine W. Debelius Justine W. Debelius Karsten Zengler Karsten Zengler Katherine S. Pollard Katherine S. Pollard Kelly S. Swanson Kelly S. Swanson Kim Lewis Kim Lewis Kris Mayer Kris Mayer Kyle Bittinger Kyle Bittinger Lindsay DeRight Goldasich Lindsay DeRight Goldasich Lindsay Dillon Lindsay Dillon Livia S. Zaramela Livia S. Zaramela Luke R. Thompson Luke R. Thompson Lynn M. Schriml Lynn M. Schriml Maria G. Dominguez-Bello Maria G. Dominguez-Bello Marta M. Jankowska Marta M. Jankowska Martin Blaser Martin Blaser Matthew A. Jackson Matthew A. Jackson Meg Pirrung Meg Pirrung Michael Minson Michael Minson Mike Kurisu Mike Kurisu Nadim Ajami Nadim Ajami Naseer Sangwan Naseer Sangwan Neil R. Gottel Neil R. Gottel Nicholas Chia Nicholas Chia Noah Fierer Noah Fierer Owen White Owen White Patrice D. Cani Patrice D. Cani Paul Wischmeyer Paul Wischmeyer Pawel Gajer Pawel Gajer Philip Strandwitz Philip Strandwitz Phillip Hugenholtz Phillip Hugenholtz Pieter C Dorrestein Pieter C Dorrestein Purna Kashyap Purna Kashyap Rachel Dutton Rachel Dutton Rachel S. Park Rachel S. Park Ramnik J. Xavier Ramnik J. Xavier Rob Knight Rob Knight Robert R. Dunn Robert R. Dunn Robert H. Mills Robert H. Mills Rosa Krajmalnik-Brown Rosa Krajmalnik-Brown Ruth Ley Ruth Ley Sarah M. Owens Sarah M. Owens Scott T. Kelley Scott T. Kelley Scott Klemmer Scott Klemmer Sébastien Matamoros Sébastien Matamoros Shyamal Peddada Shyamal Peddada Siavash Mirarab Siavash Mirarab Stefan Janssen Stefan Janssen Stephanie Moorman Stephanie Moorman Susan Holmes Susan Holmes Tara Schwartz Tara Schwartz Tifani W. Eshoo-Anton Tifani W. Eshoo-Anton Tim Vigers Tim Vigers Timothy Spector Timothy Spector Tomasz Kosciolek Tomasz Kosciolek Varykina G. Thackray Varykina G. Thackray Vineet Pandey Vineet Pandey Will Van Treuren Will Van Treuren Xin Fang Xin Fang Yingfeng Chen Yingfeng Chen Yoshiki Vázquez-Baeza Yoshiki Vázquez-Baeza Zhenjiang Zech Xu Zhenjiang Zech Xu Alexander A. Aksenov Alexander A. Aksenov Alexey V. Melnik Alexey V. Melnik Alan Jarmusch Alan Jarmusch Justin Geier Justin Geier Pavel Pevzner Pavel Pevzner Dmitry Meleshko Dmitry Meleshko Bahar Behsaz Bahar Behsaz Nicolai Reeve Nicolai Reeve Ricardo Silva Ricardo Silva Qiyun Zhu Qiyun Zhu Evguenia Kopylova Evguenia Kopylova Clarisse Marotz Clarisse Marotz Larry Smarr Larry Smarr Tanya Nguyen Tanya Nguyen Hosein Mohimani Hosein Mohimani Lingjing Jiang Lingjing Jiang Austin Swafford Austin Swafford Dominic Nguyen Dominic Nguyen Se Jin Song Se Jin Song Karenina Sanders Karenina Sanders Rodolfo Antonio Salido Benitez Rodolfo Antonio Salido Benitez Arthur Cole Heale Arthur Cole Heale Dilip V. Jeste Dilip V. Jeste Tanya T. Nguyen Tanya T. Nguyen Brennan, Caitriona Caitriona Brennan Max Abramson Max Abramson movie_s2.mp4 figshare 2018 American Gut Project Microbial Ecology 2018-02-28 23:33:36 Media https://figshare.com/articles/media/movie_s2_mp4/5936482 Placing 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.