Ming Li, Jiyun Cui, Ru Qu, Rulong Liu, Yifan Sun, Ping Li, Juan Liu, Adrian Low, Xiaochang Huang, Fei Gan, Zhenjiang Zech Xu
(2026).
Porphyromonas Gingivalis Induces Intestinal Inflammation through Gingipain-Dependent Gut Microbiome Dysbiosis.
Microbiome.
Matthew Aton, Daniel McDonald, Jorge Cañardo Alastuey, Raeed Azom, Paarth Batra, Valentyn Bezshapkin, Evan Bolyen, Alexander Cagle, J. Gregory Caporaso, Justine W. Debelius, Kestrel Gorlick, Nirmitha Hamsanipally, Lars Hunger, Aryan Keluskar, Disen Liao, Yang Young Lu, Jose A. Navas-Molina, Anders Pitman, Jai Ram Rideout, Anton Sazonov, Bharath Sathappan, Karen Schwarzberg Lipson, Igor Sfiligoi, Chris Tapo, Yoshiki Vázquez-Baeza, Zijun Wu, Zhenjiang Zech Xu, Mingsong Sam Ye, Jianshu Zhao, Rob Knight, James T. Morton, Qiyun Zhu
(2026).
Scikit-Bio: A Fundamental Python Library for Biological Omic Data Analysis.
Nature Methods.
Yong Huang, Jing Hu, Huan Xu, Runhao Zhu, Liting Liu, Xiaomei Chen, Yifan Sun, Yuwei Zhao, Yebing Zhong, Bo Cheng, Xiaochang Huang, Huiqiang Lu, Zhenjiang Zech Xu
(2026).
Propylparaben Induces Immunotoxicity in Zebrafish via Oxidative Stress and Gut Microbiota-Immune Axis Dysregulation.
Fish & Shellfish Immunology.
Yuesong Jiang, Jiang Liu, Yufeng Zhang, Lisha Zhou, Enoch Kao, Shuwen Hou, Qianya Niu, Yongxin Liu, Zhenjiang Zech Xu, Tao Ding, Yu-Xiong Su, Yu Liu, Gao Zhang, Xiuping Wang, Fei Teng, Shi Huang
(2025).
High-Resolution Microbiome Analysis of Host-Rich Samples Using 2bRAD-M without Host Depletion.
npj Biofilms and Microbiomes.
Feng Liu, Biao Dong, Zhongsun Wang, Dan Lin, Huan Xu, Baisheng Ke, Wanying Kang, Yang Jin, Xiuting Huang, Hui Lu, Liqing Zhao, Yun Qian, Liangling Cai, Long Xu, Zhenjiang Zech Xu
(2025).
Survival and Safety Evaluation of Bifidobacterium Longum Subsp. Longum ZS-8 in Healthy Adults, Determined Using PMAxx-qPCR and Amplicon Sequencing.
Microbiology Spectrum.
Stephany Flores Ramos, Nicole Siguenza, Wuling Zhong, Ipsita Mohanty, Amulya Lingaraju, R. Alexander Richter, Smruthi Karthikeyan, April L. Lukowski, Qiyun Zhu, Wilhan D. G. Nunes, Jasmine Zemlin, Zhenjiang Zech Xu, Jeff Hasty, Pieter C. Dorrestein, Satchidananda Panda, Rob Knight, Amir Zarrinpar
(2025).
Metatranscriptomics Uncovers Diurnal Functional Shifts in Bacterial Transgenes with Profound Metabolic Effects.
Cell Host & Microbe.
Zachary M. Burcham, Aeriel D. Belk, Bridget B. McGivern, Amina Bouslimani, Parsa Ghadermazi, Cameron Martino, Liat Shenhav, Anru R. Zhang, Pixu Shi, Alexandra Emmons, Heather L. Deel, Zhenjiang Zech Xu, Victoria Nieciecki, Qiyun Zhu, Michael Shaffer, Morgan Panitchpakdi, Kelly C. Weldon, Kalen Cantrell, Asa Ben-Hur, Sasha C. Reed, Greg C. Humphry, Gail Ackermann, Daniel McDonald, Siu Hung Joshua Chan, Melissa Connor, Derek Boyd, Jake Smith, Jenna M. S. Watson, Giovanna Vidoli, Dawnie Steadman, Aaron M. Lynne, Sibyl Bucheli, Pieter C. Dorrestein, Kelly C. Wrighton, David O. Carter, Rob Knight, Jessica L. Metcalf
(2024).
A Conserved Interdomain Microbial Network Underpins Cadaver Decomposition despite Environmental Variables.
Nature Microbiology.
Ting Fu, Tao Huan, Gibraan Rahman, Hui Zhi, Zhenjiang Zech Xu, Tae Gyu Oh, Jian Guo, Sally Coulter, Anupriya Tripathi, Cameron Martino, Justin L. McCarville, Qiyun Zhu, Fritz Cayabyab, Brian Low, Mingxiao He, Shipei Xing, Fernando Vargas, Ruth T. Yu, Annette Atkins, Christopher Liddle, Janelle Ayres, Manuela Raffatellu, Pieter C. Dorrestein, Michael Downes, Rob Knight, Ronald M. Evans
(2023).
Paired Microbiome and Metabolome Analyses Associate Bile Acid Changes with Colorectal Cancer Progression.
Cell Reports.
Lepeng Zhou, Wen Qiu, Jie Wang, Aihua Zhao, Chuhui Zhou, Tao Sun, Ziyu Xiong, Peihua Cao, Wei Shen, Jingfen Chen, Xiaolu Lai, Liu-Hong Zhao, Yue Wu, Meng Li, Feng Qiu, Yanhong Yu, Zhenjiang Zech Xu, Hongwei Zhou, Wei Jia, Yan Liao, Ravi Retnakaran, Daniel Krewski, Shi Wu Wen, Jose C. Clemente, Tianlu Chen, Ri-Hua Xie, Yan He
(2023).
Effects of Vaginal Microbiota Transfer on the Neurodevelopment and Microbiome of Cesarean-Born Infants: A Blinded Randomized Controlled Trial.
Cell Host & Microbe.
Feng Liu, Hui Lu, Biao Dong, Xiaochang Huang, Hongyu Cheng, Ru Qu, Yichen Hu, Luyun Zhong, Zhenni Guo, Yuehua You, Zhenjiang Zech Xu
(2023).
Systematic Evaluation of the Viable Microbiome in the Human Oral and Gut Samples with Spike-in Gram+/- Bacteria.
mSystems.
Zhiyuan Pan, Yichen Hu, Zongyu Huang, Ni Han, Yan Li, Xiaomei Zhuang, Jiye Yin, Hui Peng, Quansheng Gao, Wenpeng Zhang, Yong Huang, Yujun Cui, Yujing Bi, Zhenjiang Zech Xu, Ruifu Yang
(2022).
Alterations in Gut Microbiota and Metabolites Associated with Altitude-Induced Cardiac Hypertrophy in Rats during Hypobaric Hypoxia Challenge.
Science China Life Sciences.
Shanwen Chen, Yunfan Jin, Siqi Wang, Shaozhen Xing, Yingchao Wu, Yuhuan Tao, Yongchen Ma, Shuai Zuo, Xiaofan Liu, Yichen Hu, Hongyan Chen, Yuandeng Luo, Feng Xia, Chuanming Xie, Jianhua Yin, Xin Wang, Zhihua Liu, Ning Zhang, Zhenjiang Zech Xu, Zhi John Lu, Pengyuan Wang
(2022).
Cancer Type Classification Using Plasma Cell-Free RNAs Derived from Human and Microbes.
eLife.
Ya-Shuai Kong, Hong-Yu Ren, Rui Liu, Ricardo R. Da Silva, Alexander A. Aksenov, Alexey v. Melnik, Ming Zhao, Miao-Miao Le, Zhi-Wei Ren, Feng-Qing Xu, Xiao-Wei Yan, Li-Jun Yu, Yu Zhou, Zhong-Wen Xie, Da-Xiang Li, Xiao-Chun Wan, Yan-Hua Long, Zhenjiang Zech Xu, Tie-Jun Ling
(2022).
Microbial and Nonvolatile Chemical Diversities of Chinese Dark Teas Are Differed by Latitude and Pile Fermentation.
Journal of Agricultural and Food Chemistry.
Yichen Hu, Zhiyuan Pan, Zongyu Huang, Yan Li, Ni Han, Xiaomei Zhuang, Hui Peng, Quansheng Gao, Qing Wang, B. J. Yang Lee, Heping Zhang, Ruifu Yang, Yujing Bi, Zhenjiang Zech Xu
(2022).
Gut Microbiome-Targeted Modulations Regulate Metabolic Profiles and Alleviate Altitude-Related Cardiac Hypertrophy in Rats.
Microbiology Spectrum.
Zhenhua Wu, Shimeng Huang, Tiantian Li, Na Li, Dandan Han, Bing Zhang, Zhenjiang Zech Xu, Shiyi Zhang, Jiaman Pang, Shilan Wang, Guolong Zhang, Jiangchao Zhao, Junjun Wang
(2021).
Gut Microbiota from Green Tea Polyphenol-Dosed Mice Improves Intestinal Epithelial Homeostasis and Ameliorates Experimental Colitis.
Microbiome.
Robert L. Thomas, Lingjing Jiang, John S. Adams, Zhenjiang Zech Xu, Jian Shen, Stefan Janssen, Gail Ackermann, Dirk Vanderschueren, Steven Pauwels, Rob Knight, Eric S. Orwoll, Deborah M. Kado
(2020).
Vitamin D Metabolites and the Gut Microbiome in Older Men.
Nature Communications.
Mengchen Guo, Huixia Wang, Sixie Xu, Yaoyao Zhuang, Jingang An, Chuan Su, Yankai Xia, Jingyun Chen, Zhenjiang Zech Xu, Qisha Liu, Jianwei Wang, Zhou Dan, Kun Chen, Xiaoting Luan, Zhi Liu, Kangjian Liu, Faming Zhang, Yumin Xia, Xingyin Liu
(2020).
Alteration in Gut Microbiota Is Associated with Dysregulation of Cytokines and Glucocorticoid Therapy in Systemic Lupus Erythematosus.
Gut Microbes.
Xiaoquan Su, Gongchao Jing, Zheng Sun, Lu Liu, Zhenjiang Zech Xu, Daniel McDonald, Zengbin Wang, Honglei Wang, Antonio Gonzalez, Yufeng Zhang, Shi Huang, Gavin Huttley, Rob Knight, Jian Xu
(2020).
Multiple-Disease Detection and Classification across Cohorts via Microbiome Search.
mSystems.
Shi Huang, Niina Haiminen, Anna-Paola Carrieri, Rebecca Hu, Lingjing Jiang, Laxmi Parida, Baylee Russell, Celeste Allaband, Amir Zarrinpar, Yoshiki \V\\ 'A\zquez-Baeza\, Pedro Belda-Ferre, Hongwei Zhou, Ho-Cheol Kim, Austin D. Swafford, Rob Knight, Zhenjiang Zech Xu
(2020).
Human Skin, Oral, and Gut Microbiomes Predict Chronological Age.
mSystems.
Qiyun Zhu, Uyen Mai, Wayne Pfeiffer, Stefan Janssen, Francesco Asnicar, Jon G. Sanders, Pedro Belda-Ferre, Gabriel A. Al-Ghalith, Evguenia Kopylova, Daniel McDonald, Tomasz Kosciolek, John B. Yin, Shi Huang, Nimaichand Salam, Jian-Yu Jiao, Zijun Wu, Zhenjiang Zech Xu, Kalen Cantrell, Yimeng Yang, Erfan Sayyari, Maryam Rabiee, James T. Morton, Sheila Podell, Dan Knights, Wen-Jun Li, Curtis Huttenhower, Nicola Segata, Larry Smarr, Siavash Mirarab, Rob Knight
(2019).
Phylogenomics of 10,575 Genomes Reveals Evolutionary Proximity between Domains Bacteria and Archaea.
Nature Communications.
Jon G. Sanders, Sergey Nurk, Rodolfo A. Salido, Jeremiah Minich, Zhenjiang Zech Xu, Qiyun Zhu, Cameron Martino, Marcus Fedarko, Timothy D. Arthur, Feng Chen, Brigid S. Boland, Greg C. Humphrey, Caitriona Brennan, Karenina Sanders, James Gaffney, Kristen Jepsen, Mahdieh Khosroheidari, Cliff Green, Marlon Liyanage, Jason W. Dang, Vanessa v. Phelan, Robert A. Quinn, Anton Bankevich, John T. Chang, Tariq M. Rana, Douglas J. Conrad, William J. Sandborn, Larry Smarr, Pieter C. Dorrestein, Pavel A. Pevzner, Rob Knight
(2019).
Optimizing Sequencing Protocols for Leaderboard Metagenomics by Combining Long and Short Reads.
Genome Biology.
Evan Bolyen, Jai Ram Rideout, Matthew R. Dillon, Nicholas A. Bokulich, Christian C. Abnet, Gabriel A. Al-Ghalith, Harriet Alexander, Eric J. Alm, Manimozhiyan Arumugam, Francesco Asnicar, Yang Bai, Jordan E. Bisanz, Kyle Bittinger, Asker Brejnrod, Colin J. Brislawn, C. Titus Brown, Benjamin J. Callahan, Andr\\ 'E\s Mauricio \Caraballo-Rodr\\ 'I\guez\, John Chase, Emily K. Cope, Ricardo Da Silva, Christian Diener, Pieter C. Dorrestein, Gavin M. Douglas, Daniel M. Durall, Claire Duvallet, Christian F. Edwardson, Madeleine Ernst, Mehrbod Estaki, Jennifer Fouquier, Julia M. Gauglitz, Sean M. Gibbons, Deanna L. Gibson, Antonio Gonzalez, Kestrel Gorlick, Jiarong Guo, Benjamin Hillmann, Susan Holmes, Hannes Holste, Curtis Huttenhower, Gavin A. Huttley, Stefan Janssen, Alan K. Jarmusch, Lingjing Jiang, Benjamin D. Kaehler, Kyo Bin Kang, Christopher R. Keefe, Paul Keim, Scott T. Kelley, Dan Knights, Irina Koester, Tomasz Kosciolek, Jorden Kreps, Morgan G. I. Langille, Joslynn Lee, Ruth Ley, Yong-Xin Liu, Erikka Loftfield, Catherine Lozupone, Massoud Maher, Clarisse Marotz, Bryan D. Martin, Daniel McDonald, Lauren J. McIver, Alexey v. Melnik, Jessica L. Metcalf, Sydney C. Morgan, Jamie T. Morton, Ahmad Turan Naimey, Jose A. Navas-Molina, Louis Felix Nothias, Stephanie B. Orchanian, Talima Pearson, Samuel L. Peoples, Daniel Petras, Mary Lai Preuss, Elmar Pruesse, Lasse Buur Rasmussen, Adam Rivers, Michael S. Robeson, Patrick Rosenthal, Nicola Segata, Michael Shaffer, Arron Shiffer, Rashmi Sinha, Se Jin Song, John R. Spear, Austin D. Swafford, Luke R. Thompson, Pedro J. Torres, Pauline Trinh, Anupriya Tripathi, Peter J. Turnbaugh, Sabah Ul-Hasan, Justin J. J. Van Der Hooft, Fernando Vargas, Yoshiki \V\\ 'A\zquez-Baeza\, Emily Vogtmann, Max Von Hippel, William Walters, Yunhu Wan, Mingxun Wang, Jonathan Warren, Kyle C. Weber, Charles H. D. Williamson, Amy D. Willis, Zhenjiang Zech Xu, Jesse R. Zaneveld, Yilong Zhang, Qiyun Zhu, Rob Knight, J. Gregory Caporaso
(2019).
Reproducible, Interactive, Scalable and Extensible Microbiome Data Science Using QIIME 2.
Nature Biotechnology.
Anupriya Tripathi, Zhenjiang Zech Xu, Jin Xue, Orit Poulsen, Antonio Gonzalez, Gregory Humphrey, Michael J. Meehan, Alexey v. Melnik, Gail Ackermann, Dan Zhou, Atul Malhotra, Gabriel G. Haddad, Pieter C. Dorrestein, Rob Knight
(2019).
Intermittent Hypoxia and Hypercapnia Reproducibly Change the Gut Microbiome and Metabolome across Rodent Model Systems.
mSystems.
Cyrielle Caussy, Anupriya Tripathi, Greg Humphrey, Shirin Bassirian, Seema Singh, Claire Faulkner, Ricki Bettencourt, Emily Rizo, Lisa Richards, Zhenjiang Zech Xu, Michael R. Downes, Ronald M. Evans, David A. Brenner, Claude B. Sirlin, Rob Knight, Rohit Loomba
(2019).
A Gut Microbiome Signature for Cirrhosis Due to Nonalcoholic Fatty Liver Disease.
Nature Communications.
Zhenjiang Zech Xu, Amnon Amir, Jon Sanders, Qiyun Zhu, James T. Morton, Molly C. Bletz, Anupriya Tripathi, Shi Huang, Daniel McDonald, Lingjing Jiang, Rob Knight
(2019).
Calour: An Interactive, Microbe-Centric Analysis Tool.
mSystems.
Rob Knight, Alison Vrbanac, Bryn C. Taylor, Alexander Aksenov, Chris Callewaert, Justine Debelius, Antonio Gonzalez, Tomasz Kosciolek, Laura-Isobel McCall, Daniel McDonald, Alexey v. Melnik, James T. Morton, Jose Navas, Robert A. Quinn, Jon G. Sanders, Austin D. Swafford, Luke R. Thompson, Anupriya Tripathi, Zhenjiang Zech Xu, Jesse R. Zaneveld, Qiyun Zhu, J. Gregory Caporaso, Pieter C. Dorrestein
(2018).
Best Practices for Analysing Microbiomes.
Nature Reviews Microbiology.
Stefan Janssen, Daniel McDonald, Antonio Gonzalez, Jose A. Navas-Molina, Lingjing Jiang, Zhenjiang Zech Xu, Kevin Winker, Deborah M. Kado, Eric Orwoll, Mark Manary, Siavash Mirarab, Rob Knight
(2018).
Phylogenetic Placement of Exact Amplicon Sequences Improves Associations with Clinical Information.
mSystems.
Daniel McDonald, Embriette Hyde, Justine W. Debelius, James T. Morton, Antonio Gonzalez, Gail Ackermann, Alexander A. Aksenov, Bahar Behsaz, Caitriona Brennan, Yingfeng Chen, Lindsay DeRight Goldasich, Pieter C. Dorrestein, Robert R. Dunn, Ashkaan K. Fahimipour, James Gaffney, Jack A. Gilbert, Grant Gogul, Jessica L. Green, Philip Hugenholtz, Greg Humphrey, Curtis Huttenhower, Matthew A. Jackson, Stefan Janssen, Dilip v. Jeste, Lingjing Jiang, Scott T. Kelley, Dan Knights, Tomasz Kosciolek, Joshua Ladau, Jeff Leach, Clarisse Marotz, Dmitry Meleshko, Alexey v. Melnik, Jessica L. Metcalf, Hosein Mohimani, Emmanuel Montassier, Jose Navas-Molina, Tanya T. Nguyen, Shyamal Peddada, Pavel Pevzner, Katherine S. Pollard, Gholamali Rahnavard, Adam Robbins-Pianka, Naseer Sangwan, Joshua Shorenstein, Larry Smarr, Se Jin Song, Timothy Spector, Austin D. Swafford, Varykina G. Thackray, Luke R. Thompson, Anupriya Tripathi, Yoshiki Vázquez-Baeza, Alison Vrbanac, Paul Wischmeyer, Elaine Wolfe, Qiyun Zhu, The American Gut Consortium, Rob Knight
(2018).
American Gut: An Open Platform for Citizen Science Microbiome Research.
mSystems.
Jennifer M. Michaud, Luke R. Thompson, Drishti Kaul, Josh L. Espinoza, R. Alexander Richter, Zhenjiang Zech Xu, Christopher Lee, Kevin M. Pham, Charlotte M. Beall, Francesca Malfatti, Farooq Azam, Rob Knight, Michael D. Burkart, Christopher L. Dupont, Kimberly A. Prather
(2018).
Taxon-Specific Aerosolization of Bacteria and Viruses in an Experimental Ocean-Atmosphere Mesocosm.
Nature Communications.
Joshua B. Richardson, Blair C. R. Dancy, Cassandra L. Horton, Young S. Lee, Michael S. Madejczyk, Zhenjiang Zech Xu, Gail Ackermann, Gregory Humphrey, Gustavo Palacios, Rob Knight, John A. Lewis
(2018).
Exposure to Toxic Metals Triggers Unique Responses from the Rat Gut Microbiota.
Scientific Reports.
Youlian Zhou, Zhenjiang Zech Xu, Yan He, Yunsheng Yang, Le Liu, Qianyun Lin, Yuqiang Nie, Mingsong Li, Fachao Zhi, Side Liu, Amnon Amir, Antonio Gonz\\ 'A\lez, Anupriya Tripathi, Minhu Chen, Gary D. Wu, Rob Knight, Hongwei Zhou, Ye Chen
(2018).
Gut Microbiota Offers Universal Biomarkers across Ethnicity in Inflammatory Bowel Disease Diagnosis and Infliximab Response Prediction.
mSystems.
Luke R. Thompson, Jon G. Sanders, Daniel McDonald, Amnon Amir, Joshua Ladau, Kenneth J. Locey, Robert J. Prill, Anupriya Tripathi, Sean M. Gibbons, Gail Ackermann, Jose A. Navas-Molina, Stefan Janssen, Evguenia Kopylova, Yoshiki \V\\ 'A\zquez-Baeza\, Antonio Gonz\\ 'A\lez, James T. Morton, Siavash Mirarab, Zhenjiang Zech Xu, Lingjing Jiang, Mohamed F. Haroon, Jad Kanbar, Qiyun Zhu, Se Jin Song, Tomasz Kosciolek, Nicholas A. Bokulich, Joshua Lefler, Colin J. Brislawn, Gregory Humphrey, Sarah M. Owens, Jarrad Hampton-Marcell, Donna Berg-Lyons, Valerie McKenzie, Noah Fierer, Jed A. Fuhrman, Aaron Clauset, Rick L. Stevens, Ashley Shade, Katherine S. Pollard, Kelly D. Goodwin, Janet K. Jansson, Jack A. Gilbert, Rob Knight, The Earth Microbiome Project Consortium, Jose L. Agosto Rivera, Lisa Al-Moosawi, John Alverdy, Katherine R. Amato, Jason Andras, Largus T. Angenent, Dionysios A. Antonopoulos, Amy Apprill, David Armitage, Kate Ballantine, Jir\\ Textasciicaron\\\ 'I\ B\\ 'A\rta, Julia K. Baum, Allison Berry, Ashish Bhatnagar, Monica Bhatnagar, Jennifer F. Biddle, Lucie Bittner, Bazartseren Boldgiv, Eric Bottos, Donal M. Boyer, Josephine Braun, William Brazelton, Francis Q. Brearley, Alexandra H. Campbell, J. Gregory Caporaso, Cesar Cardona, JoLynn Carroll, S. Craig Cary, Brenda B. Casper, Trevor C. Charles, Haiyan Chu, Danielle C. Claar, Robert G. Clark, Jonathan B. Clayton, Jose C. Clemente, Alyssa Cochran, Maureen L. Coleman, Gavin Collins, Rita R. Colwell, M\\ 'O\nica Contreras, Benjamin B. Crary, Simon Creer, Daniel A. Cristol, Byron C. Crump, Duoying Cui, Sarah E. Daly, Liliana Davalos, Russell D. Dawson, Jennifer Defazio, Fr\\ 'E\d\\ 'E\ric Delsuc, Hebe M. Dionisi, Maria Gloria Dominguez-Bello, Robin Dowell, Eric A. Dubinsky, Peter O. Dunn, Danilo Ercolini, Robert E. Espinoza, Vanessa Ezenwa, Nathalie Fenner, Helen S. Findlay, Irma D. Fleming, Vincenzo Fogliano, Anna Forsman, Chris Freeman, Elliot S. Friedman, Giancarlo Galindo, Liza Garcia, Maria Alexandra Garcia-Amado, David Garshelis, Robin B. Gasser, Gunnar Gerdts, Molly K. Gibson, Isaac Gifford, Ryan T. Gill, Tugrul Giray, Antje Gittel, Peter Golyshin, Donglai Gong, Hans-Peter Grossart, Kristina Guyton, Sarah-Jane Haig, Vanessa Hale, Ross Stephen Hall, Steven J. Hallam, Kim M. Handley, Nur A. Hasan, Shane R. Haydon, Jonathan E. Hickman, Glida Hidalgo, Kirsten S. Hofmockel, Jeff Hooker, Stefan Hulth, Jenni Hultman, Embriette Hyde, Juan Diego \Ib\\ 'A\\ ̃N\ez-\\ 'A\lamo\, Julie D. Jastrow, Aaron R. Jex, L. Scott Johnson, Eric R. Johnston, Stephen Joseph, Stephanie D. Jurburg, Diogo Jurelevicius, Anders Karlsson, Roger Karlsson, Seth Kauppinen, Colleen T. E. Kellogg, Suzanne J. Kennedy, Lee J. Kerkhof, Gary M. King, George W. Kling, Anson v. Koehler, Monika Krezalek, Jordan Kueneman, Regina Lamendella, Emily M. Landon, Kelly Lane-DeGraaf, Julie LaRoche, Peter Larsen, Bonnie Laverock, Simon Lax, Miguel Lentino, Iris I. Levin, Pierre Liancourt, Wenju Liang, Alexandra M. Linz, David A. Lipson, Yongqin Liu, Manuel E. Lladser, Mariana Lozada, Catherine M. Spirito, Walter P. MacCormack, Aurora MacRae-Crerar, Magda Magris, Antonio M. \Mart\\ 'I\n-Platero\, Manuel \Mart\\ 'I\n-Vivaldi\, L. Margarita Mart\\ 'I\nez, Manuel \Mart\\ 'I\nez-Bueno\, Ezequiel M. Marzinelli, Olivia U. Mason, Gregory D. Mayer, Jamie M. McDevitt-Irwin, James E. McDonald, Krista L. McGuire, Katherine D. McMahon, Ryan McMinds, M\\ 'O\nica Medina, Joseph R. Mendelson, Jessica L. Metcalf, Folker Meyer, Fabian Michelangeli, Kim Miller, David A. Mills, Jeremiah Minich, Stefano Mocali, Lucas Moitinho-Silva, Anni Moore, Rachael M. Morgan-Kiss, Paul Munroe, David Myrold, Josh D. Neufeld, Yingying Ni, Graeme W. Nicol, Shaun Nielsen, Jozef I. Nissimov, Kefeng Niu, Matthew J. Nolan, Karen Noyce, Sarah L. O'Brien, Noriko Okamoto, Ludovic Orlando, Yadira Ortiz Castellano, Olayinka Osuolale, Wyatt Oswald, Jacob Parnell, Juan M. \Peralta-S\\ 'A\nchez\, Peter Petraitis, Catherine Pfister, Elizabeth Pilon-Smits, Paola Piombino, Stephen B. Pointing, F. Joseph Pollock, Caitlin Potter, Bharath Prithiviraj, Christopher Quince, Asha Rani, Ravi Ranjan, Subramanya Rao, Andrew P. Rees, Miles Richardson, Ulf Riebesell, Carol Robinson, Karl J. Rockne, Selena Marie Rodriguezl, Forest Rohwer, Wayne Roundstone, Rebecca J. Safran, Naseer Sangwan, Virginia Sanz, Matthew Schrenk, Mark D. Schrenzel, Nicole M. Scott, Rita L. Seger, Andaine Seguin-Orlando, Lucy Seldin, Lauren M. Seyler, Baddr Shakhsheer, Gabriela M. Sheets, Congcong Shen, Yu Shi, Hakdong Shin, Benjamin D. Shogan, Dave Shutler, Jeffrey Siegel, Steve Simmons, Sara Sj\\ "O\ling, Daniel P. Smith, Juan J. Soler, Martin Sperling, Peter D. Steinberg, Brent Stephens, Melita A. Stevens, Safiyh Taghavi, Vera Tai, Karen Tait, Chia L. Tan, Neslihan Tas\\ C\, D. Lee Taylor, Torsten Thomas, Ina Timling, Benjamin L. Turner, Tim Urich, Luke K. Ursell, Daniel Van Der Lelie, William Van Treuren, Lukas Van Zwieten, Daniela Vargas-Robles, Rebecca Vega Thurber, Paola Vitaglione, Donald A. Walker, William A. Walters, Shi Wang, Tao Wang, Tom Weaver, Nicole S. Webster, Beck Wehrle, Pamela Weisenhorn, Sophie Weiss, Jeffrey J. Werner, Kristin West, Andrew Whitehead, Susan R. Whitehead, Linda A. Whittingham, Eske Willerslev, Allison E. Williams, Stephen A. Wood, Douglas C. Woodhams, Yeqin Yang, Jesse Zaneveld, Iratxe Zarraonaindia, Qikun Zhang, Hongxia Zhao
(2017).
A Communal Catalogue Reveals Earth's Multiscale Microbial Diversity.
Nature.
Amnon Amir, Daniel McDonald, Jose A. Navas-Molina, Evguenia Kopylova, James T. Morton, Zhenjiang Zech Xu, Eric P. Kightley, Luke R. Thompson, Embriette R. Hyde, Antonio Gonzalez, Rob Knight
(2017).
Deblur Rapidly Resolves Single-Nucleotide Community Sequence Patterns.
mSystems.
Sophie Weiss, Zhenjiang Zech Xu, Shyamal Peddada, Amnon Amir, Kyle Bittinger, Antonio Gonzalez, Catherine Lozupone, Jesse R. Zaneveld, Yoshiki \V\\ 'A\zquez-Baeza\, Amanda Birmingham, Embriette R. Hyde, Rob Knight
(2017).
Normalization and Microbial Differential Abundance Strategies Depend upon Data Characteristics.
Microbiome.
Sophie Weiss, Will Van Treuren, Catherine Lozupone, Karoline Faust, Jonathan Friedman, Ye Deng, Li Charlie Xia, Zhenjiang Zech Xu, Luke Ursell, Eric J. Alm, Amanda Birmingham, Jacob A. Cram, Jed A. Fuhrman, Jeroen Raes, Fengzhu Sun, Jizhong Zhou, Rob Knight
(2016).
Correlation Detection Strategies in Microbial Data Sets Vary Widely in Sensitivity and Precision.
The ISME Journal.
Jessica L. Metcalf, Zhenjiang Zech Xu, Sophie Weiss, Simon Lax, Will Van Treuren, Embriette R. Hyde, Se Jin Song, Amnon Amir, Peter Larsen, Naseer Sangwan, Daniel Haarmann, Greg C. Humphrey, Gail Ackermann, Luke R. Thompson, Christian Lauber, Alexander Bibat, Catherine Nicholas, Matthew J. Gebert, Joseph F. Petrosino, Sasha C. Reed, Jack A. Gilbert, Aaron M. Lynne, Sibyl R. Bucheli, David O. Carter, Rob Knight
(2016).
Microbial Community Assembly and Metabolic Function during Mammalian Corpse Decomposition.
Science.
Alexandra J. Obregon-Tito, Raul Y. Tito, Jessica Metcalf, Krithivasan Sankaranarayanan, Jose C. Clemente, Luke K. Ursell, Zhenjiang Zech Xu, Will Van Treuren, Rob Knight, Patrick M. Gaffney, Paul Spicer, Paul Lawson, Luis Marin-Reyes, Omar Trujillo-Villarroel, Morris Foster, Emilio Guija-Poma, Luzmila Troncoso-Corzo, Christina Warinner, Andrew T. Ozga, Cecil M. Lewis
(2015).
Subsistence Strategies in Traditional Societies Distinguish Gut Microbiomes.
Nature Communications.
José A. Navas-Molina, Juan M. Peralta-Sánchez, Antonio González, Paul J. McMurdie, Yoshiki Vázquez-Baeza, Zhenjiang Zech Xu, Luke K. Ursell, Christian Lauber, Hongwei Zhou, Se Jin Song, James Huntley, Gail L. Ackermann, Donna Berg-Lyons, Susan Holmes, J. Gregory Caporaso, Rob Knight
(2013).
Advancing Our Understanding of the Human Microbiome Using QIIME.
Methods in Enzymology.