Microbiome Metadata Standards: Report of the National Microbiome Data Collaborative's Workshop and Follow-On Activities

Authors

• Pajau Vangay, Lawrence Berkeley National Laboratory
• Josephine Burgin, European Bioinformatics Institute
• Anjanette Johnston, National Institutes of Health
• Kristen L. Beck, IBM Almaden Research Center
• Daniel C. Berrios, NASA Ames Research Center
• Kai Blumberg, University of Arizona, Tucson
• Shane Canon, Lawrence Berkeley National Laboratory
• Patrick Chain, Los Alamos National Laboratory
• John-Marc Chandonia, Lawrence Berkeley National Laboratory
• Danielle Christianson, Lawrence Berkeley National Laboratory
• Sylvain V. Costes, NASA Ames Research Center
• Joan Damerow, Lawrence Berkeley National Laboratory
• William D. Duncan, Lawrence Berkeley National Laboratory
• Jose Pablo Dundore-Arias, California State University, Monterey Bay
• Kjiersten Fagnan, Lawrence Berkeley National Laboratory
• Jonathan M. Galazka, NASA Ames Research Center
• Sean M. Gibbons, Institute for Systems Biology
• David Hays, Lawrence Berkeley National Laboratory
• Judson Hervey, Naval Research Laboratory
• Bin Hu, Los Alamos National Laboratory
• Bonnie L. Hurwitz, University of Arizona, Tucson
• Pankaj Jaiswal, Oregon State University
• Marcin P. Joachimiak, Lawrence Berkeley National Laboratory
• Linda Kinkel, University of Minnesota, St. Paul
• Joshua Ladau, Lawrence Berkeley National Laboratory
• Stanton L. Martin, Oak Ridge National Laboratory
• Lee Ann McCue, Pacific Northwest National Laboratory
• Kayd Miller, Lawrence Berkeley National Laboratory
• Nigel Mouncey, Lawrence Berkeley National Laboratory
• Chris Mungall, Lawrence Berkeley National Laboratory
• Evangelos Pafilis, Hellenic Centre for Marine Research
• T B. Reddy, Lawrence Berkeley National Laboratory
• Lorna Richardson, European Bioinformatics Institute

Document Type

Article

Publication Date

2021

Publication Title

mSystems

Abstract

Microbiome samples are inherently defined by the environment in which they are found. Therefore, data that provide context and enable interpretation of measurements produced from biological samples, often referred to as metadata, are critical. Important contributions have been made in the development of community-driven metadata standards; however, these standards have not been uniformly embraced by the microbiome research community. To understand how these standards are being adopted, or the barriers to adoption, across research domains, institutions, and funding agencies, the National Microbiome Data Collaborative (NMDC) hosted a workshop in October 2019. This report provides a summary of discussions that took place throughout the workshop, as well as outcomes of the working groups initiated at the workshop.

Comments

Published in mSystemsby the American Society for Microbiology. Available via doi: 10.1128/msystems.01194-20.

This is a work of the U.S. Government and is not subject to copyright protection in the United States. Foreign copyrights may apply.

Recommended Citation

Vangay, Pajau; Burgin, Josephine; Johnston, Anjanette; Beck, Kristen L.; Berrios, Daniel C.; Blumberg, Kai; Canon, Shane; Chain, Patrick; Chandonia, John-Marc; Christianson, Danielle; Costes, Sylvain V.; Damerow, Joan; Duncan, William D.; Dundore-Arias, Jose Pablo; Fagnan, Kjiersten; Galazka, Jonathan M.; Gibbons, Sean M.; Hays, David; Hervey, Judson; Hu, Bin; Hurwitz, Bonnie L.; Jaiswal, Pankaj; Joachimiak, Marcin P.; Kinkel, Linda; Ladau, Joshua; Martin, Stanton L.; McCue, Lee Ann; Miller, Kayd; Mouncey, Nigel; Mungall, Chris; Pafilis, Evangelos; Reddy, T B.; and Richardson, Lorna, "Microbiome Metadata Standards: Report of the National Microbiome Data Collaborative's Workshop and Follow-On Activities" (2021). Biology, Agriculture and Chemistry Faculty Publications and Presentations. 18.
https://digitalcommons.csumb.edu/biochem_fac/18