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 and Chemistry Faculty Publications and Presentations. 18.
https://digitalcommons.csumb.edu/biochem_fac/18