Microbiome data management in action workshop: Atlanta, GA, USA, June 12–13, 2024

Microbiome research is revolutionizing human and environmental health, but the value and reuse of microbiome data are significantly hampered by the limited development and adoption of data standards. While several ongoing efforts are aimed at improving microbiome data management, significant gaps still remain in terms of defining and promoting adoption of consensus standards for these datasets. The Strengthening the Organization and Reporting of Microbiome Studies (STORMS) guidelines for human microbiome research have been endorsed and successfully utilized by many research organizations, publishers, and funding agencies, and have been recognized as a consensus community standard. No equivalent effort has occurred for environmental, synthetic, and non-human host-associated microbiomes. To address this growing need within the microbiome research community, we convened the Microbiome Data Management in Action Workshop (June 12-13, 2024, in Atlanta, GA, USA), to bring together key decision makers in microbiome science including researchers, publishers, funders, and data repositories. The 50 attendees, representing the diverse and interdisciplinary nature of microbiome research, discussed recent progress and challenges, and brainstormed actionable recommendations and paths forward for coordinated environmental microbiome data management and the modifications necessary for the STORMS guidelines to be applied to environmental, non-human host, and synthetic microbiomes. The outcomes of this workshop will form the basis of a formalized data management roadmap to be implemented across the field. These best practices will drive scientific innovation now and in years to come as these data continue to be used not only in targeted reanalyses but in large-scale models and machine learning efforts.

Authors

Institutions

Publication Details

Journal
Environmental Microbiome
Published
2025-04-19
DOI
https://doi.org/10.1186/s40793-025-00702-9
Citations
4
Primary Topic
Research Data Management Practices
Type
article
Field-Weighted Citation Impact
12.98

Funders

Controls
|||
ALL TIME
JAN
FEB
MAR
APR
MAY
JUN
JUL
AUG
SEP
OCT
article

Microbiome data management in action workshop: Atlanta, GA, USA, June 12–13, 2024

Zoe A. Hansen, Virginia I. Rich, Jennifer Pett‐Ridge, Chris Mungall et al.
4 citations
Environmental Microbiome
Research Data Management Practices
12.98
article

Microbiome data management in action workshop: Atlanta, GA, USA, June 12–13, 2024

Zoe A. Hansen, Virginia I. Rich, Jennifer Pett‐Ridge, Chris Mungall, Patrick Chain, Matthew B. Sullivan, Ethell Vereen, Ramana Madupu, Luke Thompson, Julia M. Kelliher, Christina A. Kellogg, J. Rodney Brister, Reed S. Shabman, Scott Tighe, José Pablo Dundore-Arias, Katherine M. Thibault, Emiley A. Eloe‐Fadrosh, Linta Reji, Scott A. Jackson, Ahmed M. Moustafa, Sydne Record, Joanne Emerson, Vanessa Fernandes, Nonia Pariente, Sarah R. Bordenstein, Maria A. Sierra, Chloe Mirzayi, Eneida Hatcher, Aaron Oliver, Mashael R. Aljumaah, Lynn M. Schriml, Anna‐Louise Reysenbach, Antonio G. González, Roberto Flores, Christina A. Miller, Lorna Richardson, Punithavathi Sundaramurthy
article en
4 citations

Abstract

Microbiome research is revolutionizing human and environmental health, but the value and reuse of microbiome data are significantly hampered by the limited development and adoption of data standards. While several ongoing efforts are aimed at improving microbiome data management, significant gaps still remain in terms of defining and promoting adoption of consensus standards for these datasets. The Strengthening the Organization and Reporting of Microbiome Studies (STORMS) guidelines for human microbiome research have been endorsed and successfully utilized by many research organizations, publishers, and funding agencies, and have been recognized as a consensus community standard. No equivalent effort has occurred for environmental, synthetic, and non-human host-associated microbiomes. To address this growing need within the microbiome research community, we convened the Microbiome Data Management in Action Workshop (June 12-13, 2024, in Atlanta, GA, USA), to bring together key decision makers in microbiome science including researchers, publishers, funders, and data repositories. The 50 attendees, representing the diverse and interdisciplinary nature of microbiome research, discussed recent progress and challenges, and brainstormed actionable recommendations and paths forward for coordinated environmental microbiome data management and the modifications necessary for the STORMS guidelines to be applied to environmental, non-human host, and synthetic microbiomes. The outcomes of this workshop will form the basis of a formalized data management roadmap to be implemented across the field. These best practices will drive scientific innovation now and in years to come as these data continue to be used not only in targeted reanalyses but in large-scale models and machine learning efforts.

Environmental MicrobiomeVol. 20(1)
Public Library of Science (US), University of Vermont (US), University of North Carolina at Chapel Hill (US), The Graduate Center, CUNY (US), Portland State University (US), University of Maryland, Baltimore (US), Lawrence Livermore National Laboratory (US), United States Geological Survey (US), National Institutes of Health (US), University of Minnesota (US), European Bioinformatics Institute (GB), Pennsylvania State University (US), National Oceanic and Atmospheric Administration (US), National Institute of Standards and Technology (US), United States Department of Energy (US), Children's Hospital of Philadelphia (US), Los Alamos National Laboratory (US), California State University, Monterey Bay (US), Lawrence Berkeley National Laboratory (US), Scripps Institution of Oceanography (US), University of California, Merced (US), University of New Mexico (US), University of California, San Francisco (US), Cornell University (US), Office of Nuclear Energy (US), NOAA Atlantic Oceanographic and Meteorological Laboratories (US), Northern Gulf Institute (US), King Saud University (SA), National Ecological Observatory Network (US), University of California San Diego (US), University of Chicago (US), Tri-Institutional PhD Program in Chemical Biology (US), Innovative Genomics Institute (US), National Center for Biotechnology Information (US), New Mexico Consortium (US), National Institute of Allergy and Infectious Diseases (US), UCSF Benioff Children's Hospital (US), National Institute on Aging (US), Weill Cornell Medicine (US), St. Petersburg Coastal and Marine Science Center, The Ohio State University (US), Florida Atlantic University (US), University of Maine (US), University of Pennsylvania (US), University of California, Davis (US), Morehouse College (US), University of California, Berkeley (US), Mississippi State University (US)
National Science Foundation, U.S. Department of Energy, Battelle, National Institutes of Health, Directorate for Biological Sciences, U.S. National Library of Medicine, Lawrence Livermore National Laboratory
Openalex Percentile: Top 2%
Research Data Management Practices
12.98
DOIOpen Access PDFOpenAlex
AI Navigator

Ask Laika to Summarize, Analyze, and Connect papers live on the map.

Summarize Papers & Methodologies

Extract key findings, datasets, and comparative methods across publications.

Benchmark Rankings & Visual Analytics

Rank top research institutions, authors, funders, topics, and journals by Field-Weighted Citation Impact (FWCI) and paper volume with instant charts.

Connect Distant Disciplines

Bridge topological clusters on the map to find hidden collaborative intersections.