DOE OSTI · 3010616
STREAMS guidelines: standards for technical reporting in environmental and host-associated microbiome studies
Abstract
The interdisciplinary nature of microbiome research, coupled with the generation of complex multi-omics data, makes knowledge sharing challenging. The Strengthening the Organization and Reporting of Microbiome Studies (STORMS) guidelines provide a checklist for the reporting of study information, experimental design and analytical methods within a scientific manuscript on human microbiome research. Here, in this Consensus Statement, we present the standards for technical reporting in environmental and host-associated microbiome studies (STREAMS) guidelines. The guidelines expand on STORMS and include 67 items to support the reporting and review of environmental (for example, terrestrial, aquatic, atmospheric and engineered), synthetic and non-human host-associated microbiome studies in a standardized and machine-actionable manner. Based on input from 248 researchers spanning 28 countries, we provide detailed guidance, including comparisons with STORMS, and case studies that demonstrate the usage of the STREAMS guidelines. In conclusion, STREAMS, like STORMS, will be a living community resource updated by the Consortium with consensus-building input of the broader community.
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Kelliher, Julia M. [New Mexico Consortium, Los Alamos, NM (United States); Michigan State Univ., East Lansing, MI (United States); Los Alamos National Laboratory (LANL), Los Alamos, NM (United States); STREAMS Consortium. et al.] (ORCID:0000000341009119), Mirzayi, Chloe, Bordenstein, Sarah R. (ORCID:0000000160921950), Oliver, Aaron, Kellogg, Christina A. (ORCID:0000000264929455), Hatcher, Eneida L., Berg, Maureen, Baldrian, Petr (ORCID:0000000289832721), Aljumaah, Mashael, Miller, Cassandra Maria Luz, Mungall, Christopher, Novak, Vlastimil (ORCID:0000000178904593), Palucki, Alexis (ORCID:0009000864090478), Smith, Ethan, Tabassum, Nazifa, Bonito, Gregory (ORCID:0000000272628978), Brister, J. Rodney, Chain, Patrick S. G. (ORCID:0000000339493634), Chen, Mingfei, Degregori, Samuel, Dundore-Arias, Jose Pablo, Emerson, Joanne B. (ORCID:0000000199835566), Moreira C. Fernandes, Vanessa, Flores, Roberto, Gonzalez, Antonio, Hansen, Zoe A., Jackson, Scott A., Moustafa, Ahmed M. (ORCID:0000000299496936), Northen, Trent R. (ORCID:0000000184043259), Pariente, Nonia (ORCID:0000000236665683), Pett-Ridge, Jennifer (ORCID:0000000244392398), Record, Sydne (ORCID:0000000172932155), Reji, Linta, Reysenbach, Anna-Louise (ORCID:0000000191307750), Rich, Virginia I. (ORCID:000000030558102X), Richardson, Lorna, Roux, Simon (ORCID:0000000258315895), Schriml, Lynn M. (ORCID:0000000189109851), Shabman, Reed S., Sierra, Maria A. (ORCID:000000034115034X), Sullivan, Matthew B. (ORCID:0000000183988234), Sundaramurthy, Punithavathi (ORCID:0000000220362557), Thibault, Katherine M. (ORCID:0000000334776424), Thompson, Luke R. (ORCID:0000000239111280), Tighe, Scott, Vereen, Ethell, Robinson, Aaron, Sare, Abdoul R., Oladipupo, Abdulmalik A., Vigneron, Adrien, Shibl, Ahmed A., De Santiago, Alejandro, Probst, Alexander J., Navid, Ali, McHardy, Alice C., Clum, Alicia, Buchan, Alison, Murray, Alison, Lapidus, Alla, Araujo Serrao de Andrade, Amanda, Bremges, Andreas, Anand, Archana, Chauhan, Ashvini, Dutta, Avishek, Kumar, Bablu, Hausmann, Bela, Chassaing, Benoit, Tierney, Braden T., Hedlund, Brian P., Chalifour, Bridget, Hanson, Buck T., Wolz, Carly Muletz, Ettinger, Cassandra L., Pan, Chongle, Robinson, Chris, Quiroga, Christian Hodar, Moissl-Eichinger, Christine, Hunter, Christopher, Schadt, Christopher Warren (ORCID:0000000187592448), Ouzounis, Christos, Herbold, Craig W., Zuniga, Cristal, Cecilia, Cruz Mercedes, Huttenhower, Curtis, Taylor, D. Lee, McDonald, Daniel, Sprockett, Daniel D., Schachtman, Daniel P., Zhang, Dennis J., Metze, Dennis, Coleman-Derr, Devin, Merges, Dominik, Walker, Donald M., Parks, Donovan H., Jaiswal, Durgesh Kumar, Kiledal, E. Anders, Pasolli, Edoardo, Kuhn, Eduardo Vinicius, Wood-Charlson, Elisha, Barnhart, Elliott. 2025-12-01. STREAMS guidelines: standards for technical reporting in environmental and host-associated microbiome studies. https://doi.org/10.1038/s41564-025-02186-2
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