A three-country analysis of the gut microbiome indicates taxon associations with diet vary by taxon resolution and population

An analysis of fecal microbiome data from individuals in the United States, United Kingdom, and Mexico shows that associations with dietary components vary both by country and by level of resolution (i.e., genus and strain). Our work sheds light on why there may be conflicting reports regarding micr...

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Published in	mSystems Vol. 10; no. 7; p. e0054425
Main Authors	Khatib, Lora, Song, Se Jin, Dilmore, Amanda H., Sanders, Jon G., Brennan, Caitriona, Hernandez, Alejandra Rios, Myers, Tyler, Oles, Renee, Farmer, Sawyer, Cowart, Charles, Birmingham, Amanda, Diaz, Edgar A., Nizet, Oliver, Gilbert, Kat, Litwin, Nicole, Das, Promi, Nowinski, Brent, Bryant, Mackenzie, Tribelhorn, Caitlin, Sanders-Bodai, Karenina, Chaumont, Soline, Knol, Jan, Roeselers, Guus, Laiola, Manolo, Shetty, Sudarshan A., Veiga, Patrick, Tap, Julien, Derrien, Muriel, Koutnikova, Hana, Cotillard, Aurélie, Lay, Christophe, Tovar, Armando R., Torres, Nimbe, Arteaga, Liliana, González, Antonio, McDonald, Daniel, Bartko, Andrew, Knight, Rob
Format	Journal Article
Language	English
Published	United States American Society for Microbiology 22.07.2025
Subjects	Adult Antibiotics Body mass index Cardiovascular disease Diabetes Diet Energy intake Faecalibacterium Faecalibacterium - classification Faecalibacterium - genetics Faecalibacterium - isolation & purification Feces - microbiology Female Gastrointestinal Microbiome - genetics Genera Gut microbiota Human Microbiome Humans Inflammatory bowel disease Intestinal microflora Irritable bowel syndrome Male Meat Metagenome Metagenomics Metagenomics - methods Microbiomes Microbiota Middle Aged Observation Prevotella Prevotella - classification Prevotella - genetics Prevotella - isolation & purification Processed foods Proteins Taxonomy United Kingdom > UK United States > US Mexico Prevotella diet human microbiome metagenomics Faecalibacterium
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ISSN	2379-5077 2379-5077
DOI	10.1128/msystems.00544-25

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Summary:	An analysis of fecal microbiome data from individuals in the United States, United Kingdom, and Mexico shows that associations with dietary components vary both by country and by level of resolution (i.e., genus and strain). Our work sheds light on why there may be conflicting reports regarding microbial associations with diet, disease, and health.
Bibliography:	ObjectType-Article-1 SourceType-Scholarly Journals-1 ObjectType-Feature-2 content type line 14 content type line 23 R.K. is a scientific advisory board member and consultant for BiomeSense, Inc., has equity, and receives income. He is a scientific advisory board member and has equity in GenCirq. He is a consultant and scientific advisory board member for DayTwo and receives income. He has equity in and acts as a consultant for Cybele. He is a co‐founder of Biota, Inc., and has equity. He is a co-founder of Micronoma, has equity, and is a scientific advisory board member. The terms of this arrangement have been reviewed and approved by the University of California, San Diego, in accordance with its conflict-of-interest policies. A.B. is a founder of Guilden Corporation and is an equity owner. The terms of these arrangements have been reviewed and approved by the University of California, San Diego, in accordance with its conflict-of-interest policies. D.M. is a consultant for BiomeSense, Inc., has equity, and receives income. The terms of these arrangements have been reviewed and approved by the University of California, San Diego in accordance with its conflict-of-interest policies. C.L., A.C., H.K., M.D., J.T., P.V., S.A.S., M.L., G.R., J.K., and S.C. are employees of Danone.
ISSN:	2379-5077 2379-5077
DOI:	10.1128/msystems.00544-25