Evidence map›Paper›PMID 40586597›Full record

ArticlemSystems2025

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

Lora Khatib, Se Jin Song, Amanda H Dilmore, Jon G Sanders, Caitriona Brennan, Alejandra Rios Hernandez, Tyler Myers, Renee Oles, Sawyer Farmer, Charles Cowart and 28 more

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in mSystems, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 5 papers.

0numbers the graph read from it
0cells of the map it votes in
5citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

5 citing papers in PubMed.

  1. Trial
  2. Comparative genomic analysis ofMicrobiology spectrum · 2026
    Article
  3. Article
  4. Recent advances in the positive role ofFrontiers in immunology · 2026
    Review
  5. Article
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

38 authors.

Lora KhatibDepartment of Pediatrics, University of California San Diego, La Jolla, California, USA.ORCID 0000-0002-6998-8278
Se Jin SongCenter for Microbiome Innovation, University of California San Diego, La Jolla, California, USA.
Amanda H DilmoreDepartment of Pediatrics, University of California San Diego, La Jolla, California, USA.
Jon G SandersCenter for Microbiome Innovation, University of California San Diego, La Jolla, California, USA.
Caitriona BrennanDepartment of Pediatrics, University of California San Diego, La Jolla, California, USA.ORCID 0000-0003-3943-6701
Alejandra Rios HernandezDepartment of Pediatrics, University of California San Diego, La Jolla, California, USA.
Tyler MyersCenter for Microbiome Innovation, University of California San Diego, La Jolla, California, USA.
Renee OlesDepartment of Pediatrics, University of California San Diego, La Jolla, California, USA.ORCID 0000-0001-5945-0215
Sawyer FarmerDepartment of Pediatrics, University of California San Diego, La Jolla, California, USA.
Charles CowartDepartment of Pediatrics, University of California San Diego, La Jolla, California, USA.
Amanda BirminghamDepartment of Pediatrics, University of California San Diego, La Jolla, California, USA.
Edgar A DiazDepartment of Pediatrics, University of California San Diego, La Jolla, California, USA.
Oliver NizetDepartment of Chemical and Biomolecular Engineering, Johns Hopkins University, Baltimore, Maryland, USA.
Kat GilbertDepartment of Pediatrics, University of California San Diego, La Jolla, California, USA.
Nicole LitwinCrohn's and Colitis Foundation, New York, New York, USA.
Promi DasDepartment of Pediatrics, University of California San Diego, La Jolla, California, USA.ORCID 0000-0001-6733-2059
Brent NowinskiCenter for Microbiome Innovation, University of California San Diego, La Jolla, California, USA.
Mackenzie BryantDepartment of Pediatrics, University of California San Diego, La Jolla, California, USA.
Caitlin TribelhornDepartment of Pediatrics, University of California San Diego, La Jolla, California, USA.
Karenina Sanders-BodaiDepartment of Pediatrics, University of California San Diego, La Jolla, California, USA.
Soline ChaumontDanone Research and Innovation, Gif sur Yvette, France.
Jan KnolDanone Research and Innovation, Utrecht, the Netherlands.
Guus RoeselersDanone Research and Innovation, Utrecht, the Netherlands.
Manolo LaiolaDanone Research and Innovation, Utrecht, the Netherlands.
Sudarshan A ShettyDanone Research and Innovation, Utrecht, the Netherlands.
Patrick VeigaDanone Research and Innovation, Gif sur Yvette, France.
Julien TapDanone Research and Innovation, Gif sur Yvette, France.
Muriel DerrienDanone Research and Innovation, Gif sur Yvette, France.
Hana KoutnikovaDanone Research and Innovation, Gif sur Yvette, France.
Aurélie CotillardDanone Research and Innovation, Gif sur Yvette, France.
Christophe LayPrecision Nutrition D-Lab, Danone Global Research and Innovation Center, Singapore, Singapore.
Armando R TovarInstituto Nacional de Ciencias Médicas y Nutrición Salvador Zubirán, Mexico City, México.
Nimbe TorresInstituto Nacional de Ciencias Médicas y Nutrición Salvador Zubirán, Mexico City, México.
Liliana ArteagaInstituto Nacional de Ciencias Médicas y Nutrición Salvador Zubirán, Mexico City, México.
Antonio GonzálezDepartment of Pediatrics, University of California San Diego, La Jolla, California, USA.
Daniel McDonaldDepartment of Pediatrics, University of California San Diego, La Jolla, California, USA.
Andrew BartkoDepartment of Pediatrics, University of California San Diego, La Jolla, California, USA.ORCID 0000-0002-1237-2747
Rob KnightDepartment of Pediatrics, University of California San Diego, La Jolla, California, USA.ORCID 0000-0002-0975-9019

Funding

Center for Microbiome InnovationDanone Nutricia ResearchMicrosetta Initative
6 · The paper itself

Abstract

Emerging research suggests that diet plays a vital role in shaping the composition and function of the gut microbiota. Although substantial efforts have been made to identify general patterns linking diet to the gut microbiome, much of this research has been concentrated on a small number of countries. Additionally, both diet and the gut microbiome have highly complex and individualized configurations, and there is growing evidence that tailoring diets to individual gut microbiota profiles may optimize the path toward improving or maintaining health and preventing disease. Using fecal metagenomic data from 1,177 individuals across three countries, we examine the relationship between diet and bacterial genera, focusing on IMPORTANCE: 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.

Indexed as

DietGastrointestinal MicrobiomeAdultFaecalibacteriumFecesFemaleHumansMaleMetagenomeMetagenomicsMiddle AgedPrevotelladietFaecalibacteriumhuman microbiomemetagenomicsPrevotella

Identifiers

PMID40586597
PMCPMC12282181

What OpenQuestion holds

Textmetadata
LicenceCC BY
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.