Evidence map›Paper›PMID 40670788›Full record

ArticleNature2025

Identification of medication-microbiome interactions that affect gut infection.

Aman Kumar, Ruizheng Sun, Bettina Habib, Tong Deng, Natasha A Bencivenga-Barry, Noah W Palm, Ivaylo I Ivanov, Robyn Tamblyn, Andrew L Goodman

Abstract read
In one paragraph

Article in Nature, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 14 papers.

0numbers the graph read from it
0cells of the map it votes in
14citing 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

14 citing papers in PubMed.

  1. Review
  2. Article
  3. Review
  4. Article
  5. Review
  6. Review
  7. SET-M33 peptide as a selectiveMicrobiology spectrum · 2026
    Article
  8. The gut as a central hub for multi-organ crosstalk in aging.Cellular and molecular life sciences : CMLS · 2026
    Review
  9. Review
  10. Review
  11. Article
  12. Review
  13. Article
  14. Article
4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

9 authors.

Aman KumarDepartment of Microbial Pathogenesis and Microbial Sciences Institute, Yale University School of Medicine, New Haven, CT, USA.ORCID 0000-0002-6962-7851
Ruizheng SunDepartment of Microbial Pathogenesis and Microbial Sciences Institute, Yale University School of Medicine, New Haven, CT, USA.ORCID 0000-0003-4826-5000
Bettina HabibClinical and Health Informatics Research Group, McGill University, Montreal, Quebec, Canada.
Tong DengDepartment of Immunobiology, Yale School of Medicine, New Haven, CT, USA.
Natasha A Bencivenga-BarryDepartment of Microbial Pathogenesis and Microbial Sciences Institute, Yale University School of Medicine, New Haven, CT, USA.
Noah W PalmDepartment of Immunobiology, Yale School of Medicine, New Haven, CT, USA.ORCID 0000-0001-7262-9455
Ivaylo I IvanovDepartment of Microbiology and Immunology, Vagelos College of Physicians and Surgeons, Columbia University, New York, NY, USA.ORCID 0000-0001-5337-3386
Robyn TamblynClinical and Health Informatics Research Group, McGill University, Montreal, Quebec, Canada.
Andrew L GoodmanDepartment of Microbial Pathogenesis and Microbial Sciences Institute, Yale University School of Medicine, New Haven, CT, USA. andrew.goodman@yale.edu.ORCID 0000-0001-7599-3471

Funding

Yale Liver CenterP30DK034989 · NIDDK · YALE UNIVERSITY · PI Chen Liu · 1986 to 2026
$31.1M
Role of intestinal commensal-induced Th17 cells and mucosal immunity in metabolic diseaseR01DK098378 · NIDDK · COLUMBIA UNIVERSITY HEALTH SCIENCES · PI Ivaylo Ivanov Ivanov · 2013 to 2026
$6.5M
Causes and consequences of interpersonal microbial variationR35GM118159 · NIGMS · YALE UNIVERSITY · PI Andrew L Goodman · 2016 to 2026
$5.6M
Diet transformation by the microbiome and its impact on bacterial infectionR01DK133798 · NIDDK · YALE UNIVERSITY · PI Jorge E Galan, Andrew L Goodman · 2022 to 2026
$4.1M
Maintenance of mucosal homeostasis by commensal Th17 cellsU01AI163069 · NIAID · COLUMBIA UNIVERSITY HEALTH SCIENCES · PI Ivaylo Ivanov Ivanov · 2021 to 2026
$2.8M
Impacts of non-antibiotic medications on microbiome-mediated protection against intestinal pathogensK99AI187630 · NIAID · YALE UNIVERSITY · PI Aman Kumar · 2025 to 2026
$252k
NIAID NIH HHS K99 AI187630NIAID NIH HHS U01 AI163069NIDDK NIH HHS P30 DK034989NIDDK NIH HHS R01 DK098378NIDDK NIH HHS R01 DK133798NIGMS NIH HHS R35 GM118159
6 · The paper itself

Abstract

Most people in the USA manage their health by taking at least one prescription drug, and drugs classified as non-antibiotics can adversely affect the gut microbiome and disrupt intestinal homeostasis

Indexed as

Gastrointestinal MicrobiomeSalmonella InfectionsAnimalsCohort StudiesDigoxinFemaleHost-Pathogen InteractionsHumansMaleMiceMice, Inbred C57BLSalmonella typhimuriumDigoxin

Identifiers

PMID40670788
PMCPMC13092348

What OpenQuestion holds

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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.