Evidence map›Paper›PMID 41888596›Full record

ArticleNature metabolism2026

Atlas of one-carbon metabolism in conventional and germ-free mice reveals folate as a key determinant of biochemical pathways.

Jonathan Williams, Woo Sung Kim, Rebecca Danner, Juyeong Cho, Bianca F Silva, David A Harris, Federico E Rey, Snehal N Chaudhari

Abstract read
In one paragraph

Article in Nature metabolism, 2026. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

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

0 citing papers in PubMed.

No citing paper in PubMed yet.

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

8 authors.

Jonathan WilliamsDepartment of Biochemistry, University of Wisconsin-Madison, Madison, WI, USA.
Woo Sung KimDepartment of Biochemistry, University of Wisconsin-Madison, Madison, WI, USA.
Rebecca DannerDepartment of Biochemistry, University of Wisconsin-Madison, Madison, WI, USA.
Juyeong ChoDepartment of Biochemistry, University of Wisconsin-Madison, Madison, WI, USA.
Bianca F SilvaAgilent Technologies, Lexington, MA, USA.
David A HarrisWisconsin Surgical Laboratory in Metabolism, Department of Surgery, University of Wisconsin-Madison, Madison, WI, USA.ORCID http://orcid.org/0000-0001-5588-1632
Federico E ReyDepartment of Bacteriology, University of Wisconsin-Madison, Madison, WI, USA.ORCID http://orcid.org/0000-0002-0239-7780
Snehal N ChaudhariDepartment of Biochemistry, University of Wisconsin-Madison, Madison, WI, USA. snchaudhari@wisc.edu.ORCID http://orcid.org/0000-0003-4389-3366

Funding

Elucidating the role of the microbiome in inducing gut permeability and inflammationR00DK128503 · NIDDK · UNIVERSITY OF WISCONSIN-MADISON · PI Snehal N. Chaudhari · 2024 to 2026
$727k
Elucidating the role of the microbiome in inducing gut permeability and inflammationK99DK128503 · NIDDK · HARVARD MEDICAL SCHOOL · PI CHAUDHARI, SNEHAL N. · 2022 to 2023
$182k
NIDDK NIH HHS K99 DK128503NIDDK NIH HHS R00 DK128503U.S. Department of Health & Human Services | NIH | National Institute of Diabetes and Digestive and Kidney Diseases (National Institute of Diabetes & Digestive & Kidney Diseases) DK128503U.S. Department of Health & Human Services | NIH | National Institute of General Medical Sciences (NIGMS) GM135066U.S. Department of Health & Human Services | NIH | National Institute of General Medical Sciences (NIGMS) GM152341
6 · The paper itself

Abstract

Folates participate in the one-carbon metabolism (OCM) cycle, supporting many biochemical pathways. Existing methods to profile folate are limited in the diversity of vitamers they measure and the samples they profile. Here we present a metabolomics workflow for stable extraction, separation and measurement of folates, along with precursors and products of OCM-associated pathways. We profile these metabolites in 37 mouse tissues to chart an interactive 'OCM atlas' ( https://chaudharilab.com/folate-atlas/ ), revealing vast heterogeneity across organs and an uncharacterized folate derivative. We discover that, in adult mice, the gut microbiota is a consumer of folate and folate polyglutamylation in the host is not regulated by folate availability. Germ-free mice show tissue-specific shifts in methyl donor abundances relative to conventionally raised mice, indicative of altered DNA methylation. Correlation analyses uncover the central roles of folates in potentially modulating other biochemical pathways in tissues, thus linking microbial folate consumption directly to its global impacts on host metabolism.

Indexed as

CarbonFolic AcidGerm-Free LifeMetabolic Networks and PathwaysAnimalsDNA MethylationGastrointestinal MicrobiomeMetabolomicsMiceCarbonFolic Acid

Identifiers

PMID41888596
PMCPMC13121008

What Socratic holds

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LicenceCC BY-NC-ND
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 Socratic graph.