Evidence map›Paper›PMID 41895287›Full record

ArticleCell reports. Medicine2026

Multi-omics reveal vitamin D regulation of immune-gut microbiome interactions and tolerogenic pathways in inflammatory bowel disease.

John Gubatan, Raoul S Sojwal, Jiayu Ye, Theresa L Boye, Jacqueline N Hoang, Touran Fardeen, Michelle Temby, Samuel J S Rubin, Sean P Spencer, Prasanti Kotagiri and 6 more

Registry-linked trialAbstract readClinical Trial, Phase I
PubMed Full text at PMC Publisher
In one paragraph

Article in Cell reports. Medicine, 2026. The graph could read no effect estimate from its abstract, so it casts no vote on the map. It is linked to trial NCT04828031 (Vitamin D Regulation of α4β7+ B Cell Immunophenotypes and Mucosal Antibody Response to Commensal Gut Bacteria in Patients With Inflammatory Bowel Disease), which is not on this map. Cited by 3 papers.

0numbers the graph read from it
0cells of the map it votes in
3citing 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.

NCT04828031 phase1completednot on this map

Vitamin D Regulation of α4β7+ B Cell Immunophenotypes and Mucosal Antibody Response to Commensal Gut Bacteria in Patients With Inflammatory Bowel Disease

TypeinterventionalSponsorStanford UniversityRan2021 to 2023Enrolled48ConditionsInflammatory Bowel Diseases, Ulcerative Colitis, Crohn DiseaseArmsVitamin D
3 · Its place in the literature

Who cites it

3 citing papers in PubMed.

  1. Article
  2. The bile acid-gut microbiota-vitamin D axis: new insights into biliary atresia.Frontiers in cellular and infection microbiology · 2026
    Review
  3. Review
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

16 authors.

John GubatanDivision of Gastroenterology and Hepatology, Mayo Clinic, Jacksonville, FL 32224, USA; Division of Gastroenterology and Hepatology, Stanford University School of Medicine, Stanford, CA 94305, USA. Electronic address: gubatan.johnmark@mayo.edu.
Raoul S SojwalDivision of Gastroenterology and Hepatology, Stanford University School of Medicine, Stanford, CA 94305, USA.
Jiayu YeDivision of Gastroenterology and Hepatology, Stanford University School of Medicine, Stanford, CA 94305, USA.
Theresa L BoyeDepartment of Gastroenterology, Medical Section, Herlev Hospital, University of Copenhagen, 2730 Herlev, Denmark.
Jacqueline N HoangDivision of Gastroenterology and Hepatology, Stanford University School of Medicine, Stanford, CA 94305, USA.
Touran FardeenDivision of Gastroenterology and Hepatology, Stanford University School of Medicine, Stanford, CA 94305, USA.
Michelle TembyDivision of Gastroenterology and Hepatology, Stanford University School of Medicine, Stanford, CA 94305, USA.
Samuel J S RubinDivision of Gastroenterology and Hepatology, Stanford University School of Medicine, Stanford, CA 94305, USA.
Sean P SpencerDivision of Gastroenterology and Hepatology, Stanford University School of Medicine, Stanford, CA 94305, USA.
Prasanti KotagiriDepartment of Pathology, Stanford University, Stanford, CA 94304, USA; Department of Immunology and Pathology, Monash University, Melbourne 3004, VIC, Australia; Sean N. Parker Center for Allergy & Asthma Research, Stanford University, Stanford, CA 94304, USA.
Stephan RogallaDivision of Gastroenterology and Hepatology, Stanford University School of Medicine, Stanford, CA 94305, USA.
Michael J RosenDivision of Pediatric Gastroenterology, Hepatology, and Nutrition, Stanford University School of Medicine, Stanford, CA 94304, USA.
Ole Haagen NielsenDepartment of Gastroenterology, Medical Section, Herlev Hospital, University of Copenhagen, 2730 Herlev, Denmark.
Scott BoydDepartment of Pathology, Stanford University, Stanford, CA 94304, USA; Sean N. Parker Center for Allergy & Asthma Research, Stanford University, Stanford, CA 94304, USA.
Justin SonnenburgMicrobiology & Immunology, Stanford School of Medicine, Stanford, CA 94305, USA; Center for Human Microbiome Studies, Stanford University, Stanford, CA 94305, USA.
Sidhartha R SinhaDivision of Gastroenterology and Hepatology, Stanford University School of Medicine, Stanford, CA 94305, USA.

Funding

NIDDK NIH HHS L30 DK126220
6 · The paper itself

Abstract

Loss of immune tolerance to the gut microbiome plays a pathogenic role in inflammatory bowel disease (IBD). How dietary factors alter host immune-gut microbiome interactions in IBD is unclear. Here, we apply multi-omics (immunoglobulin A or G and 16S rRNA sequencing [IgA-seq, IgG-seq], blood single-cell RNA sequencing [scRNA-seq], and immune repertoire sequencing) to investigate the effects of 12 weeks of vitamin D on host immune microbe interactions in patients with IBD. Vitamin D treatment associates with decreased disease activity and inflammatory markers and increased IgA-bound and decreased IgG-bound gut microbiota. Vitamin D alters the profiles of IgA-bound (increased Lachnospiraceae, Blautia) and IgG-bound (decreased Proteobacteria, Enterococcaceae) gut bacteria. Vitamin D increases B cell activating factor (BAFF) signaling between plasmacytoid dendritic cells and B cells, alters BCR and TCR clonotypes that associate with Ig-bound gut microbiota, and increases α4β7+ B and T regulatory cells. Our results demonstrate that vitamin D promotes immune tolerance to gut microbiota in patients with IBD. Clinical trial is registered under NCT04828031.

Indexed as

Gastrointestinal MicrobiomeImmune ToleranceInflammatory Bowel DiseasesVitamin DAdultB-LymphocytesFemaleHumansImmunoglobulin AMaleMultiomicsRNA, Ribosomal, 16SImmunoglobulin ARNA, Ribosomal, 16SVitamin Dgut microbiomeimmune repertoireimmune toleranceinflammatory bowel diseasevitamin D

Identifiers

PMID41895287
PMCPMC13130636

What Socratic holds

Textmetadata
LicenceCC BY
Read underepoch 390

Registered trials

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.