Evidence map›Paper›PMID 41339624›Full record

ArticleNature communications2025

Microbiome-derived bile acid signatures in early life and their association with islet autoimmunity.

Santosh Lamichhane, Alex M Dickens, Tanja Buchacher, Tianai Lou, Vincent Charron-Lamoureux, Roosa Kattelus, Pragya Karmacharya, Lucas Pinto da Silva, Matilda Kråkström, Omid Rasool and 19 more

Abstract read
In one paragraph

Article in Nature communications, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 6 papers.

0numbers the graph read from it
0cells of the map it votes in
6citing 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

6 citing papers in PubMed.

  1. Review
  2. Review
  3. Review
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  5. Review
  6. Review
4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

29 authors.

Santosh LamichhaneTurku Bioscience Centre, University of Turku and Åbo Akademi University, Turku, Finland. santosh.lamichhane@utu.fi.ORCID 0000-0002-9292-3595
Alex M DickensTurku Bioscience Centre, University of Turku and Åbo Akademi University, Turku, Finland.ORCID 0000-0002-3178-8449
Tanja BuchacherTurku Bioscience Centre, University of Turku and Åbo Akademi University, Turku, Finland.
Tianai LouMedical Research Council Laboratory of Medical Sciences (MRC LMS), Imperial College Hammersmith Campus, London, UK.ORCID 0009-0004-2794-368X
Vincent Charron-LamoureuxCollaborative Mass Spectrometry Innovation Center, Skaggs School of Pharmacy and Pharmaceutical Sciences, University of California San Diego, San Diego, CA, USA.ORCID 0000-0001-9440-7036
Roosa KattelusTurku Bioscience Centre, University of Turku and Åbo Akademi University, Turku, Finland.ORCID 0000-0002-5620-6978
Pragya KarmacharyaTurku Bioscience Centre, University of Turku and Åbo Akademi University, Turku, Finland.
Lucas Pinto da SilvaTurku Bioscience Centre, University of Turku and Åbo Akademi University, Turku, Finland.
Matilda KråkströmTurku Bioscience Centre, University of Turku and Åbo Akademi University, Turku, Finland.
Omid RasoolTurku Bioscience Centre, University of Turku and Åbo Akademi University, Turku, Finland.ORCID 0000-0002-1286-4725
Partho SenTurku Bioscience Centre, University of Turku and Åbo Akademi University, Turku, Finland.ORCID 0000-0003-0475-2763
Corinn WalkerDepartment of Pediatrics, University of California San Diego, La Jolla, CA, USA.
Abubaker PatanCollaborative Mass Spectrometry Innovation Center, Skaggs School of Pharmacy and Pharmaceutical Sciences, University of California San Diego, San Diego, CA, USA.
Emily C GentryCollaborative Mass Spectrometry Innovation Center, Skaggs School of Pharmacy and Pharmaceutical Sciences, University of California San Diego, San Diego, CA, USA.ORCID 0000-0002-0016-8132
Simone ZuffaCollaborative Mass Spectrometry Innovation Center, Skaggs School of Pharmacy and Pharmaceutical Sciences, University of California San Diego, San Diego, CA, USA.ORCID 0000-0001-7237-3402
Aron ArzoomandDepartment of women's and children's health, Karolinska Institutet, Stockholm, Sweden.
Tadepally LakshmikanthMedical Research Council Laboratory of Medical Sciences (MRC LMS), Imperial College Hammersmith Campus, London, UK.ORCID 0000-0001-7256-5770
Jaromir MikešDepartment of women's and children's health, Karolinska Institutet, Stockholm, Sweden.ORCID 0000-0002-9941-7855
Aman MebrahtuMedical Research Council Laboratory of Medical Sciences (MRC LMS), Imperial College Hammersmith Campus, London, UK.
Tommi VatanenResearch Program for Clinical and Molecular Metabolism, Faculty of Medicine, University of Helsinki, Helsinki, Finland.ORCID 0000-0003-0949-1291
Manuela RaffatelluDepartment of Pediatrics, University of California San Diego, La Jolla, CA, USA.ORCID 0000-0001-6487-4215
Karsten ZenglerDepartment of Pediatrics, University of California San Diego, La Jolla, CA, USA.
Tuulia HyötyläinenSchool of Science and Technology, Örebro University, Örebro, Sweden.ORCID 0000-0002-1389-8302
Ramnik J XavierThe Broad Institute of MIT and Harvard, Cambridge, MA, USA.ORCID 0000-0002-5630-5167
Petter BrodinMedical Research Council Laboratory of Medical Sciences (MRC LMS), Imperial College Hammersmith Campus, London, UK.ORCID 0000-0002-8103-0046
Riitta LahesmaaTurku Bioscience Centre, University of Turku and Åbo Akademi University, Turku, Finland.ORCID 0000-0002-4782-9567
Pieter C DorresteinCollaborative Mass Spectrometry Innovation Center, Skaggs School of Pharmacy and Pharmaceutical Sciences, University of California San Diego, San Diego, CA, USA.ORCID 0000-0002-3003-1030
Mikael KnipTurku Bioscience Centre, University of Turku and Åbo Akademi University, Turku, Finland. mikael.knip@helsinki.fi.ORCID 0000-0003-0474-0033
Matej OrešičTurku Bioscience Centre, University of Turku and Åbo Akademi University, Turku, Finland. Matej.Oresic@oru.se.ORCID 0000-0002-2856-9165

Funding

Pilot & Feasibility ProgramP30DK043351 · NIDDK · MASSACHUSETTS GENERAL HOSPITAL · PI RAYMOND T CHUNG · 1991 to 2026
$35.3M
The impact of ampicillin and breast milk oligosaccharides on the infant microbiome and immune functionsP50HD106463 · NICHD · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI Lars Bode, CHRISTINA CHAMBERS · 2021 to 2026
$19.6M
Identification and Characterization of Microbial Metabolites in ImmunityR01AI172147 · NIAID · BROAD INSTITUTE, INC. · PI Daniel Bartholomew Graham, Ramnik J Xavier · 2022 to 2026
$3.9M
Collaborative Microbial Metabolite CenterU24DK133658 · NIDDK · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI PIETER C DORRESTEIN · 2022 to 2026
$2.9M
Reverse Metabolomics for the Discovery of Disease Associated Microbial MoleculesR01DK136117 · NIDDK · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI PIETER C DORRESTEIN · 2023 to 2026
$2.9M
Academy of Finland Centre of Excellence in Molecular Systems Immunology and Physiology ResearchAcademy of Finland (Suomen Akatemia) 363417FormasHorizon Europe Program of the European UnionInFLAMES Flagship Programme of the Academy of FinlandJuvenile Diabetes Research FoundationNIAID NIH HHS R01 AI172147NICHD NIH HHS P50 HD106463NIDDK NIH HHS P30 DK043351NIDDK NIH HHS R01 DK136117NIDDK NIH HHS U24 DK133658Novo Nordisk FoundationResearch Council of FinlandSwedish Research CouncilT.H. and M.O.
6 · The paper itself

Abstract

Emerging studies reveal that gut microbes can conjugate diverse amino acids to bile acids, known as microbially conjugated bile acids. However, their regulation and health effects remain unclear. Here, we analyzed early-life microbially conjugated bile acid patterns and their link to islet autoimmunity. We quantified 110 microbial bile acids in 303 stool samples collected longitudinally (3-36 months) from children who developed one or more islet autoantibodies and controls who remained autoantibody-negative. We identified distinct age-dependent trajectories of these bile acid amidates and correlated them with gut microbiome composition. We found that altered levels of ursodeoxycholic and deoxycholic acid conjugates were linked to islet autoimmunity as well as modulated monocyte activation in response to immunostimulatory lipopolysaccharide and Th17/Treg cell balance. These findings suggest that microbially conjugated bile acids influence immune development and type 1 diabetes risk.

Indexed as

AutoimmunityBile Acids and SaltsDiabetes Mellitus, Type 1Gastrointestinal MicrobiomeIslets of LangerhansAutoantibodiesChild, PreschoolDeoxycholic AcidFecesFemaleHumansInfantLongitudinal StudiesMaleTh17 CellsT-Lymphocytes, RegulatoryAutoantibodiesBile Acids and SaltsDeoxycholic AcidUrsodeoxycholic Acid

Identifiers

PMID41339624
PMCPMC12764907

What Socratic 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 Socratic graph.