Evidence map›Paper›PMID 39894082›Full record

ArticleMucosal immunology2025

Microbial remodeling of gut tryptophan metabolism and indole-3-lactate production regulate epithelial barrier repair and viral suppression in human and simian immunodeficiency virus infections.

Clarissa Santos Rocha, Katie L Alexander, Carolina Herrera, Mariana G Weber, Irina Grishina, Lauren A Hirao, Dylan J Kramer, Juan Arredondo, Abigail Mende, Katti R Crakes and 9 more

Abstract read
In one paragraph

Article in Mucosal immunology, 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.

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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

19 authors.

Clarissa Santos RochaDepartment of Medical Microbiology & Immunology, University of California Davis, Davis, CA, 95616, United States.
Katie L AlexanderDepartment of Medicine, University of Alabama at Birmingham, Birmingham, AL, 35294, UK.
Carolina HerreraMacon & Joan Brock Virginia Health Sciences at Old Dominion University, Norfolk, VA 23507, United States.
Mariana G WeberDepartment of Medical Microbiology & Immunology, University of California Davis, Davis, CA, 95616, United States.
Irina GrishinaDepartment of Medical Microbiology & Immunology, University of California Davis, Davis, CA, 95616, United States.
Lauren A HiraoDepartment of Medical Microbiology & Immunology, University of California Davis, Davis, CA, 95616, United States.
Dylan J KramerDepartment of Medical Microbiology & Immunology, University of California Davis, Davis, CA, 95616, United States.
Juan ArredondoDepartment of Medical Microbiology & Immunology, University of California Davis, Davis, CA, 95616, United States.
Abigail MendeDepartment of Medical Microbiology & Immunology, University of California Davis, Davis, CA, 95616, United States.
Katti R CrakesDepartment of Medical Microbiology & Immunology, University of California Davis, Davis, CA, 95616, United States.
Anne N FentonDepartment of Medical Microbiology & Immunology, University of California Davis, Davis, CA, 95616, United States.
Maria L MarcoDepartment of Food Science and Technology, University of California Davis, Davis, CA, 95616, United States.
David A MillsDepartment of Food Science and Technology, University of California Davis, Davis, CA, 95616, United States.
John C KappesDepartment of Medicine, University of Alabama at Birmingham, Birmingham, AL, 35294, UK.
Lesley E SmythiesDepartment of Medicine, University of Alabama at Birmingham, Birmingham, AL, 35294, UK; Birmingham Veterans Affairs Medical Center, Research Service, Birmingham, AL 35233, UK.
Paul ZiprinDepartment of Surgery and Cancer, St. Mary's Hospital, Imperial College London, London, UK.
Sumathi Sankaran-WaltersDepartment of Medical Microbiology & Immunology, University of California Davis, Davis, CA, 95616, United States.
Phillip D SmithDepartment of Medicine, University of Alabama at Birmingham, Birmingham, AL, 35294, UK.
Satya DandekarDepartment of Medical Microbiology & Immunology, University of California Davis, Davis, CA, 95616, United States. Electronic address: sdandekar@ucdavis.edu.

Funding

Virus biology scientific research support componentUM1AI100645 · NIAID · DUKE UNIVERSITY · PI HAYNES, BARTON F. · 2012 to 2018
$204.7M
National Institute on Aging (NIA) ColonyP51OD011107 · OD · UNIVERSITY OF CALIFORNIA AT DAVIS · PI Simon J. Atkinson · 2012 to 2026
$191.5M
Virology CoreP30AI027767 · NIAID · UNIVERSITY OF ALABAMA AT BIRMINGHAM · PI Latesha Ellen Elopre · 1988 to 2026
$84.1M
IMMUNOLOGIC DISEASES AND BASIC IMMUNOLOGYT32AI007051 · NIAID · UNIVERSITY OF ALABAMA AT BIRMINGHAM · PI Laurie Ellen Harrington · 1985 to 2026
$13.1M
"Corral and Kill" strategy for HIV eradication using MSC in an SIV modelR37AI153025 · NIAID · UNIVERSITY OF CALIFORNIA AT DAVIS · PI Satya Dandekar · 2020 to 2026
$5.3M
Early HIV Effects on Gut Immunity and Inflammation for Seeding Viral ReservoirsR01AI123105 · NIAID · UNIVERSITY OF CALIFORNIA AT DAVIS · PI DANDEKAR, SATYA · 2016 to 2020
$3.8M
Animal Models of Infectious Diseases Training ProgramT32AI060555 · NIAID · UNIVERSITY OF CALIFORNIA DAVIS · PI MCSORLEY, STEPHEN J · 2004 to 2025
$3.3M
Role of Gastric Microbiota in Protecting Children from Precancerous Inflammation in H. pylori InfectionR21HD088954 · NICHD · UNIVERSITY OF ALABAMA AT BIRMINGHAM · PI SMITH, PHILLIP D · 2017 to 2018
$408k
NIAID NIH HHS P30 AI027767NIAID NIH HHS R01 AI123105NIAID NIH HHS R37 AI153025NIAID NIH HHS T32 AI007051NIAID NIH HHS T32 AI060555NIAID NIH HHS UM1 AI100645NICHD NIH HHS R21 HD088954NIH HHS P51 OD011107
6 · The paper itself

Abstract

Gut inflammatory diseases cause microbial dysbiosis. Human immunodeficiency virus-1 (HIV) infection disrupts intestinal integrity, subverts repair/renewal pathways, impairs mucosal immunity and propels microbial dysbiosis. However, microbial metabolic mechanisms driving repair mechanisms in virally inflamed gut are not well understood. We investigated the capability and mechanisms of gut microbes to restore epithelial barriers and mucosal immunity in virally inflamed gut by using a multipronged approach: an in vivo simian immunodeficiency virus (SIV)-infected nonhuman primate model of HIV/AIDS, ex vivo HIV-exposed human colorectal explants and primary human intestinal epithelial cells. SIV infection reprogrammed tryptophan (TRP) metabolism, increasing kynurenine catabolite levels that are associated with mucosal barrier disruption and immune suppression. Administration of Lactiplantibacillus plantarum or Bifidobacterium longum subsp. infantis into the SIV-inflamed gut lumen in vivo resulted in rapid reprogramming of microbial TRP metabolism towards indole-3-lactic acid (ILA) production. This shift accelerated epithelial repair and enhanced anti-viral defenses through induction of IL-22 signaling in mucosal T cells and aryl hydrocarbon receptor activation. Additionally, ILA treatment of human colorectal tissue explants ex vivo inhibited HIV replication by reducing mucosal inflammatory cytokine production and cell activation. Our findings underscore the therapeutic potential of microbial metabolic reprogramming of TRP-to-ILA and mechanisms in mitigating viral pathogenic effects and bolstering mucosal defenses for HIV eradication.

Indexed as

Gastrointestinal MicrobiomeHIV-1HIV InfectionsIndolesIntestinal MucosaSimian Acquired Immunodeficiency SyndromeSimian Immunodeficiency VirusTryptophanAnimalsCells, CulturedDisease Models, AnimalDysbiosisEpithelial CellsHumansImmunity, MucosalInterleukin-22IndolesInterleukin-22InterleukinsReceptors, Aryl HydrocarbonTryptophanBifidobacteriumEpithelial barrierHIVInflammationLactobacillusSIV

Identifiers

PMID39894082
PMCPMC13158123

What Socratic holds

Textmetadata
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.