ArticleScience (New York, N.Y.)2019
Depletion of microbiome-derived molecules in the host using
Open access · greenAbstract read
In one paragraph
Article in Science (New York, N.Y.), 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 100 papers.
0numbers the graph read from it
0cells of the map it votes in
100citing papers in PubMed
10.1field-weighted citation impact, top 1% of its field
What it found
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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.
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Who cites it
100 citing papers in PubMed, 171 citations in OpenAlex.
- The role of gut microbiome in aging-associated diseases: where do we stand now and how technology will transform the future.Gut microbes · 2026Review
- Indole-3-acetic acid production is rare among gut bacteria and reflects OFOR-driven amino acid oxidation in acetogens.Gut microbes · 2026Article
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- Transferable genetic toolsets for nonmodel gut Clostridia enable in vivo reversible control of metabolite production.Nature biotechnology · 2026Article
- Commensal bacteria inhibit viral infections via a tryptophan metabolite.Nature communications · 2026Article
- A single-strain dropout screen reveals mechanistic links between microbial ecology and metabolism.bioRxiv : the preprint server for biology · 2026Article
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- pH regulates gut bacterial tryptophan metabolism.NPJ biofilms and microbiomes · 2026Article
- Indole-3-acetic acid production is rare among gut bacteria and reflects OFOR-driven amino acid oxidation in acetogens.bioRxiv : the preprint server for biology · 2026Article
- Microbiota utilization of intestinal amino acids modulates cancer progression and anticancer immunity.Cell host & microbe · 2026Article
- Gut microbial metabolites of amino acids in liver diseases.Gut microbes · 2025Review
- Engineered Clostridium butyricum: a promising application of synthetic biology in comprehensive health.Microbial cell factories · 2025Review
- Dietary supplementation with sodium isobutyrate enhances growth performance and colonic barrier function in weaned piglets via microbiota-metabolite-host interactions.Journal of animal science and biotechnology · 2025Article
- Gut Microbial Genetic Variation Prolongs Host Healthy Longevity and Remodels Metabolome and Proteome in Drosophila Melanogaster.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2025Article
- Detection ofVirulence · 2025Article
- Industrial and agricultural chemicals exhibit antimicrobial activity against human gut bacteria in vitro.Nature microbiology · 2025Article
- Gut microbiota regulates hepatic ketogenesis and lipid accumulation in ketogenic diet-induced hyperketonemia by disrupting bile acid metabolism.Gut microbes · 2025Article
- Microbiota-dependent metabolites - New engine for T cell warriors.Gut microbes · 2025Review
40 more citing papers are in PubMed but not listed here.
Corrections and comments
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Authors and funding
11 authors at 4 institutions in 1 country.
Chun-Jun GuoDepartment of Bioengineering and ChEM-H, Stanford University, Stanford, CA 94305, USA.ORCID 0000-0002-7227-4591
Breanna M AllenGraduate Program in Biomedical Sciences, Departments of Otolaryngology and Microbiology and Immunology, Helen Diller Family Comprehensive Cancer Center, Parker Institute for Cancer Immunotherapy, University of California, San Francisco, San Francisco, CA 94143, USA.ORCID 0000-0002-4830-6792
Kamir J HiamGraduate Program in Biomedical Sciences, Departments of Otolaryngology and Microbiology and Immunology, Helen Diller Family Comprehensive Cancer Center, Parker Institute for Cancer Immunotherapy, University of California, San Francisco, San Francisco, CA 94143, USA.ORCID 0000-0002-1956-0257
Dylan DoddDepartment of Pathology, Stanford University School of Medicine, Stanford, CA 94305, USA.
Will Van TreurenDepartment of Microbiology and Immunology, Stanford University School of Medicine, Stanford, CA 94305, USA.
Steven HigginbottomDepartment of Microbiology and Immunology, Stanford University School of Medicine, Stanford, CA 94305, USA.ORCID 0000-0002-4609-6840
Kazuki NagashimaDepartment of Bioengineering and ChEM-H, Stanford University, Stanford, CA 94305, USA.ORCID 0000-0002-8593-136X
Curt R FischerDepartment of Bioengineering and ChEM-H, Stanford University, Stanford, CA 94305, USA.ORCID 0000-0003-3386-9813
Justin L SonnenburgDepartment of Microbiology and Immunology, Stanford University School of Medicine, Stanford, CA 94305, USA.ORCID 0000-0003-2299-6817
Matthew H SpitzerGraduate Program in Biomedical Sciences, Departments of Otolaryngology and Microbiology and Immunology, Helen Diller Family Comprehensive Cancer Center, Parker Institute for Cancer Immunotherapy, University of California, San Francisco, San Francisco, CA 94143, USA. fischbach@fischbachgroup.org matthew.spitzer@ucsf.edu.ORCID 0000-0002-5291-3819
Michael A FischbachDepartment of Bioengineering and ChEM-H, Stanford University, Stanford, CA 94305, USA. fischbach@fischbachgroup.org matthew.spitzer@ucsf.edu.ORCID 0000-0003-3079-8247
Chan Zuckerberg Initiative (United States) · USParker Institute for Cancer Immunotherapy · USStanford University · USCornell University · US
Funding
Dietary and Microbial Reprogramming of Intestinal Microbiota-Produced MetabolitesR01DK101674 · NIDDK · STANFORD UNIVERSITY · PI FISCHBACH, MICHAEL ANDREW, MEYER, TIMOTHY W · 2014 to 2024
$6.5MImpact of Diet on Intestinal Microbiota-Host DynamicsR01DK085025 · NIDDK · STANFORD UNIVERSITY · PI JUSTIN L SONNENBURG · 2010 to 2026
$6.4MPREDOCTORAL TRAINING IN BIOMEDICAL SCIENCEST32GM008568 · NIGMS · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI ANSEL, KARL MARK · 1995 to 2019
$6.3MA complete map of the top 100 molecules from the gut microbiomeDP1DK113598 · NIDDK · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI FISCHBACH, MICHAEL ANDREW · 2016 to 2020
$5.5MAn integrative and generalizable approach to modulate microbiota small molecules in the hostDP2HD101401 · NICHD · WEILL MEDICAL COLL OF CORNELL UNIV · PI GUO, CHUN-JUN · 2019 to 2019
$2.5MQuantitatively modeling immune responses to cancerDP5OD023056 · OD · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI SPITZER, MATTHEW · 2016 to 2020
$1.9MIdentification and characterization of natural products from the human microbiotaR01DK110174 · NIDDK · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI FISCHBACH, MICHAEL ANDREW · 2016 to 2019
$1.4MUCSF DVS CyTOF Mass CytometerS10OD018040 · OD · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI LANIER, LEWIS LEE · 2014 to 2014
$600kModulation of gut bacteria-derived host metabolitesK08DK110335 · NIDDK · STANFORD UNIVERSITY · PI DODD, DYLAN · 2018 to 2021
$573kNICHD NIH HHS DP2 HD101401NIDDK NIH HHS DP1 DK113598NIDDK NIH HHS K08 DK110335NIDDK NIH HHS R01 DK085025NIDDK NIH HHS R01 DK101674NIDDK NIH HHS R01 DK110174NIGMS NIH HHS T32 GM008568NIH HHS DP5 OD023056NIH HHS S10 OD018040
Abstract
The gut microbiota produce hundreds of molecules that are present at high concentrations in the host circulation. Unraveling the contribution of each molecule to host biology remains difficult. We developed a system for constructing clean deletions in
Indexed as
Host Microbial InteractionsAnimalsClostridiumCRISPR-Associated Protein 9CRISPR-Cas SystemsGastrointestinal MicrobiomeGene DeletionGene EditingMetabolic Networks and PathwaysMiceMice, Inbred StrainsCRISPR-Associated Protein 9
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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.