ArticlemSystems2019
A Metabolome- and Metagenome-Wide Association Network Reveals Microbial Natural Products and Microbial Biotransformation Products from the Human Microbiota.
Article in mSystems, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 17 papers.
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.
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.
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Who cites it
17 citing papers in PubMed, 30 citations in OpenAlex.
- Review
- The Future Exploring of Gut Microbiome-Immunity Interactions: From In Vivo/Vitro Models to In Silico Innovations.Microorganisms · 2024Review
- G protein-coupled receptors: A target for microbial metabolites and a mechanistic link to microbiome-immune-brain interactions.Brain, behavior, & immunity - health · 2023Review
- Correlative metabologenomics of 110 fungi reveals metabolite-gene cluster pairs.Nature chemical biology · 2023Article
- Multi-Level Optimization and Strategies in Microbial Biotransformation of Nature Products.Molecules (Basel, Switzerland) · 2023Review
- Neuromicrobiology, an emerging neurometabolic facet of the gut microbiome?Frontiers in microbiology · 2023Review
- Salivary bacterial signatures in depression-obesity comorbidity are associated with neurotransmitters and neuroactive dipeptides.BMC microbiology · 2022Article
- TransDiscovery: Discovering Biotransformation from Human Microbiota by Integrating Metagenomic and Metabolomic Data.Metabolites · 2022Article
- Cecal Metabolomic Fingerprint of Unscathed Rats: Does It Reflect the Good Response to a Provocative Decompression?Frontiers in physiology · 2022Article
- Article
- MolDiscovery: learning mass spectrometry fragmentation of small molecules.Nature communications · 2021Article
- BiG-SLiCE: A highly scalable tool maps the diversity of 1.2 million biosynthetic gene clusters.GigaScience · 2021Article
- The Combination of Tradition and Future: Data-Driven Natural-Product-Based Treatments for Parkinson's Disease.Evidence-based complementary and alternative medicine : eCAM · 2021Review
- Translational Informatics for Natural Products as Antidepressant Agents.Frontiers in cell and developmental biology · 2021Review
- Metabolomics as an Emerging Tool in the Search for Astrobiologically Relevant Biomarkers.Astrobiology · 2020Review
- Review
- Metabolome-Microbiome Crosstalk and Human Disease.Metabolites · 2020Review
Corrections and comments
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Authors and funding
3 authors at 2 institutions in 2 countries.
Funding
Abstract
The human microbiome consists of thousands of different microbial species, and tens of thousands of bioactive small molecules are associated with them. These associated molecules include the biosynthetic products of microbiota and the products of microbial transformation of host molecules, dietary components, and pharmaceuticals. The existing methods for characterization of these small molecules are currently time consuming and expensive, and they are limited to the cultivable bacteria. Here, we propose a method for detecting microbiota-associated small molecules based on the patterns of cooccurrence of molecular and microbial features across multiple microbiomes. We further map each molecule to the clade in a phylogenetic tree that is responsible for its production/transformation. We applied our proposed method to the tandem mass spectrometry and metagenomics data sets collected by the American Gut Project and to microbiome isolates from cystic fibrosis patients and discovered the genes in the human microbiome responsible for the production of corynomycolenic acid, which serves as a ligand for human T cells and induces a specific immune response against infection. Moreover, our method correctly associated pseudomonas quinolone signals, tyrvalin, and phevalin with their known biosynthetic gene clusters.
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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 OpenQuestion graph.