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MiMeDB: the Human Microbial Metabolome Database.

David S Wishart1,2,3,4, Eponine Oler1, Harrison Peters1

  • 1Department of Biological Sciences, University of Alberta, Edmonton, AB T6G 2E9, Canada.

Nucleic Acids Research
|October 10, 2022
PubMed
Summary
This summary is machine-generated.

The Human Microbial Metabolome Database (MiMeDB) integrates microbial, genomic, and metabolomic data to link the human microbiome to health and disease. This comprehensive resource aids in understanding chemical exposures and their impact on human well-being.

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Area of Science:

  • Microbiology
  • Metabolomics
  • Bioinformatics

Background:

  • The human microbiome plays a crucial role in health and disease.
  • Existing data on microbial metabolites and their human health impacts are fragmented.
  • A consolidated resource is needed to integrate multi-omic data for microbiome research.

Purpose of the Study:

  • To establish the Human Microbial Metabolome Database (MiMeDB) as a comprehensive, multi-omic resource.
  • To connect microbes, genomes, metabolites, and the human exposome.
  • To facilitate research into the links between the human microbiome, chemical exposures, and human health.

Main Methods:

  • Consolidated data on human microbes (bacteria, fungi), their genomes, and metabolites.
  • Integrated information on metabolite properties, reactions, enzymes, and exposome sources (food, drugs, pollutants).
  • Included data on health effects, biosample concentrations, and human protein targets, with extensive references.

Main Results:

  • MiMeDB contains data on 1904 microbes, 24,254 metabolites, 6.4 million genes, and 7.6 billion DNA bases.
  • The database includes 626 health effects, 22,054 reactions, and 648,861 spectra (MS and NMR).
  • MiMeDB offers interactive visualizations and robust search functionalities.

Conclusions:

  • MiMeDB provides an integrated, multi-omic platform for microbiome research.
  • The database supports systems biology approaches to understand microbiome-host interactions.
  • MiMeDB is a valuable resource for investigating the impact of microbial metabolites on human health and disease.