Extensive impact of non-antibiotic drugs on human gut bacteria View Full Text


Ontology type: schema:ScholarlyArticle      Open Access: True


Article Info

DATE

2018-03-19

AUTHORS

Lisa Maier, Mihaela Pruteanu, Michael Kuhn, Georg Zeller, Anja Telzerow, Exene Erin Anderson, Ana Rita Brochado, Keith Conrad Fernandez, Hitomi Dose, Hirotada Mori, Kiran Raosaheb Patil, Peer Bork, Athanasios Typas

ABSTRACT

A few commonly used non-antibiotic drugs have recently been associated with changes in gut microbiome composition, but the extent of this phenomenon is unknown. Here, we screened more than 1,000 marketed drugs against 40 representative gut bacterial strains, and found that 24% of the drugs with human targets, including members of all therapeutic classes, inhibited the growth of at least one strain in vitro. Particular classes, such as the chemically diverse antipsychotics, were overrepresented in this group. The effects of human-targeted drugs on gut bacteria are reflected on their antibiotic-like side effects in humans and are concordant with existing human cohort studies. Susceptibility to antibiotics and human-targeted drugs correlates across bacterial species, suggesting common resistance mechanisms, which we verified for some drugs. The potential risk of non-antibiotics promoting antibiotic resistance warrants further exploration. Our results provide a resource for future research on drug–microbiome interactions, opening new paths for side effect control and drug repurposing, and broadening our view of antibiotic resistance. More... »

PAGES

623-628

References to SciGraph publications

  • 2012-09-26. A metagenome-wide association study of gut microbiota in type 2 diabetes in NATURE
  • 2017-02-17. A tool named Iris for versatile high-throughput phenotyping in microorganisms in NATURE MICROBIOLOGY
  • 2012-12-05. Genomic variation landscape of the human gut microbiome in NATURE
  • 2015-12-02. Disentangling type 2 diabetes and metformin treatment signatures in the human gut microbiota in NATURE
  • 2016-07-06. Intestinal microbiota in health and disease in NATURE
  • 2018-03-19. Nutritional preferences of human gut bacteria reveal their metabolic idiosyncrasies in NATURE MICROBIOLOGY
  • 2015-01-10. Identification of Essential Genes and Synthetic Lethal Gene Combinations in Escherichia coli K-12 in GENE ESSENTIALITY
  • 2010-03. A human gut microbial gene catalogue established by metagenomic sequencing in NATURE
  • 2014-08-28. Cultivation-based multiplex phenotyping of human gut microbiota allows targeted recovery of previously uncultured bacteria in NATURE COMMUNICATIONS
  • 2012-06-13. Structure, function and diversity of the healthy human microbiome in NATURE
  • 2015-10-26. Gut biogeography of the bacterial microbiota in NATURE REVIEWS MICROBIOLOGY
  • 2011-04-24. Combinations of antibiotics and nonantibiotic drugs enhance antimicrobial efficacy in NATURE CHEMICAL BIOLOGY
  • 2016-03-14. The microbial pharmacists within us: a metagenomic view of xenobiotic metabolism in NATURE REVIEWS MICROBIOLOGY
  • 2017-05-22. Metformin alters the gut microbiome of individuals with treatment-naive type 2 diabetes, contributing to the therapeutic effects of the drug in NATURE MEDICINE
  • 2013-07-28. Accurate and universal delineation of prokaryotic species in NATURE METHODS
  • 2014-07-06. Identification and assembly of genomes and genetic elements in complex metagenomic samples without using reference genomes in NATURE BIOTECHNOLOGY
  • 2011-04-20. Enterotypes of the human gut microbiome in NATURE
  • 2008-06-05. Metformin and the intestine in DIABETOLOGIA
  • Identifiers

    URI

    http://scigraph.springernature.com/pub.10.1038/nature25979

    DOI

    http://dx.doi.org/10.1038/nature25979

    DIMENSIONS

    https://app.dimensions.ai/details/publication/pub.1101559358

    PUBMED

    https://www.ncbi.nlm.nih.gov/pubmed/29555994


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