Mining microbial metatranscriptomes for expression of antibiotic resistance genes under natural conditions View Full Text


Ontology type: schema:ScholarlyArticle      Open Access: True


Article Info

DATE

2015-07-08

AUTHORS

Dennis Versluis, Marco Maria D’Andrea, Javier Ramiro Garcia, Milkha M. Leimena, Floor Hugenholtz, Jing Zhang, Başak Öztürk, Lotta Nylund, Detmer Sipkema, Willem van Schaik, Willem M. de Vos, Michiel Kleerebezem, Hauke Smidt, Mark W.J. van Passel

ABSTRACT

Antibiotic resistance genes are found in a broad range of ecological niches associated with complex microbiota. Here we investigated if resistance genes are not only present, but also transcribed under natural conditions. Furthermore, we examined the potential for antibiotic production by assessing the expression of associated secondary metabolite biosynthesis gene clusters. Metatranscriptome datasets from intestinal microbiota of four human adults, one human infant, 15 mice and six pigs, of which only the latter have received antibiotics prior to the study, as well as from sea bacterioplankton, a marine sponge, forest soil and sub-seafloor sediment, were investigated. We found that resistance genes are expressed in all studied ecological niches, albeit with niche-specific differences in relative expression levels and diversity of transcripts. For example, in mice and human infant microbiota predominantly tetracycline resistance genes were expressed while in human adult microbiota the spectrum of expressed genes was more diverse and also included β-lactam, aminoglycoside and macrolide resistance genes. Resistance gene expression could result from the presence of natural antibiotics in the environment, although we could not link it to expression of corresponding secondary metabolites biosynthesis clusters. Alternatively, resistance gene expression could be constitutive, or these genes serve alternative roles besides antibiotic resistance. More... »

PAGES

11981

References to SciGraph publications

  • 2013-08-02. A comprehensive metatranscriptome analysis pipeline and its validation using human small intestine microbiota datasets in BMC GENOMICS
  • 2013-02-01. Marine Sediment Bacteria Harbor Antibiotic Resistance Genes Highly Similar to Those Found in Human Pathogens in MICROBIAL ECOLOGY
  • 2005-01-13. A novel actinomycete strain de-replication approach based on the diversity of polyketide synthase and nonribosomal peptide synthetase biosynthetic pathways in APPLIED MICROBIOLOGY AND BIOTECHNOLOGY
  • 2014-07-08. Improved annotation of antibiotic resistance determinants reveals microbial resistomes cluster by ecology in THE ISME JOURNAL: MULTIDISCIPLINARY JOURNAL OF MICROBIAL ECOLOGY
  • 2014-05-21. Bacterial phylogeny structures soil resistomes across habitats in NATURE
  • 2010-03-01. Call of the wild: antibiotic resistance genes in natural environments in NATURE REVIEWS MICROBIOLOGY
  • 2013-07-23. Metagenome-wide analysis of antibiotic resistance genes in a large cohort of human gut microbiota in NATURE COMMUNICATIONS
  • 2011-08-31. Antibiotic resistance is ancient in NATURE
  • 2006-08-03. Isolation of RNA from bacterial samples of the human gastrointestinal tract in NATURE PROTOCOLS
  • 1999-11. Acquired antibiotic resistance in lactic acid bacteria from food in ANTONIE VAN LEEUWENHOEK
  • 2013-09-27. Culture-dependent and independent approaches for identifying novel halogenases encoded by Crambe crambe (marine sponge) microbiota in SCIENTIFIC REPORTS
  • 2013-10-01. Camel Streptococcus agalactiae populations are associated with specific disease complexes and acquired the tetracycline resistance gene tetM via a Tn916-like element in VETERINARY RESEARCH
  • 2010-09-16. Quantitative analysis of a deeply sequenced marine microbial metatranscriptome in THE ISME JOURNAL: MULTIDISCIPLINARY JOURNAL OF MICROBIAL ECOLOGY
  • 2012-05-09. Human gut microbiome viewed across age and geography in NATURE
  • 2011-03-22. Community transcriptomics reveals universal patterns of protein sequence conservation in natural microbial communities in GENOME BIOLOGY
  • 2009-12-03. Spatial distribution of bacteria associated with the marine sponge Tethya californiana in MARINE BIOLOGY
  • 2012-06-27. Get pigs off antibiotics in NATURE
  • 2009-11-24. Prokaryotic transcriptomics: a new view on regulation, physiology and pathogenicity in NATURE REVIEWS GENETICS
  • 2013-06-12. Gene expression in the deep biosphere in NATURE
  • 2010-03-08. Antibiotic resistance and its cost: is it possible to reverse resistance? in NATURE REVIEWS MICROBIOLOGY
  • Journal

    TITLE

    Scientific Reports

    ISSUE

    1

    VOLUME

    5

    Identifiers

    URI

    http://scigraph.springernature.com/pub.10.1038/srep11981

    DOI

    http://dx.doi.org/10.1038/srep11981

    DIMENSIONS

    https://app.dimensions.ai/details/publication/pub.1004560142

    PUBMED

    https://www.ncbi.nlm.nih.gov/pubmed/26153129


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