Divergent Relationships between Fecal Microbiota and Metabolome following Distinct Antibiotic-Induced Disruptions

Jocelyn M. Choo, Tokuwa Kanno, Nur Masirah Mohd Zain, Lex E. X. Leong, Guy C. J. Abell, Julie E. Keeble, Kenneth D. Bruce, A. James Mason, Geraint B. Rogers

    Research output: Contribution to journalArticlepeer-review

    12 Citations (Scopus)
    5 Downloads (Pure)

    Abstract

    The intestinal microbiome plays an essential role in regulating many aspects of host physiology, and its disruption through antibiotic exposure has been implicated in the development of a range of serious pathologies. The complex metabolic relationships that exist between members of the intestinal microbiota and the potential redundancy in functional pathways mean that an integrative analysis of changes in both structure and function are needed to understand the impact of antibiotic exposure. We used a combination of next-generation sequencing and nuclear magnetic resonance (NMR) metabolomics to characterize the effects of two clinically important antibiotic treatments, ciprofloxacin and vancomycin-imipenem, on the intestinal microbiomes of female C57BL/6 mice. This assessment was performed longitudinally and encompassed both antibiotic challenge and subsequent microbiome reestablishment. Both antibiotic treatments significantly altered the microbiota and metabolite compositions of fecal pellets during challenge and recovery. Spearman's correlation analysis of microbiota and NMR data revealed that, while some metabolites could be correlated with individual operational taxonomic units (OTUs), frequently multiple OTUs were associated with a significant change in a given metabolite. Furthermore, one metabolite, arginine, can be associated with increases/ decreases in different sets of OTUs under differing conditions. Taken together, these findings indicate that reliance on shifts in one data set alone will generate an incomplete picture of the functional effect of antibiotic intervention. A full mechanistic understanding will require knowledge of the baseline microbiota composition, combined with both a comparison and an integration of microbiota, metabolomics, and phenotypic data.

    Original languageEnglish
    Article numbere00005-17
    Number of pages13
    JournalmSphere
    Volume2
    Issue number1
    DOIs
    Publication statusPublished - 1 Jan 2017

    Bibliographical note

    (CC-BY 4.0) Open Access article licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license (http://creativecommons.org/licenses/by/4.0).

    Keywords

    • beta-lactam
    • fluoroquinolone
    • glycopeptide
    • metabolic activity
    • microbiota composition
    • Beta-lactam
    • Metabolic activity
    • Glycopeptide
    • Microbiota composition
    • Fluoroquinolone

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