Systematic review of human gut resistome studies revealed variable definitions and approaches

Research output: Journal Publications and ReviewsRGC 21 - Publication in refereed journalpeer-review

19 Scopus Citations
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Author(s)

  • Jeffery Ho
  • Yun Kit Yeoh
  • Nilakshi Barua
  • Zigui Chen
  • Grace Lui
  • Sunny H Wong
  • Martin CW Chan
  • Paul KS Chan
  • Peter M Hawkey
  • Margaret Ip

Detail(s)

Original languageEnglish
Article number1700755
Number of pages12
Journal / PublicationGut Microbes
Volume12
Issue number1
Online published16 Jan 2020
Publication statusPublished - 2020
Externally publishedYes

Link(s)

Abstract

In this review, we highlight the variations of gut resistome studies, which may preclude comparisons and translational interpretations. Of 22 included studies, a range of 12 to 2000 antibiotic resistance (AR) genes were profiled. Overall, studies defined a healthy gut resistome as subjects who had not taken antibiotics in the last three to 12 months prior to sampling. In studies with de novo assembly, AR genes were identified based on variable nucleotide or amino acid sequence similarities. Different marker genes were used for defining resistance to a given antibiotic class. Validation of phenotypic resistance in the laboratory is frequently lacking. Cryptic resistance, collateral sensitivity and the interaction with repressors or promotors were not investigated. International consensus is needed for selecting marker genes to define resistance to a given antibiotic class in addition to uniformity in phenotypic validation and bioinformatics pipelines.

Research Area(s)

  • Resistome, antibiotic resistance, gut microbiota, meta-genomics, fecal microbiota transplantation, ANTIBIOTIC-RESISTANCE GENES, DETERMINANTS, DATABASE

Citation Format(s)

Systematic review of human gut resistome studies revealed variable definitions and approaches. / Ho, Jeffery; Yeoh, Yun Kit; Barua, Nilakshi et al.
In: Gut Microbes, Vol. 12, No. 1, 1700755, 2020.

Research output: Journal Publications and ReviewsRGC 21 - Publication in refereed journalpeer-review

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