A global metagenomic map of urban microbiomes and antimicrobial resistance

Research output: Journal Publications and Reviews (RGC: 21, 22, 62)21_Publication in refereed journalpeer-review

7 Scopus Citations
View graph of relations

Author(s)

  • The International MetaSUB Consortium, including
  • 99 authors, including
  • David Danko
  • Patrick K.H. Lee
  • Marcus H.Y. Leung
  • Xinzhao Tong
  • Christopher E. Mason

Related Research Unit(s)

Detail(s)

Original languageEnglish
Pages (from-to)3376-3393.e17
Journal / PublicationCell
Volume184
Issue number13
Online published26 May 2021
Publication statusPublished - 24 Jun 2021

Link(s)

Abstract

We present a global atlas of 4,728 metagenomic samples from mass-transit systems in 60 cities over 3 years, representing the first systematic, worldwide catalog of the urban microbial ecosystem. This atlas provides an annotated, geospatial profile of microbial strains, functional characteristics, antimicrobial resistance (AMR) markers, and genetic elements, including 10,928 viruses, 1,302 bacteria, 2 archaea, and 838,532 CRISPR arrays not found in reference databases. We identified 4,246 known species of urban microorganisms and a consistent set of 31 species found in 97% of samples that were distinct from human commensal organisms. Profiles of AMR genes varied widely in type and density across cities. Cities showed distinct microbial taxonomic signatures that were driven by climate and geographic differences. These results constitute a high-resolution global metagenomic atlas that enables discovery of organisms and genes, highlights potential public health and forensic applications, and provides a culture-independent view of AMR burden in cities.

Research Area(s)

  • AMR, antimicrobial resistance, BGC, built Environment, de novo assembly, global health, metagenome, microbiome, NGS, shotgun sequencing

Citation Format(s)

A global metagenomic map of urban microbiomes and antimicrobial resistance. / The International MetaSUB Consortium, including; 99 authors, including; Danko, David; Lee, Patrick K.H.; Leung, Marcus H.Y.; Tong, Xinzhao; Mason, Christopher E.

In: Cell, Vol. 184, No. 13, 24.06.2021, p. 3376-3393.e17.

Research output: Journal Publications and Reviews (RGC: 21, 22, 62)21_Publication in refereed journalpeer-review

Download Statistics

No data available