Rapid Genomic Characterization and Global Surveillance of Klebsiella Using Pathogenwatch.

ABSTRACT:

Background

Klebsiella species, including the notable pathogen K. pneumoniae, are increasingly associated with antimicrobial resistance (AMR). Genome-based surveillance can inform interventions aimed at controlling AMR. However, its widespread implementation requires tools to streamline bioinformatic analyses and public health reporting.

Methods

We developed the web application Pathogenwatch, which implements analytics tailored to Klebsiella species for integration and visualization of genomic and epidemiological data. We populated Pathogenwatch with 16 537 public Klebsiella genomes to enable contextualization of user genomes. We demonstrated its features with 1636 genomes from 4 low- and middle-income countries (LMICs) participating in the NIHR Global Health Research Unit (G

SUBMITTER: Argimon S 

PROVIDER: S-EPMC8634497 | biostudies-literature | 2021 Dec

REPOSITORIES: biostudies-literature