A genomic surveillance framework and genotyping tool for Klebsiella pneumoniae and its related species complex.

ABSTRACT: Klebsiella pneumoniae is a leading cause of antimicrobial-resistant (AMR) healthcare-associated infections, neonatal sepsis and community-acquired liver abscess, and is associated with chronic intestinal diseases. Its diversity and complex population structure pose challenges for analysis and interpretation of K. pneumoniae genome data. Here we introduce Kleborate, a tool for analysing genomes of K. pneumoniae and its associated species complex, which consolidates interrogation of key features of proven clinical importance. Kleborate provides a framework to support genomic surveillance and epidemiology in research, clinical and public health settings. To demonstrate its utility we apply Kleborate to analyse publicly available Klebsiella genomes, including clinical isolates from a pan-Europ

SUBMITTER: Lam MMC 

PROVIDER: S-EPMC8263825 | biostudies-literature | 2021 Jul

REPOSITORIES: biostudies-literature