Klebsiella pneumoniae is a Gram-negative opportunistic pathogen responsible for a variety
of community and hospital infections. Infections caused by carbapenem-resistant K …

Escherichia coli is a commensal of the vertebrate gut that is increasingly involved in various
intestinal and extra-intestinal infections as an opportunistic pathogen. Numerous pathotypes …

EnteroBase is an integrated software environment that supports the identification of global
population structures within several bacterial genera that include pathogens. Here, we …

The PubMLST. org website hosts a collection of open-access, curated databases that
integrate population sequence data with provenance and phenotype information for over …

Large-scale bacterial population genetics studies are now routine due to cost-effective
Illumina short-read sequencing. However, analysing plasmid content remains difficult due to …

Hospital surfaces can harbour bacterial pathogens, which may disseminate and cause
nosocomial infections, contributing towards mortality in low-and middle-income countries …

Current methods struggle to reconstruct and visualize the genomic relationships of large
numbers of bacterial genomes. GrapeTree facilitates the analyses of large numbers of allelic …

For many decades, Salmonella enterica has been subdivided by serological properties into
serovars or further subdivided for epidemiological tracing by a variety of diagnostic tests with …

Abstract Next Generation Sequencing (NGS) combined with powerful bioinformatic
approaches are revolutionising food microbiology. Whole genome sequencing (WGS) of …

Current molecular diagnostics of human pathogens provide limited information that is often
not sufficient for outbreak and transmission investigation. Next generation sequencing …