The urogenital tract is a complex environment composed of many different types of epithelial
tissues and innate immune cells that sample the surrounding milieu. As a host-adapted …

Whole genome sequencing (WGS) of foodborne pathogens has become an effective
method for investigating the information contained in the genome sequence of bacterial …

Microbial genomes are available at an ever-increasing pace, as cultivation and sequencing
become cheaper and obtaining metagenome-assembled genomes (MAGs) becomes more …

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

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 …

The routine use of genomics for disease surveillance provides the opportunity for high-
resolution bacterial epidemiology. Current whole-genome clustering and multilocus typing …

Estimating the rates at which bacterial genomes evolve is critical to understanding major
evolutionary and ecological processes such as disease emergence, long-term host …

Enterococcus faecium, a common inhabitant of the human gut, has emerged in the last 2
decades as an important multidrug-resistant nosocomial pathogen. Since the start of the …

Multi-country outbreaks of foodborne bacterial disease present challenges in their detection,
tracking, and notification. As food is increasingly distributed across borders, such outbreaks …

Abstract During 2015–2016, we evaluated the performance of whole-genome sequencing
(WGS) as a routine typing tool. Its added value for microbiological and epidemiologic …