Highlights•Next generation sequencing technologies have enabled large-scale genome
analyses.•Pan-genome analyses provide a framework for predicting and modeling genomic …

Microbiomes occupy a range of niches and, in addition to having diverse compositions, they
have varied functional roles that have an impact on agriculture, environmental sciences, and …

Bacteriophage (phage) taxonomy has been in flux since its inception over four decades ago.
Genome sequencing has put pressure on the classification system and recent years have …

The causative agents of leptospirosis are responsible for an emerging zoonotic disease
worldwide. One of the major routes of transmission for leptospirosis is the natural …

Deltaproteobacteria, now proposed to be the phyla Desulfobacterota, Myxococcota, and
SAR324, are ubiquitous in marine environments and play essential roles in global carbon …

While prokaryotic pan-genomes have been shown to contain many more genes than any
individual organism, the prevalence and functional significance of differentially present …

Genetic transduction is a major evolutionary force that underlies bacterial adaptation. Here
we report that the temperate bacteriophages of Staphylococcus aureus engage in a distinct …

The EDGAR platform, a web server providing databases of precomputed orthology data for
thousands of microbial genomes, is one of the most established tools in the field of …

The use of comparative genomics for functional, evolutionary, and epidemiological studies
requires methods to classify gene families in terms of occurrence in a given species. These …

As an increasing number of genome sequences become available for a wide range of
species, there is a growing understanding that the genome of a single individual is …