Complex microbial communities shape the dynamics of various environments, ranging from
the mammalian gastrointestinal tract to the soil. Advances in DNA sequencing technologies …

The use of life-saving antibiotics has long been plagued by the ability of pathogenic bacteria
to acquire and develop an array of antibiotic resistance mechanisms. The sum of these …

The reconstruction of bacterial and archaeal genomes from shotgun metagenomes has
enabled insights into the ecology and evolution of environmental and host-associated …

Abstract The Genome Taxonomy Database is a phylogenetically consistent, genome-based
taxonomy that provides rank-normalized classifications for~ 150,000 bacterial and archaeal …

Metagenomes encode an enormous diversity of proteins, reflecting a multiplicity of functions
and activities,. Exploration of this vast sequence space has been limited to a comparative …

Microbial taxonomy is increasingly influenced by genome-based computational methods.
Yet such analyses can be complex and require expert knowledge. Here we introduce TYGS …

The class Alphaproteobacteria is comprised of a diverse assemblage of Gram-negative
bacteria that includes organisms of varying morphologies, physiologies and habitat …

The immense diversity of soil bacterial communities has stymied efforts to characterize
individual taxa and document their global distributions. We analyzed soils from 237 …

A fundamental question in microbiology is whether there is continuum of genetic diversity
among genomes, or clear species boundaries prevail instead. Whole-genome similarity …

The application of phylogenetic taxonomic procedures led to improvements in the
classification of bacteria assigned to the phylum Actinobacteria but even so there remains a …