The great majority of microbial species remains uncultured, severely limiting their taxonomic
characterization and thus communication among scientists. Although Candidatus was …

Multifaceted microorganisms such as the bacterium Pantoea colonize a wide range of
habitats and can exhibit both beneficial and harmful behaviors, which provide new insights …

The average amino acid identity (AAI) is an index of pairwise genomic relatedness, and
multiple studies have proposed its application in prokaryotic taxonomy and related …

The human gut microbiome plays an important role in health, but its archaeal diversity
remains largely unexplored. In the present study, we report the analysis of 1,167 …

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

Background Dysregulation of gut microbiota-associated tryptophan metabolism has been
observed in patients with multiple sclerosis. However, defining direct mechanistic links …

The small subunit ribosomal RNA gene (16S rRNA) has been successfully used to
catalogue and study the diversity of prokaryotic species and communities but it offers limited …

Crassvirales (crAss-like phages) are an abundant group of human gut-specific
bacteriophages discovered in silico. The use of crAss-like phages as human fecal indicators …

The recovery of metagenome-assembled genomes (MAGs) from metagenomic data has
recently become a common task for microbial studies. The strengths and limitations of the …

Members of the phylum Acidobacteria are abundant and ubiquitous across soils. We
performed a large‐scale comparative genome analysis spanning subdivisions 1, 3, 4, 6, 8 …