Phylogenomics picks out the par excellence markers for species phylogeny in the genus Staphylococcus.

ABSTRACT: Although genome sequencing has become a very promising approach to conduct microbial taxonomy, few labs have the resources to afford this especially when dealing with data sets of hundreds to thousands of isolates. The goal of this study was to identify the most adequate loci for inferring the phylogeny of the species within the genus Staphylococcus; with the idea that those who cannot afford whole genome sequencing can use these loci to carry out species assignation confidently. We retrieved 177 orthologous groups (OGs) by using a genome-based phylogeny and an average nucleotide identity analysis. The top 26 OGs showed topologies similar to the species tree and the concatenation of them yielded a topology almost identical to that of the species tree. Furthermore, a phylogeny of jus

SUBMITTER: Grana-Miraglia L 

PROVIDER: S-EPMC6203942 | biostudies-literature | 2018

REPOSITORIES: biostudies-literature