Optimal Representative Strain selector-a comprehensive pipeline for selecting next-generation reference strains of bacterial species.

ABSTRACT: Although it is common practice to use historically established 'reference strains' or 'type strains' for laboratory experiments, this approach often overlooks how effectively these strains represent the full ecological, genetic and functional diversity of the species within a specific ecological niche. In this context, this study proposes the Optimal Representative Strain (ORS) selector tool (https://zenodo.org/doi/10.5281/zenodo.13772191), an innovative bioinformatic pipeline capable of evaluating how a strain represents its whole species from a genetic and functional perspective, in addition to considering its ecological distribution in a particular ecological niche. Based on publicly available genomes, the strain that best fits all these three microbiological aspects is designated as an

SUBMITTER: Tarracchini C 

PROVIDER: S-EPMC11655286 | biostudies-literature | 2024 Dec

REPOSITORIES: biostudies-literature