Evaluating cpn60 for high-resolution profiling of the mammalian skin microbiome and detection of phylosymbiosis.

ABSTRACT: Despite being the most widely used phylogenetic marker for amplicon-based profiling of microbial communities, limited phylogenetic resolution of the 16S rRNA gene limits its use for studies of host-microbe co-evolution. In contrast, the cpn60 gene is a universal phylogenetic marker with greater sequence variation capable of species-level resolution. This research compared mammalian skin microbial profiles generated from cpn60 and 16S rRNA gene sequencing approaches, testing for patterns of phylosymbiosis that suggest co-evolutionary host-microbe associations. An ~560 bp fragment of the cpn60 gene was amplified with universal primers and subjected to high-throughput sequencing. Taxonomic classification of cpn60 sequences was completed using a naïve-Bayesian QIIME2 classifier created for thi

SUBMITTER: Umbach AK 

PROVIDER: S-EPMC10328941 | biostudies-literature | 2023 Jul

REPOSITORIES: biostudies-literature