Host DNA depletion methods and genome-centric metagenomics of bovine hindmilk microbiome.

ABSTRACT: Bovine mastitis is a multi-etiological and complex disease, resulting in serious economic consequences for dairy farmers and industry. In recent years, the microbiological evaluation of raw milk has been investigated in-depth using next-generation sequencing approaches such as metataxonomic analysis. Despite this, host DNA is a major concern in the shotgun metagenomic sequencing of microbial communities in milk samples, and it represents a big challenge. In this study, we aimed to evaluate different methods for host DNA depletion and/or microbial DNA enrichment and assess the use of PCR-based whole genome amplification in milk samples with high somatic cell count (SCC) by using short- and long-read sequencing technologies. Our results evidenced that DNA extraction performed differently in

SUBMITTER: Duarte VdS 

PROVIDER: S-EPMC10826364 | biostudies-literature | 2024 Jan

REPOSITORIES: biostudies-literature