Technical note: overcoming host contamination in bovine vaginal metagenomic samples with nanopore adaptive sequencing.

ABSTRACT: Animal metagenomic studies, in which host-associated microbiomes are profiled, are an increasingly important contribution to our understanding of the physiological functions, health and susceptibility to diseases of livestock. One of the major challenges in these studies is host DNA contamination, which limits the sequencing capacity for metagenomic content and reduces the accuracy of metagenomic profiling. This is the first study comparing the effectiveness of different sequencing methods for profiling bovine vaginal metagenomic samples. We compared the new method of Oxford Nanopore Technologies (ONT) adaptive sequencing, which can be used to target or eliminate defined genetic sequences, to standard ONT sequencing, Illumina 16S rDNA amplicon sequencing, and Illumina shotgun sequencing. T

SUBMITTER: Ong CT 

PROVIDER: S-EPMC8722758 | biostudies-literature | 2022 Jan

REPOSITORIES: biostudies-literature