Culture-enriched human gut microbiomes reveal core and accessory resistance genes.

ABSTRACT:

Background

Low-abundance microorganisms of the gut microbiome are often referred to as a reservoir for antibiotic resistance genes. Unfortunately, these less-abundant bacteria can be overlooked by deep shotgun sequencing. In addition, it is a challenge to associate the presence of resistance genes with their risk of acquisition by pathogens. In this study, we used liquid culture enrichment of stools to assemble the genome of lower-abundance bacteria from fecal samples. We then investigated the gene content recovered from these culture-enriched and culture-independent metagenomes in relation with their taxonomic origin, specifically antibiotic resistance genes. We finally used a pangenome approach to associate resistance genes with the core or accessory genome of Enterobacteriaceae

SUBMITTER: Raymond F 

PROVIDER: S-EPMC6451232 | biostudies-literature | 2019 Apr

REPOSITORIES: biostudies-literature