Competitive metagenomic DNA hybridization identifies host-specific microbial genetic markers in cow fecal samples.

ABSTRACT: Several PCR methods have recently been developed to identify fecal contamination in surface waters. In all cases, researchers have relied on one gene or one microorganism for selection of host-specific markers. Here we describe the application of a genome fragment enrichment (GFE) method to identify host-specific genetic markers from fecal microbial community DNA. As a proof of concept, bovine fecal DNA was challenged against a porcine fecal DNA background to select for bovine-specific DNA sequences. Bioinformatic analyses of 380 bovine enriched metagenomic sequences indicated a preponderance of Bacteroidales-like regions predicted to encode membrane-associated and secreted proteins. Oligonucleotide primers capable of annealing to select Bacteroidales-like bovine GFE sequences exhibited ex

SUBMITTER: Shanks OC 

PROVIDER: S-EPMC1489641 | biostudies-literature | 2006 Jun

REPOSITORIES: biostudies-literature