The Source and Evolutionary History of a Microbial Contaminant Identified Through Soil Metagenomic Analysis.

ABSTRACT: In this study, strain-resolved metagenomics was used to solve a mystery. A 6.4-Mbp complete closed genome was recovered from a soil metagenome and found to be astonishingly similar to that of Delftia acidovorans SPH-1, which was isolated in Germany a decade ago. It was suspected that this organism was not native to the soil sample because it lacked the diversity that is characteristic of other soil organisms; this suspicion was confirmed when PCR testing failed to detect the bacterium in the original soil samples. D. acidovorans was also identified in 16 previously published metagenomes from multiple environments, but detailed-scale single nucleotide polymorphism analysis grouped these into five distinct clades. All of the strains indicated as contaminants fell into one clade

SUBMITTER: Olm MR 

PROVIDER: S-EPMC5358914 | biostudies-literature | 2017 Feb

REPOSITORIES: biostudies-literature