Improved resolution of bacteria by high throughput sequence analysis of the rRNA internal transcribed spacer.

ABSTRACT: Current high throughput sequencing (HTS) methods are limited in their ability to resolve bacteria at or below the genus level. While the impact of this limitation may be relatively minor in whole-community analyses, it constrains the use of HTS as a tool for identifying and examining individual bacteria of interest. The limited resolution is a consequence of both short read lengths and insufficient sequence variation within the commonly targeted variable regions of the small-subunit rRNA (SSU) gene. The goal of this work was to improve the resolving power of bacterial HTS. We developed an assay targeting the hypervariable rRNA internal transcribed spacer (ITS) region residing between the SSU and large-subunit (LSU) rRNA genes. Comparisons of the ITS region and two SSU regions using annotat

SUBMITTER: Ruegger PM 

PROVIDER: S-EPMC4160368 | biostudies-literature | 2014 Oct

REPOSITORIES: biostudies-literature