High-throughput, kingdom-wide prediction and annotation of bacterial non-coding RNAs.

ABSTRACT:

Background

Diverse bacterial genomes encode numerous small non-coding RNAs (sRNAs) that regulate myriad biological processes. While bioinformatic algorithms have proven effective in identifying sRNA-encoding loci, the lack of tools and infrastructure with which to execute these computationally demanding algorithms has limited their utilization. Genome-wide predictions of sRNA-encoding genes have been conducted in less than 3% of all sequenced bacterial strains, leading to critical gaps in current annotations. The relative paucity of genome-wide sRNA prediction represents a critical gap in current annotations of bacterial genomes and has limited examination of larger issues in sRNA biology, such as sRNA evolution.

Methodology/principal findings

We have developed and deployed

SUBMITTER: Livny J 

PROVIDER: S-EPMC2527527 | biostudies-literature | 2008 Sep

REPOSITORIES: biostudies-literature