Comparative genomics reveals 104 candidate structured RNAs from bacteria, archaea, and their metagenomes.

ABSTRACT:

Background

Structured noncoding RNAs perform many functions that are essential for protein synthesis, RNA processing, and gene regulation. Structured RNAs can be detected by comparative genomics, in which homologous sequences are identified and inspected for mutations that conserve RNA secondary structure.

Results

By applying a comparative genomics-based approach to genome and metagenome sequences from bacteria and archaea, we identified 104 candidate structured RNAs and inferred putative functions for many of these. Twelve candidate metabolite-binding RNAs were identified, three of which were validated, including one reported herein that binds the coenzyme S-adenosylmethionine. Newly identified cis-regulatory RNAs are implicated in photosynthesis or nitrogen regulation in c

SUBMITTER: Weinberg Z 

PROVIDER: S-EPMC2864571 | biostudies-literature | 2010

REPOSITORIES: biostudies-literature