Systematic identification of stem-loop containing sequence families in bacterial genomes.

ABSTRACT:

Background

Analysis of non-coding sequences in several bacterial genomes brought to the identification of families of repeated sequences, able to fold as secondary structures. These sequences have often been claimed to be transcribed and fulfill a functional role. A previous systematic analysis of a representative set of 40 bacterial genomes produced a large collection of sequences, potentially able to fold as stem-loop structures (SLS). Computational analysis of these sequences was carried out by searching for families of repetitive nucleic acid elements sharing a common secondary structure.

Results

The initial clustering procedure identified clusters of similar sequences in 29 genomes, corresponding to about 1% of the whole population. Sequences selected in this way have a

SUBMITTER: Cozzuto L 

PROVIDER: S-EPMC2267715 | biostudies-literature | 2008 Jan

REPOSITORIES: biostudies-literature