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Bioinformatics Advance Access originally published online on January 22, 2004
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Bioinformatics 20(5) © Oxford University Press 2004; all rights reserved.

Discovery Note

Conservation analysis of small RNA genes in Escherichia coli

Yong Zhang , Zhihua Zhang , Lunjiang Ling , Baochen Shi and Runsheng Chen *

Bioinformatics Laboratory, Institute of Biophysics, Chinese Academy of Sciences, Beijing 100101, China

Received on June 24, 2003 ; revised on August 23, 2003 ; accepted on September 29, 2003
Advance Access Publication January 22, 2004

Motivation: Small RNA (sRNA) genes in Escherichia coli have been in focus recently, as 44 out of 55 experimentally confirmed sRNA genes have been precisely located in the genome. The object of this study is to analyze quantitatively the conservation of these sRNA genes and compare it with the conservation of protein-encoding genes, function-unknown regions and tRNA genes.

Results: The results show that within an evolutionary distance of 0.26, both sRNA genes and protein-encoding genes display a similar tendency in their degrees of conservation at the nucleotide level. In addition, the conservation of sRNA genes is much stronger than function-unknown regions, but much weaker than tRNA genes. Based on the conservation of studied sRNA genes, we also give clues to estimate the total number of sRNA genes in E.coli.

Supplementary information: Supplementary information is available at http://www.bioinfo.org.cn/SM/sRNAconservation.htm

Contact: crs{at}sun5.ibp.ac.cn

* To whom correspondence should be addressed.


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