The close proximity of Escherichia coli genes: consequences for stop codon and synonymous codon use

Eyre-Walker, Adam (1996) The close proximity of Escherichia coli genes: consequences for stop codon and synonymous codon use. Journal of Molecular Evolution, 42 (2). pp. 73-78. ISSN 0022-2844

Full text not available from this repository.

Abstract

It is shown that synonymous codon usage is less biased in favor of those codons preferred by highly expressed genes at the end of Escherichia coli genes than in the middle. This appears to be due to the close proximity of many E. coli genes. It is shown that a substantial number of genes overlap either the Shine-Dalgarno sequence or the coding sequence of the next gene on the chromosome and that the codons that overlap have lower synonymous codon bias than those which do not. It is also shown that there is an increase in the frequency of A-ending codons, and a decrease in the frequency of G-ending codons at the end of E. coli genes that lie close to another gene. It is suggested that these trends in composition could be associated with selection against the formation of mRNA secondary structure near the start of the next gene on the chromosome. Stop codon use is also affected by the close proximity of genes; many genes are forced to use TGA and TAG stop codons because they terminate either within the Shine-Dalgarno or coding sequence of the next gene on the chromosome. The implications these results have for the evolution of synonymous codon use are discussed.

Item Type: Article
Schools and Departments: School of Life Sciences > Evolution, Behaviour and Environment
Depositing User: Adam Eyre-Walker
Date Deposited: 06 Feb 2012 21:11
Last Modified: 19 Jun 2012 09:29
URI: http://sro.sussex.ac.uk/id/eprint/30028
📧 Request an update