Large scale comparative codon-pair context analysis unveils general rules that fine-tune evolution of mRNA primary structure.

ABSTRACT:

Background

Codon usage and codon-pair context are important gene primary structure features that influence mRNA decoding fidelity. In order to identify general rules that shape codon-pair context and minimize mRNA decoding error, we have carried out a large scale comparative codon-pair context analysis of 119 fully sequenced genomes.

Methodologies/principal findings

We have developed mathematical and software tools for large scale comparative codon-pair context analysis. These methodologies unveiled general and species specific codon-pair context rules that govern evolution of mRNAs in the 3 domains of life. We show that evolution of bacterial and archeal mRNA primary structure is mainly dependent on constraints imposed by the translational machinery, while in eukaryotes DNA

SUBMITTER: Moura G 

PROVIDER: S-EPMC1952141 | biostudies-literature | 2007 Sep

REPOSITORIES: biostudies-literature