Quantification of codon selection for comparative bacterial genomics.

ABSTRACT:

Background

Statistics measuring codon selection seek to compare genes by their sensitivity to selection for translational efficiency, but existing statistics lack a model for testing the significance of differences between genes. Here, we introduce a new statistic for measuring codon selection, the Adaptive Codon Enrichment (ACE).

Results

This statistic represents codon usage bias in terms of a probabilistic distribution, quantifying the extent that preferred codons are over-represented in the gene of interest relative to the mean and variance that would result from stochastic sampling of codons. Expected codon frequencies are derived from the observed codon usage frequencies of a broad set of genes, such that they are likely to reflect nonselective, genome wide influences o

SUBMITTER: Retchless AC 

PROVIDER: S-EPMC3162537 | biostudies-literature | 2011 Jul

REPOSITORIES: biostudies-literature