Codon usage bias analysis for the coding sequences of Camellia sinensis and Brassica campestris

Abstract

Codon usage bias plays an important role in the regulation of gene expression. A couple of measures are widely used to quantify the codon usage in genes. On the other hand, no quantitative endeavour has been made to compare the pattern of codon usage diversity within and between different genes of Camellia sinensis and Brassica campestris. Nucleotide composition and its relationship with codon usage bias were analyzed. Additionally, the rare codons were identified by computing the recurrence of event of all codons in coding sequences of C. sinensis and B. campestris. The host cell, Escherichia coli used universally, failed to express smoothly many eukaryotic genes. For this, the authors prognosticated the codons showing the highest and the lowest expressivity of the coding sequences of C. sinensis and B. campestris, in E. coli K12 strain to improve the expression level of the genes.

Key words: Codon usage bias, gene expressivity, codon usage pattern, residual value, synonymous codon.