Table of Contents
Codon Usage Bias #
What is Codon Usage bias (CB) #
Preferential use of synonymous codons/codons in the translational process is known as ‘codon usage bias’ or simply ‘codon bias’.
Synonymous codons #
The different codons that code the same amino acid are called ‘synonymous codons’.
Optimized codons #
A gene is highly biased in specific codon usage pattern to synthesis specific amino acid in a protein is often referred as “optimized codons” or “frequent codons”. Its mainly contribute to the “translational selection”.
Codon degeneracy #
More than one codon used to code for single amino acid residues in the protein is called as ‘degeneracy’ of the codons
Major factor for codon bias #
Random genetic drift
Codon bias quantifying methods #
Codon bias indices
Codon preference bias
Frequency of optimal codons
Relative synonymous codon usage
Codon adaptation index
Effective numbers of codons
Synonymous codon usage order
Codon correspondence analysis
Codon context analysis
List of computational tools #
- Behura, S. K. & Severson, D. W. 2013. Codon usage bias: causative factors, quantification methods and genome-wide patterns: with emphasis on insect genomes. Biological Reviews, 88, 49-61.