Gene expressivity is the main factor in dictating the codon usage variation among the genes in Pseudomonas aeruginosa.
Codon usage biases of all DNA sequences (length greater than or equal to 300 bp) from the complete genome of Pseudomonas aeruginosa have been analyzed. As P. aeruginosa is a GC-rich organism, G and/or C are expected to predominate in their codons. Overall codon usage data analysis indicates that indeed codons ending in G and/or C are predominant in this organism. But multivariate statistical analysis indicates that there is a single major trend in the codon usage variation among the genes in this organism, which has a strong negative correlation with the expressivities of the genes. The majority of the lowly expressed genes are scattered towards the positive end of the major axis whereas the highly expressed genes are clustered towards the negative end. This is the first report where the prokaryotic organism having highly skewed base composition is dictated mainly by translational selection, though some other factors such as the lengths of the genes as well as the hydrophobicity of genes also influence the codon usage variation among the genes in this organism in a minor way.
Gupta
S K
SK
Distributed Information Centre, Bose Institute, P 1/12, C.I.T. Scheme, VII M, Calcutta 700 054, India.
Ghosh
T C
TC
D003062:Codon; D015870:Gene Expression; D014644:Genetic Variation; D016680:Genome, Bacterial; D015999:Multivariate Analysis; D011550:Pseudomonas aeruginosa / Q000235:genetics*
D003062:Codon