Compositional variation in bacterial genes and proteins with potential expression level.
Usage of guanine and cytosine at three codon sites in eubacterial genes vary distinctly with potential expressivity, as predicted by Codon Adaptation Index (CAI). In bacteria with moderate/high GC-content, G(3) follows a biphasic relationship, while C(3) increases with CAI. In AT-rich bacteria, correlation of CAI is negative with G(3), but non-specific with C(3). Correlations of CAI with residues encoded by G-starting codons are positive, while with those by C-starting codons are usually negative/random. Average Size/Complexity Score and aromaticity of gene-products decrease with CAI, confirming general validity of cost-minimization principle in free-living eubacteria. Alcoholicity of bacterial gene-products usually decreases with expressivity.
Das
Sabyasachi
S
Bioinformatics Center, Indian Institute of Chemical Biology, 4, Raja S.C. Mullick Road, Kolkata 700 032, India.
Ghosh
Subhagata
S
Pan
Archana
A
Dutta
Chitra
C
D000596:Amino Acids; D001426:Bacterial Proteins / Q000235:genetics / Q000378:metabolism; D003062:Codon; D015964:Gene Expression Regulation, Bacterial; D005798:Genes, Bacterial; D008969:Molecular Sequence Data; D016366:Open Reading Frames
D000596:Amino Acids; D001426:Bacterial Proteins; D003062:Codon