On the origin of synonymous codon usage divergence between thermophilic and mesophilic prokaryotes.
Synonymous codon usage analysis between thermophilic and mesophilic prokaryotes has gained wide attention in recent years. Although it is known that thermophilic and mesophilic prokaryotes use different subset of synonymous codons, no reason for this difference is known so far. In the present communication, by analyzing a large number of thermophilic and mesophilic prokaryotes, we provide evidence that bias in the selection of synonymous codons between thermophilic and mesophilic prokaryotes is related to differential folding pattern of mRNA secondary structures. Moreover, we observe that error-minimizing property has significant influence in differentiating the synonymous codon usage between thermophilic and mesophilic prokaryotes. Biological implications of these results are discussed.
Basak
Surajit
S
Bioinformatics Centre, Bose Institute, P 1/12, C.I.T. Scheme VII M, Kolkata 700 054, India.
Roy
Sujata
S
Ghosh
Tapash Chandra
TC
D003062:Codon / Q000235:genetics*; D014644:Genetic Variation; D016678:Genome / Q000235:genetics; D011387:Prokaryotic Cells / Q000145:classification* / Q000378:metabolism*; D012333:RNA, Messenger / Q000235:genetics; D013816:Thermodynamics
D003062:Codon; D012333:RNA, Messenger