[Bias of base composition and codon usage in pseudorabies virus genes].
The complete sequence of the Pseudorabies Virus (PRV) genomic DNA has not yet been determined, primarily because of the high content of G + C nucleotides of about 74%. We examined the base composition and codon usage of the 68 known PRV genes. As a result, we found a strong bias towards GC-rich codons especially NNC or NNG (N represents any one of four nucleotides) in PRV genes. This demonstrated that the usage bias of synonymous codon and amino acid is the main cause of the high G + C content of PRV. The results showed that the genome regions adjacent UL48, UL40, UL14, IE180 genes where the G + C content occurs as pronounced waves are corresponding to the replication origins. It was also found that the codon usage patterns of regulatory genes are apparently different from other PRV genes. A corresponding analysis of amino acid compositions indicated that the bias of codon usage could be related to the differences of gene function.
Ma
Xiang-Ru
XR
State Key Laboratory of Agricultural Microbiology, Huazhong Agricultural University, Wuhan 430070, China.
Xiao
Shao-Bo
SB
Fang
Liu-Rong
LR
Chen
Huan-Chun
HC
D000596:Amino Acids / Q000235:genetics; D001482:Base Composition; D001483:Base Sequence; D003062:Codon; D005814:Genes, Viral; D016679:Genome, Viral; D011558:Herpesvirus 1, Suid / Q000235:genetics*
D000596:Amino Acids; D003062:Codon