Isolation,identification and analysis of synonymous codon usage patterns of BVDV-2d strain
This study analyzed a bovine viral diarrhea virus(BVDV)strain isolated from the intestinal contents of di-arrheic calves,and classified it as subtype BVDV-2d for the first time and designated it as 22-Gansu-F3.Through viral isola-tion,identification,and whole-genome sequencing,this study not only explored the pathological changes in the intestines of diarrheic calves,but also analyzed the genetic characteristics of their synonymous codon usage pattern.Our findings revealed a significant reduction in the usage frequency of CpG dinucleotides within open reading frames.Besides,arginine showed no-table suppression of synonymous codon usage containing CpG during the selection process for synonymous codon.To elucidate the genetic features of synonymous codon usage patterns among various functional protein-coding sequences,we compared the usage differences of synonymous codons in different coding sequences and found significant differences in the synonymous codon usage of the Npro and NS4A encoding regions compared to other proteins.Furthermore,the different protein-coding regions of the BVDV-2d strain 22-Gansu-F3 exhibited good adaptability for synonymous codon usage pattern in pigs,sheep,and camels,and provided a potential material basis for the translation of viral proteins in these hosts.The re-search results offer new theoretical insights into the evolutionary dynamics of BVDV subtype 2 in China and serve as an early warning to prevent this subtype from becoming the predominant circulating subtype.
万方数据
维普
