猪瘟病毒E2基因密码子偏爱性分析

Codon Preference Analysis of E2 Gene of Classical Swine Fever Virus

本试验旨在阐明猪瘟病毒(classical swine fever virus,CSFV)囊膜结构(糖)蛋白E2基因的密码子使用规律,以期为选择高效的表达系统、探索基因功能提供理论依据。本研究运用EMBOSS在线分析软件的CHIPS和CUSP程序对CSFV E2基因进行密码子偏爱性分析。结果显示CSFVE2基因的CAI值为0.703,ENC值为53.161,表明E2在密码子使用上存在较明显的偏爱性,且第3位核苷酸尤其偏爱G或C;从与CSFVE2基因密码子使用频率比值上看,使用频率差异较大的在大肠杆菌有33个、酵母有25个、人有25个;CSFVE2基因共有34个稀有密码子,且还有多个稀有密码子多次串联成簇的情况出现。本试验结果表明酵母等真核生物与CSFVE2基因密码子偏爱性较为接近,可作为其体外表达系统。

To provide a preferential host system for gene expression and research gene function of classical swine fever virus(CSFV)structural and envelope protein E2,codon preference of this gene was analyzed by CHIPS and CUSP programs of EMBOSS software.The results showed that CAI and ENC values of E2 gene were 0.703 and 53.161 which had a strong bias in codon preference,and also with a strong bias towards the codons with G or C at the third codon position.There were distinct differences of 33,25 and 25codons frequencies in E.coli,yeast and human,respectively,comparing with CSFV E2.Besides,there were totally 34 rare codons in CSFVE2 gene and serial rare codons being strung together.The results showed that CSFV E2 was closest to yeast in codon usage pattern and yeast should be used as the most suitable expression system for CSFV E2 gene.