基于密码子偏性对应分析数据的牛病毒性腹泻病毒分型研究

Bovine viral diarrhea virus typing identification based on codon bias correspondence analysis data

【目的】牛病毒性腹泻病毒(BVDV)的分型对于阐明病毒的致病机理、分析其流行规律以及其进化意义重大,本文旨在探索一种基于密码子使用偏性的BVDV分型鉴定方法.【方法】应用CodonW计算102株不同BVDV病毒株基因组序列的相对同义密码子使用度(RSCU)等相关参数,并用Excel和STATISTICA软件对其中的对应分析数据进行统计分析,对BVDV毒株在密码子使用偏性方面的差异进行聚类,将结果与基于BVDV RNA聚合酶基因和5′非翻译区序列的分子进化树进行比较.【结果】分析表明,BVDV的对应分析数据分布相对集中于不同象限中,具有型特异性;密码子偏性表现高度的型内相似性,BVDV-1、BVDV-2、BVDV-3分别聚集成一类,与分子进化树分析结果一致.【结论】结果提示,基于密码子使用偏性对应分析数据的聚类分析可以应用于BVDV的分型研究.

【Objective】 The classification of bovine viral diarrhea virus(BVDV) is of great significance for elucidating the pathogenesis of the virus,analyzing its epidemiology and the evolution.The purpose of this study is to explore a BVDV typing method based on codon usage bias.【Method】 The genome sequences of 102 different BVDV strains were applied to calculate relative synonymous codon usage(RSCU) and other related parameters with CodonW,then the corresponding analytical data were statistically analyzed by Excel and STATISTICA.In addition,the differences in codon usage bias of the BVDV strain were clustered and the results were compared with phylogenetic tree based on RNA polymerase gene and the 5′ untranslated region sequence of BVDV.【Result】 The results showed that the distribution of corresponding analysis data of BVDV was relatively concentrated in different quadrants;BVDV showed high intra-type similarity in codon bias,and BVDV-1,BVDV-2 and BVDV-3 were clustered into one class,which was consistent with molecular phylogenetic tree analysis.【Conclusion】 In conclusion,cluster analysis based on codon usage bias correspondence analysis data can be applied to the classification of BVDV.