CAJ | 학술논문

运用Codon W、ClustalX、TreeView软件及EMBOSS(The European Molecular Biology Open Software Suite)、CIMMiner在线分析软件对选取的29株PRRSV ORF1a基因进行密码子偏爱性聚类分析.CAI、CBI、Fop、Nc、GC3s和GC含量、基因长度等相关性分析显示PRRSV各毒株编码的ORF1a基因密码子偏爱性各有差异,其中Lelystad virus、LV4.2.1、VR-2332、RespPRRS MLV与国内分离的高致病性PRRSV变异株之间差异较大.密码子使用概率聚类分析表明CC-1、NVSL-97-7895、CH-1a、BespPRRS MLV、LV4.2.1、Lelystad virus 与高致病性PRRSV变异株距离较远,而国内分离株相互间的聚类距离则较接近,此结果与基于氨基酸序列比对构建的系统进化树图谱基本一致.由此可见,PRRSV病毒ORF1a基因密码子使用偏爱性的差别与病毒的遗传多样性密切相关.
운용Codon W、ClustalX、TreeView연건급EMBOSS(The European Molecular Biology Open Software Suite)、CIMMiner재선분석연건대선취적29주PRRSV ORF1a기인진행밀마자편애성취류분석.CAI、CBI、Fop、Nc、GC3s화GC함량、기인장도등상관성분석현시PRRSV각독주편마적ORF1a기인밀마자편애성각유차이,기중Lelystad virus、LV4.2.1、VR-2332、RespPRRS MLV여국내분리적고치병성PRRSV변이주지간차이교대.밀마자사용개솔취류분석표명CC-1、NVSL-97-7895、CH-1a、BespPRRS MLV、LV4.2.1、Lelystad virus 여고치병성PRRSV변이주거리교원,이국내분리주상호간적취류거리칙교접근,차결과여기우안기산서렬비대구건적계통진화수도보기본일치.유차가견,PRRSV병독ORF1a기인밀마자사용편애성적차별여병독적유전다양성밀절상관.
Cluster analysis of the codon usage bias of 29 PRRSV ORF1a gene was performed by using bioinformatics software including Codon W, EMBOSS, CIMMine, ClustalX and TreeView. Correlation analysis for CAI, CBI, Fop, Nc, Length, GC3s and GC content showed that there existed disparity in ORF1a gene codon usage bias of different PRRSV strains, especially when comparing strain Lelystad, LV4.2.1, VR-2332, RespPRRS MLV with highly pathogenic PRRSV ones isolated from China. Cluster analysis of the ORF1a gene condon usage frequency demonstrated that the highly pathogenic PRRSV strains were more closely related to each other than to CC-1, NVSL-97-7895, CH-1a, RespPRRS MLV, LV4.2.1 and Lelystad virus strains, which was compatible to the amino acid sequences phylogenetic analysis result. In summary, it can be concluded that the codon usage bias of the PRRSV ORF1a gene was highly correlated with the virus genetic diversity of PRRSV strains.