一株鲤春病毒血症病毒SVCV-shlj4全基因组序列分析  

Complete genomic sequence of a spring virernia of carp virus SVCV-shlj4 isolated from common carp Cyprinus carpio in China

作　　者：林婧楠 徐黎明[1] 赵景壮[1] 任广明[1] 卢彤岩[1] LIN Jingnan;XU Liming;ZHAO Jingzhuang;REN Guangming;LU Tongyan(Heilongjiang River Fisheries Research Institute, Chinese Academy of Fishery Sciences, Harbin 150070, China)

机构地区：[1]中国水产科学研究院黑龙江水产研究所,黑龙江哈尔滨150070

出　　处：《大连海洋大学学报》2020年第5期707-713,共7页Journal of Dalian Ocean University

基　　金：中央级公益性事业单位基本科研业务费专项(2018GH16)。

摘　　要：为了分析中国北方地区现行的一株鲤春病毒血症病毒(Spring Virernia of Carp Virus,SVCV)SVCV-shlj4全基因组序列,根据GenBank收录的SVCV参考毒株(SVCV-A2,DQ491000.1)基因序列设计了3对重叠引物,对SVCV-shlj4毒株基因组编码区进行扩增,利用RACE试剂盒对该基因组5′和3′非编码区(Untranslated region,UTR)进行扩增,并利用DNAstar软件对测得的序列进行拼接,获得完整的SVCV-shlj4全基因组,结合Lasergene及MEGA 5.1生物信息学软件对该病毒基因组及其编码的核蛋白、糖蛋白和磷蛋白基因序列进行系统进化分析。结果表明:SVCV-shlj4毒株基因组全长为11029 bp,共编码5种结构蛋白(3′端-5′端),分别为核蛋白(Nuclear protein,N)、磷蛋白(Phosphoprotein,P)、基质蛋白(Matrix protein,M)、糖蛋白(Glycoprotein,G)和RNA聚合酶(RNA polymerase,L);基因组序列系统进化分析显示,SVCV-shlj4毒株与中国株SVCV-A2的核苷酸序列一致性最高(99.0%),与欧洲株VR-1390核苷酸序列一致性最低(93.0%);编码M蛋白、G蛋白和P蛋白的基因序列进化分析结果显示,SVCV-shlj4毒株在进化上处于亚洲分支,属于Ⅰa基因型,Ⅰaii基因亚型;SVCV-shlj4毒株各基因变异位点分析显示,与中国株SVCV-A1相比,SVCV-shlj4毒株在N基因编码区第1357、1364和1376 nt位点分别缺失1个碱基,在G基因3′端非编码区4630 nt位点和4639 nt位点分别缺失两段基因序列(44 bp和31 bp),与欧洲株VR-1390相比,SVCV-shlj4毒株在G基因3′端非编码区(4637 nt位点)插入10 bp的基因片段,与中国株BJ0505-2相比,SVCV-shlj4毒株在L基因编码区(5822 nt位点)缺失18 bp碱基。本研究系统地分析了中国北方地区现行SVCV分离株的分子特征,为SVCV分子进化研究提供了数据支撑。Three pairs of overlapped primers were designed to amplify the coding sequences(CDS)of spring virernia of carp virus(SVCV)(designated as SVCV-shlj4)genome according to genome of SVCV-A2(DQ491000.1)strain in the GenBank to analyze the complete genomic sequence of a current SVCV isolated in northern China.RACE Kit was used to clone the non-coding regions of the genome 5′untranslated region(UTR)and 3′UTR.The total genomic sequences of SVCV-shlj4 were spliced by DNAstar software,and phylogenetic analysis was performed based on the genome and its encoded matrix protein,glycoprotein and phosphoprotein by Lasergene and MEGA5.1 software.The complete genome of SVCV-shlj4 strain was shown to be 11029 bp in length,and to code five structural proteins from the 3′end to the 5′end,encoding nuclear proteins(N),phosphoprotein(P),matrix protein(M),glycoprotein(G)and RNA polymerase(L).The phylogenetic analysis of complete genomic sequence showed that SVCV-shlj4 had the maximal genome similarity of 99.0%with that of a Chinese SVCV-A2 strain,and had the minimal genome similarity of 93.0%with a European SVCV VR-1390 strain.The phylogenetic analysis based on the N protein,G protein and P protein revealed that the SVCV-shlj4 strain clustered into the Asian branch,belonged to the Iaii subgenogroups within the Ia genogroup.Compared with the Chinese strain SVCV-A1,SVCV-shlj4 lacked 1 bp in the 1357,1364 and 1376 nt sites of the N protein gene coding region,and two gene fragments(44 bp and 31 bp)were deleted from the 4630 and 4639 nt sites in the 3′non-coding region of the G gene.SVCV-shlj4 inserted a 10 bp gene fragment in the 3′non-coding region of the G gene(4637 nt site)compared with the European strain VR-1390,and lacked 18 bp in the coding region of the L protein gene(5822 nt site)compared with the Chinese SVCV BJ0505-2 strain.In present experiment,the molecular genetic characteristics of the current prevalent strain(SVCV-shlj4)in northern China were systematically analyzed which provided data support with the research on

关 键 词：弹状病毒 鲤春病毒血症病毒 基因组 基因型 

分 类 号：Q783[生物学—分子生物学]