家蚕核型多角体病毒CQ1分离株与T3株的单核苷酸多态性分析（英文）  

Study on Inter-isolate Single Nucleotide Polym orphism s(SNPs) of Bombyx mori Nucleopolyhedrovirus CQ1 Isolate Referenced with T3 Strain from Japan

作　　者：潘国庆[1,2] 李田[1,2] 许金山[3] 张永华[1,2] 倪琪[1,2] 周泽扬[1,2,3] 

机构地区：[1]家蚕基因组生物学国家重点实验室西南大学,重庆400715 [2]农业部蚕桑学重点开放实验室,重庆400715 [3]重庆师范大学生命科学学院,重庆400026

出　　处：《蚕业科学》2016年第3期450-457,共8页ACTA SERICOLOGICA SINICA

基　　金：国家重点基础研究发展计划"973"项目(No.2012CB11460-4);中央高校基本科研业务费专项(No.XDJK2015A010)

摘　　要：依据基因组中的单核苷酸多态性(SNPs)位点对不同来源家蚕核型多角体病毒(Bm NPV)进行地理株系溯源,有利于Bm NPV的分子流行病学研究以及对病害流行的预防性控制。采用霰弹法对Bm NPV重庆分离株CQ1进行全基因组测序,获得了1 052条reads序列,测序深度为3.5倍,覆盖基因组95%以上的区域。采用生物信息学方法,将这些序列与Bm NPV日本分离株T3的基因组序列进行比对分析,在2个株系间共鉴定获得400个候选SNPs。与T3株基因组唯一位点匹配的386个SNPs中,有77%的SNPs属于转换,23%的SNPs属于颠换;15个SNPs位于基因间区,其余都分布在基因编码区;115个非同义SNPs(c SNPs)分布于67个基因的编码序列中,其中11个基因有至少3个非同义SNPs,例如CQ1分离株的非必需基因orf74有5个非同义SNPs。结构预测显示,CQ1分离株的几丁质酶基因中3个非同义SNPs引起变化的氨基酸位点均位于几丁质酶的三维结构表面。研究结果表明,Bm NPV CQ1和Bm NPV T3株系之间存在丰富的单核苷酸多态性。Investigating the geographical origin of BmNPV from different sources based on single nucleotide polymorphisms （SNPs） would facilitate the molecular epidemiologic study and preventive control of disease epidemic of BmNPV. In this study, BmNPV isolate CQ1 from Chongqing, China was sequenced with shot-gun strategy. The total lengths of as- sembled contigs was nearly 3.5 fold genome equivalent of BmNPV and covered more than 95% of the whole genome of BmNPV T3 strain from Japan. Based on bioinformatic analysis, 400 candidate SNPs were discovered in BmNPV CQ1 isolate compared with genome sequence of BmNPV T3 strain, 386 of which were located to unique positions of BmNPV T3 genome. 77% of SNPs were transitions and 23% of SNPs were transversions. Fifteen SNPs were located in intergenic regions, the rest of them were distributed on coding sequences. 115 SNPs were asynonymous and distributed in 67 coding sequences. Eleven genes owned at least three asynonymous SNPs. As a non-essential gene, ort74 of BmNPV CQ1 isolate possesses five asynonymous SNPs. The three changed amino acid of chitinase resulted from asynonymous SNPs were predicted to localize on the surface of 3-dimensional structure. These findings indicate that abundant polymorphisms exist between BmNPV CQ1 isolate and T3 strain.

关 键 词：家蚕核型多角体病毒 Bm90基因 λRed重组系统 BAC-TO-BAC系统 病毒增殖 病毒组装 

分 类 号：S884.5[农业科学—特种经济动物饲养]