水产学报2018，Vol.42Issue(2)：216-225,10.DOI:10.11964/jfc.20161210667
基于长片段PCR扩增的牡蛎疱疹病毒基因组高通量测序
Long-range PCR and next generation sequencing of Ostreid herpesvirus genome
摘要
Abstract
To obtain the genome sequence of Ostreid herpesvirus 1 (OsHV-1) infected Zhikong scallop (Chlamys farreri) in 2001 (ZK2001), and its phylogenetic relationship with the other reported variants, the genome DNA of the ZK2001 variant was firstly enriched through long-range PCR, and sequenced with Illumina Hiseq 2500 PE250 platform. Then the variation and phylogenetic relationship between ZK2001 and the other reported variants were analyzed. 8 scaffolds were obtained after assembly. Genome variation analysis indicated that there were 328 SNPs between ZK2001 and the reference genome. SNPs and insert/deletion were the main cause of genome differenti-ation. Phylogenetic inference indicated that ZK2001 variant was more closely related to OsHV-1 variants isolated from China than those from Europe. These results indicated that genetic differentiation had occurred as a result of geographic isolation. This study indicated genomic DNA of OsHV-1, which had been frozen for a long time, could be enriched with long-range PCR and used for high-throughput sequencing. The genomic data of different OsHV-1 variants will be necessary for further study of the genetic variation, evolution and phylogenetic analysis of the virus.关键词
栉孔扇贝/高通量测序/长片段PCR/牡蛎疱疹病毒Key words
Chlamys farreri/next-generation sequencing/long-range PCR/Ostreid herpesvirus 1分类
农业科技引用本文复制引用
史杰,白昌明,李晨,蔡生力,王崇明..基于长片段PCR扩增的牡蛎疱疹病毒基因组高通量测序[J].水产学报,2018,42(2):216-225,10.基金项目
国家自然科学基金(31502208, 31302233) （31502208, 31302233）
现代农业产业技术体系建设专项(CARS-48) （CARS-48）
青岛海洋科学与技术国家实验室鳌山科技创新计划(2015ASKJ02) （2015ASKJ02）
National Natural Science Foundation of China (31502208, 31302233) （31502208, 31302233）
China Agriculture Re-search System (CARS-48) （CARS-48）
Scientific and Technological Innovation Project Financially Supported by Qingdao Na-tional Laboratory for Marine Science and Technology (2015ASKJ02) （2015ASKJ02）
