摘要
对贵州省六盘水市田间发病小黄姜进行病毒检测,分析小黄姜病毒种类。采用小RNA高通量测序技术结合生物信息学方法对小RNA数据库进行拼接组装,预测小黄姜病毒种类。设计特异性引物,采用反向PCR及分段克隆测序方法验证小黄姜病毒的存在。检测发现有3条拼接序列与DNA杆状病毒属（Badnavirus）中的薯蓣杆状病毒（Dioscorea bacillifrom virus,DBV）相似,氨基酸相似度均高于80%。并在小黄姜样品中扩增得到1 883 bp病毒序列。RT和RNase H基序核苷酸序列与来自古巴的Banana streak virus（Gen Bank登录号：KF386733）相似性最高,为74%。根据目前的国际病毒分类委员会（the international committee on taxonomy of viruses,ICTV）病毒分类方案,Badnavirus病毒中RT和RNase H核苷酸基序相似度低于80%的可划为不同病毒种,该病毒可能是Badnavirus中的一种新病毒,暂命名为小黄姜杆状病毒（Zingiber bacilliform virus）。小黄姜杆状病毒在30个田间小黄姜样品中存在且存在多态性,该病毒可能是一个古老的病毒,在小黄姜进化过程中将病毒基因组整合到小黄姜基因组中来防御杆状病毒属病毒的侵染。
This research was aimed to detect virus strains and identify virus species of pathogenic yellow gingers in the fields of Liupanshui, Guizhou province. A s RNA database was assembled by using the s RNA high-throughput sequencing technology combined with bioinformatics method, to predict species of small yellow ginger virus. The specific primers of virus were designed, and the presence of small yellow ginger virus was verified by the inverse PCR and segmental cloning sequencing method. It was found that 3 contigs were similar to Dioscorea bacillifrom virus（DBV） of DNA badnavirus and the amino acid similarity was more than 80%. Meanwhile, 1 883 bp viral DNA sequence was amplified from ginger samples. The RT and RNase H sequences shared the highest similarity with Cuba＇s Banana streak virus（Genbank accession number： KF386733） in nucleotide level, which was 74%. According to the virus classification scheme of the current international committee on taxonomy of viruses（ICTV）, the similarity of RT and RNase H nucleotide sequences in Badnavirus virus is less than 80%, which can be divided into different virus species. The virus may be a novel virus, temporarily named Zingiber bacilliform virus. Badnavirus were identified in 30 field samples and polymorphism was observed. Zingiber bacilliform virus may be an ancient virus. The virus genome was integrated into Zingiber officinale genome to defend against the Badnavirus infection in the process of evolution.
作者
廖震
赵德刚
赵懿琛
Liao Zhen;Zhao Degang;Zhao Yichen(Key Laboratory of Plant Resources Conservation and Germplasm Innovation in Mountainous Region （Ministry of Education）, Institute of Agro- Bio-engineering and College of Life Sciences, Guizhou University, Guiyang, 550025;College of Pharmacy, Guizhou University, Guiyang, 550025;Guizhou Academy of Agricultural Sciences, Guiyang, 550006)
出处
《基因组学与应用生物学》
CAS
CSCD
北大核心
2018年第6期2417-2422,共6页
Genomics and Applied Biology
基金
贵州省科技计划项目:小黄姜脱菌脱毒种苗快速繁殖技术研究(黔科合LH字(2014)7678)资助
