Al Rwahnih Maher, Alabi Olufemi J, Westrick Nathaniel M, Golino Deborah, Rowhani Adib
First, third, fourth, and fifth authors: Department of Plant Pathology, University of California, Davis, 95616; and second author: Department of Plant Pathology & Microbiology, Texas A&M AgriLife Research and Extension Center, Weslaco 78596.
Phytopathology. 2017 Feb;107(2):240-251. doi: 10.1094/PHYTO-07-16-0282-R. Epub 2016 Nov 16.
A novel virus was detected in grapevines by Illumina sequencing during the screening of two table grape (Vitis vinifera) accessions, cultivars Black Beet and Nagano Purple, from South Korea. The monopartite circular ssDNA genome sequence was subsequently confirmed by rolling cycle amplification, cloning and Sanger sequencing. The complete viral genomic sequence from both accessions ranged from 2,903 to 2,907 nucleotides in length and contained the conserved nonanucleotide sequence TAATATT↓AC and other sequence features typical of the family Geminiviridae, including two predicted sense and four complementary-sense open reading frames. Phylogenetic analysis placed the novel virus in a unique taxon within the family Geminiviridae. A naturally occurring defective subviral DNA was also discovered. This defective DNA molecule carried a deletion of approximately 46% of the full-length genome. Both the genomic and defective DNA molecules were graft-transmissible although no disease is yet correlated with their occurrence in Vitis spp. The tentative names Grapevine geminivirus A (GGVA) and GGVA defective DNA (GGVA D-DNA) are proposed. PCR assays developed using primers designed in the coat protein gene led to the detection of GGVA in 1.74% of 1,262 vines derived from 15 grapevine cultivars from six countries across three continents.
在对来自韩国的两个鲜食葡萄（欧亚种葡萄）品种黑甜菜和长野紫进行筛选时，通过Illumina测序在葡萄藤中检测到一种新型病毒。随后通过滚环扩增、克隆和桑格测序确认了单分体环状ssDNA基因组序列。两个品种的完整病毒基因组序列长度在2903至2907个核苷酸之间，包含保守的九核苷酸序列TAATATT↓AC以及双生病毒科典型的其他序列特征，包括两个预测的正义开放阅读框和四个互补正义开放阅读框。系统发育分析将这种新型病毒置于双生病毒科内的一个独特分类单元中。还发现了一种天然存在的缺陷亚病毒DNA。这种缺陷DNA分子全长基因组缺失约46%。尽管在葡萄属植物中尚未发现与它们的出现相关的病害，但基因组和缺陷DNA分子都可通过嫁接传播。建议将其暂定名称命名为葡萄双生病毒A（GGVA）和GGVA缺陷DNA（GGVA D-DNA）。使用在外壳蛋白基因中设计的引物开发的PCR检测方法，在来自三大洲六个国家的15个葡萄品种的1262株葡萄藤中，有1.74%检测到了GGVA。
