Characterization of viruses and viroids in Vitis vinifera 'Kyoho' in Hangzhou China by small RNA deep sequencing and molecular detection

文献类型： 外文期刊

第一作者： Li, Hongmei

作者： Li, Hongmei;Qin, Cheng;Zhang, Xian;Chen, Weiwei;Lai, Tongfei;Yu, Zhiming;Zhang, Pengcheng;Shi, Nongnong;Wei, Lingzhu;Cheng, Jianhui;Wu, Jiang

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关键词： Vitis vinifera ‘ Kyoho’ sRNA-seq; RT-PCR and sequencing; viruses and viroid; CCaVd-Kyoho-1 and CCaVd-Kyoho-2

期刊名称：JOURNAL OF HORTICULTURAL SCIENCE & BIOTECHNOLOGY （ 影响因子：1.641； 五年影响因子：1.616 ）

ISSN： 1462-0316

年卷期： 2021 年 96 卷 3 期

页码：

收录情况： SCI

摘要： High throughput sequencing of small RNA and RT-PCR revealed that Vitis vinifera 'Kyoho', the main grapevine cultivar in Hangzhou, China, was co-infected with at least three viruses, namely grapevine leafroll-associated virus 3 (GLRaV-3), grapevine geminivirus A (GGVA), and grapevine fleck virus (GFkV), and five viroids, namely hop stunt viroid (HSVd), citrus viroid II (CVd-II), grapevine yellow speckle viroid 1 (GYSVd-1), grapevine yellow speckle viroid 2 (GYSVd-2), and citrus cachexia viroid (CCaVd). Additionally, two new isolates of citrus cachexia viroid, i. e. CCaVd-Kyoho-1 and CCaVd-Kyoho-2, were co-identified. These two isolates consist of 296 and 300 full nucleotides, respectively, with 2.7%-5.0% and 4.6%-6.9% variations individually compared to other CCaVd isolates, and 5.8%-6.1% variations to CVd-II and HSVd in the NCBI database. Point mutations in the form of transitions and transversions, A/T deletions, and A/C insertions were identified. These mutations were mainly distributed in the pathogenic and variation regions. Phylogenetic analysis showed that the two local CCaVd isolates are located in the new evolution clade and could be new members of HSVd in the family Pospiviroidae existing in the grapevine cultivar 'Kyoho'.

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