Department of Plant Protection, College of Agriculture, University of Hatay Mustafa Kemal, Hatay, Turkey.
Department of Plant Protection, College of Agriculture, University of Maragheh, Maragheh, Iran.
Virus Res. 2020 Sep;286:198078. doi: 10.1016/j.virusres.2020.198078. Epub 2020 Jun 27.
A novel plant virus was identified by high-throughput sequencing analysis from a raspberry plant showing slight mottling symptom. The complete genome sequence of this virus is 8645 nucleotides long, including the 5' and 3' UTRs. Its genome contains five ORFs and is very close to members of the genus Foveavirus (Quinvirinae, Betaflexiviridae) in terms of genome organization, TGB presence and the sizes of the RdRp and CP proteins. The novel virus shares 33.5-51.3 % and 23.3-41.3 % nucleotide identity to other genera of the Betaflexifiviridae family based on polymerase (RdRp) and CP genes, respectively. Compared to other foveavirus species, the RdRp protein showed the highest sequence identity (45.3 %) to the RdRp of peach chlorotic mottle virus (PCMV) while the maximal sequence identity for the CP protein was 33.9 % with grapevine rupestris stem pitting-associated virus (GRSPaV). The low nucleotide and amino acid sequence identity with known foveaviruses indicated that it was a novel virus, for which the provisional name "rubus virus 1 (RuV1)" is proposed. The phylogenetic analysis supports the assignment of this virus as a new species of the genus Foveavirus. A survey of 537 Rubus spp. samples grown in six provinces of Turkey, including some symptomatic samples, showed a RuV1 prevalence of 2.2 %, confirming its presence in both raspberry and blackberry plants in a single province, although no obvious association between virus infection and specific symptoms was found.
高通量测序分析从表现出轻微斑驳症状的覆盆子植株中鉴定出一种新型植物病毒。该病毒的完整基因组序列长 8645 个核苷酸，包括 5'和 3'UTR。其基因组包含五个 ORF，在基因组组织、TGB 存在以及 RdRp 和 CP 蛋白的大小方面与 Foveavirus 属（Quinvirinae，Betaflexiviridae）的成员非常接近。新型病毒在聚合酶（RdRp）和 CP 基因上与贝塔弗利西弗病毒科的其他属分别共享 33.5-51.3%和 23.3-41.3%的核苷酸同一性。与其他 foveavirus 种相比，RdRp 蛋白与桃绿斑驳病毒（PCMV）的 RdRp 显示出最高的序列同一性（45.3%），而 CP 蛋白与葡萄岩斑病毒（GRSPaV）的最大序列同一性为 33.9%。与已知的 foveavirus 低核苷酸和氨基酸序列同一性表明它是一种新型病毒，建议暂定名为“覆盆子病毒 1（RuV1）”。系统发育分析支持将该病毒归类为 Foveavirus 属的一个新种。对土耳其六个省种植的 537 个悬钩子属样本（包括一些有症状的样本）的调查显示，RuV1 的流行率为 2.2%，证实了它在单个省份的覆盆子和黑莓植物中均存在，尽管未发现病毒感染与特定症状之间存在明显关联。
