Raspberry bushy dwarf virus (RBDV), recently renamed to Idaeovirus rubi, is one of the most common viruses infecting Rubus species worldwide but there is still a limited number of genome sequences available in the GenBank database and the majority of the sequences include partial sequences of RNA-1 and RNA-2. The distribution and incidence of RBDV in main raspberry and blackberry growing provinces in Turkey were monitored during 2015–2019 and 537 Rubus spp. samples were tested by both DAS-ELISA and RT-PCR. Among the tested samples, 36 samples tested positive for RBDV by DAS-ELISA and 67 samples by RT-PCR. There was relatively low nucleotide diversity among the Turkish isolates. Turkish isolates shared 93%–97.7%, 84.3%–98.9%, and 85%–99.2% nucleotide sequence identities with available sequences in the GenBank, in partial RNA-1, movement protein (MP) and coat protein (CP) genes, respectively. In the phylogenetic tree constructed for RNA-1, MP, and CP sequences, all Turkish raspberry isolates were clustered in a distinct clade. However, the blackberry isolates showed considerable variation in nucleotide sequences and were placed in three distinct groups. The divergent blackberry isolates showed high variability in MP (84.5%–89.3%) and CP (85.5%–89.7%) regions and were placed in a distinct group. The rest of blackberry isolates clustered together with sweet cherry RBDV isolates adjacent to the grapevine clade or together with raspberry isolates. The comparative analysis conducted on three RNA segments of RBDV highlighted the high sequence diversity of Turkish RBDV isolates. This study also emphasizes the importance of regular monitoring of RBDV infections in Turkey, with special regard to those Rubus spp. and grapevine accessions employed in conservation and selection programmes. In particular, the presence of new RBDV genetic variants and infection of Rubus species must be taken into account to choose a correct detection protocol and management strategy.

中文翻译：

---

覆盆子丛生矮化病毒（RBDV）在悬钩子属中的发病率和遗传多样性。在土耳其

覆盆子丛矮病毒 (RBDV)，最近更名为Idaeovirus rubi ，是世界范围内感染悬钩子属物种的最常见病毒之一，但 GenBank 数据库中可用的基因组序列数量仍然有限，并且大多数序列包括以下部分序列RNA-1 和 RNA-2。2015-2019 年期间，对土耳其主要覆盆子和黑莓种植省份的 RBDV 分布和发病率进行了监测，并对 537 个悬钩子属植物进行了监测。样品通过 DAS-ELISA 和 RT-PCR 进行测试。在检测的样本中，DAS-ELISA检测出36个样本呈RBDV阳性，RT-PCR检测出67个样本呈RBDV阳性。土耳其分离株的核苷酸多样性相对较低。土耳其分离株在部分 RNA-1、运动蛋白 (MP) 和外壳蛋白 (CP) 基因中与 GenBank 中的可用序列具有 93%–97.7%、84.3%–98.9% 和 85%–99.2% 的核苷酸序列同一性。分别。在为 RNA-1、MP 和 CP 序列构建的系统发育树中，所有土耳其覆盆子分离株都聚集在一个不同的进化枝中。然而，黑莓分离株在核苷酸序列上表现出相当大的变异，并被分为三个不同的组。不同的黑莓分离株在 MP (84.5%–89.3%) 和 CP (85.5%–89.7%) 区域表现出高度变异性，并被分为不同的组。其余黑莓分离株与邻近葡萄分支的甜樱桃 RBDV 分离株聚集在一起，或与覆盆子分离株聚集在一起。对 RBDV 的三个 RNA 片段进行的比较分析突显了土耳其 RBDV 分离株的高度序列多样性。这项研究还强调了定期监测土耳其 RBDV 感染的重要性，特别是悬钩子属（Rubus spp）。以及用于保护和选择计划的葡萄品种。特别是，必须考虑新的 RBDV 遗传变异的存在和悬钩子属物种的感染，以选择正确的检测方案和管理策略。