Plant Breeding and Acclimatization Institute - National Research Institute (IHAR-PIB) in Radzików, Młochów Division, Platanowa St. 19, Młochów, 05-831, Poland.
Department of Plant Sciences, Norwegian University of Life Sciences (NMBU), Ås, Norway.
BMC Plant Biol. 2024 May 8;24(1):375. doi: 10.1186/s12870-024-05089-2.
Potato virus Y (PVY) is among the economically most damaging viral pathogen in production of potato (Solanum tuberosum) worldwide. The gene Ry derived from the wild potato relative Solanum stoloniferum confers extreme resistance to PVY.
The presence and diversity of Ry were investigated in wild relatives of potato (298 genotypes representing 29 accessions of 26 tuber-bearing Solanum species) using PacBio amplicon sequencing. A total of 55 unique Rysto-like sequences were identified in 72 genotypes representing 12 accessions of 10 Solanum species and six resistant controls (potato cultivars Alicja, Bzura, Hinga, Nimfy, White Lady and breeding line PW363). The 55 Rysto-like sequences showed 89.87 to 99.98% nucleotide identity to the Ry reference gene, and these encoded in total 45 unique protein sequences. While Rysto-like26 identified in Alicja, Bzura, White Lady and Rysto-like16 in PW363 encode a protein identical to the Ry reference, the remaining 44 predicted Rysto-like proteins were 65.93 to 99.92% identical to the reference. Higher levels of diversity of the Rysto-like sequences were found in the wild relatives of potato than in the resistant control cultivars. The TIR and NB-ARC domains were the most conserved within the Rysto-like proteins, while the LRR and C-JID domains were more variable. Several Solanum species, including S. antipoviczii and S. hougasii, showed resistance to PVY. This study demonstrated Hyoscyamus niger, a Solanaceae species distantly related to Solanum, as a host of PVY.
The new Rysto-like variants and the identified PVY resistant potato genotypes are potential resistance sources against PVY in potato breeding. Identification of H. niger as a host for PVY is important for cultivation of this plant, studies on the PVY management, its ecology, and migrations. The amplicon sequencing based on PacBio SMRT and the following data analysis pipeline described in our work may be applied to obtain the nucleotide sequences and analyze any full-length genes from any, even polyploid, organisms.
马铃薯 Y 病毒 (PVY) 是全球马铃薯生产中经济上最具破坏性的病毒病原体之一。源自野生马铃薯近缘种 Solanum stoloniferum 的 Ry 基因赋予了对 PVY 的极端抗性。
使用 PacBio 扩增子测序，对马铃薯野生近缘种（代表 26 种产薯茄属 29 个种的 298 个基因型）中的 Ry 进行了存在和多样性调查。在代表 10 种茄属和 6 个抗性对照（马铃薯品种 Alicja、Bzura、Hinga、Nimfy、White Lady 和杂交系 PW363）的 12 个种的 72 个基因型中，共鉴定出 55 个独特的 Ry-like 序列。这 55 个 Ry-like 序列与 Ry 参考基因的核苷酸同一性为 89.87%至 99.98%，共编码 45 个独特的蛋白质序列。虽然 Alicja、Bzura、White Lady 中的 Ry-like26 和 PW363 中的 Ry-like16 编码的蛋白质与 Ry 参考序列相同，但其余 44 个预测的 Ry-like 蛋白与参考序列的同一性为 65.93%至 99.92%。马铃薯野生近缘种中的 Ry-like 序列多样性高于抗性对照品种。Ry-like 蛋白中的 TIR 和 NB-ARC 结构域最保守，而 LRR 和 C-JID 结构域更具变异性。包括 S. antipoviczii 和 S. hougasii 在内的一些茄属植物对 PVY 表现出抗性。本研究表明，与茄属关系较远的茄科植物黑曼陀罗是 PVY 的宿主。
新的 Ry-like 变体和鉴定出的抗 PVY 马铃薯基因型是马铃薯育种中抗 PVY 的潜在抗性来源。鉴定黑曼陀罗为 PVY 的宿主对于该植物的栽培、PVY 的管理、生态学和迁移研究非常重要。我们工作中描述的基于 PacBio SMRT 的扩增子测序和后续数据分析管道可用于从任何生物体（甚至是多倍体）获得核苷酸序列并分析任何全长基因。
