Department of Genetics and Biotechnology, Faculty of Biology, Saint Petersburg State University, 199034 Saint Petersburg, Russia.
All-Russia Research Institute for Agricultural Microbiology, 190608 Saint Petersburg, Russia.
Int J Mol Sci. 2024 Jun 5;25(11):6236. doi: 10.3390/ijms25116236.
Spontaneous tumour formation in higher plants can occur in the absence of pathogen invasion, depending on the plant genotype. Spontaneous tumour formation on the taproots is consistently observed in certain inbred lines of radish ( var. Pers.). In this paper, using Oxford Nanopore and Illumina technologies, we have sequenced the genomes of two closely related radish inbred lines that differ in their ability to spontaneously form tumours. We identified a large number of single nucleotide variants (amino acid substitutions, insertions or deletions, SNVs) that are likely to be associated with the spontaneous tumour formation. Among the genes involved in the trait, we have identified those that regulate the cell cycle, meristem activity, gene expression, and metabolism and signalling of phytohormones. After identifying the SNVs, we performed Sanger sequencing of amplicons corresponding to SNV-containing regions to validate our results. We then checked for the presence of SNVs in other tumour lines of the radish genetic collection and found the gene, which had the SNVs in the majority of tumour lines. Furthermore, we performed the identification of the () and () genes and, as a result, identified two unique radish genes which probably encode proteins with multiple CLE domains. The results obtained provide a basis for investigating the mechanisms of plant tumour formation and also for future genetic and genomic studies of radish.
在没有病原体入侵的情况下，高等植物的自发肿瘤形成可以发生，这取决于植物的基因型。在某些萝卜（ var. Pers.）的自交系中，始终观察到主根的自发肿瘤形成。在本文中，我们使用牛津纳米孔和 Illumina 技术对两种在自发肿瘤形成能力上存在差异的近交系萝卜进行了基因组测序。我们鉴定了大量可能与自发肿瘤形成相关的单核苷酸变体（氨基酸取代、插入或缺失，SNVs）。在所涉及的基因中，我们鉴定了那些调节细胞周期、分生组织活性、基因表达以及植物激素代谢和信号转导的基因。在鉴定出 SNVs 后，我们对含有 SNV 的区域的扩增子进行了 Sanger 测序，以验证我们的结果。然后，我们检查了萝卜遗传资源库中其他肿瘤系中是否存在 SNVs，并发现了该基因，该基因在大多数肿瘤系中都存在 SNVs。此外，我们还进行了 () 和 () 基因的鉴定，结果鉴定出两个独特的萝卜 () 基因，它们可能编码具有多个 CLE 结构域的蛋白质。所获得的结果为研究植物肿瘤形成的机制提供了基础，也为萝卜的未来遗传和基因组研究提供了基础。
