University of Science and Technology of Hanoi, Vietnam Academy of Science and Technology, Hanoi, Vietnam.
Institute of Biotechnology, Vietnam Academy of Science and Technology, Hanoi, Vietnam.
Funct Integr Genomics. 2024 Aug 20;24(5):141. doi: 10.1007/s10142-024-01422-y.
Rice root system plays a crucial role in plant adaptation under adverse conditions, particularly drought stress. However, the regulatory gene networks that govern rice root development during stress exposure remain largely unexplored. In this study, we applied a QTL sequencing method to identify QTL/gene controlling the crown root development under Jasmonic acid simulation using the Bulk-segregant analysis. Two rice cultivars with contrasting phenotypes from the Vietnamese traditional rice collection were used as parent pairs for crossing. The single-seed descent method was employed to generate an F2 population of progenies. This F2/3 population was further segregated based on root count under JA stress. Pooled DNA from the two extreme groups in this population was sequenced, and SNP indexes across all loci in these pools were calculated. We detected a significant genomic region on chromosome 10, spanned from 20.39-20.50 Mb, where two rice RLKs were located, OsPUB54 and OsPUB58. Receptor-like kinases (RLKs) are pivotal in regulating various aspects of root development in plants, and the U-box E3 ubiquitination ligase class was generally known for its degradation of some protein complexes. Notably, OsPUB54 was strongly induced by JA treatment, suggesting its involvement in the degradation of the Aux/IAA protein complex, thereby influencing crown root initiation. Besides, the Eukaryotic translation initiation of factor 3 subunit L (eIF3l) and the Mitogen-activated protein kinase kinase kinase 37 (MAPKKK 37) proteins identified from SNPs with high score index which suggests their significant roles in the translation initiation process and cellular signaling pathways, respectively. This information suggests several clues of how these candidates are involved in modifying the rice root system under stress conditions.
水稻根系在逆境条件下的植物适应中起着至关重要的作用，特别是在干旱胁迫下。然而，调控水稻根系在胁迫下发育的基因调控网络在很大程度上仍未被探索。在这项研究中，我们应用 QTL 测序方法，使用 Bulk-segregant 分析鉴定茉莉酸模拟下控制冠根发育的 QTL/基因。我们使用来自越南传统水稻收集的两个表型相反的水稻品种作为亲本进行杂交。采用单粒传代法生成 F2 后代群体。然后根据 JA 胁迫下的根计数对这个 F2/3 群体进行进一步的分离。从这个群体中两个极端组的 pooled DNA 被测序，并且计算了这些 pool 中所有位点的 SNP 索引。我们在第 10 号染色体上检测到一个显著的基因组区域，跨度为 20.39-20.50 Mb，其中包含两个水稻 RLKs，OsPUB54 和 OsPUB58。类受体激酶（RLKs）在调节植物根系发育的各个方面起着关键作用，而 U-box E3 泛素连接酶类通常因其降解一些蛋白质复合物而闻名。值得注意的是，OsPUB54 被 JA 处理强烈诱导，表明它参与 Aux/IAA 蛋白复合物的降解，从而影响冠根的起始。此外，从 SNP 中鉴定出的真核翻译起始因子 3 亚基 L (eIF3l) 和丝裂原活化蛋白激酶激酶激酶 37 (MAPKKK 37) 蛋白具有较高的得分指数，表明它们在翻译起始过程和细胞信号通路中分别具有重要作用。这些信息表明了这些候选基因如何在修饰水稻根系应对胁迫条件下的一些线索。
