Lv Shuwei, Tang Xuan, Jiang Liqun, Zhang Jing, Sun Bingrui, Liu Qing, Mao Xingxue, Yu Hang, Chen Pingli, Chen Wenfeng, Fan Zhilan, Li Chen
Rice Research Institute, Guangdong Academy of Agricultural Sciences, Guangdong Key Laboratory of New Technology in Rice Breeding, Guangdong Rice Engineering Laboratory, Key Laboratory of Genetics and Breeding of High Quality Rice in Southern China (Co-Construction By Ministry and Province), Ministry of Agriculture and Rural Affairs, Guangzhou, 510640, China.
Rice (N Y). 2024 May 13;17(1):34. doi: 10.1186/s12284-024-00713-z.
Plant metabolites including anthocyanins play an important role in the growth of plants, as well as in regulating biotic and abiotic stress responses to the environment. Here we report comprehensive profiling of 3315 metabolites and a further metabolic-based genome-wide association study (mGWAS) based on 292,485 SNPs obtained from 311 rice accessions, including 160 wild and 151 cultivars. We identified hundreds of common variants affecting a large number of secondary metabolites with large effects at high throughput. Finally, we identified a novel gene namely OsLSC6 (Oryza sativa leaf sheath color 6), which encoded a UDP 3-O-glucosyltransferase and involved in the anthocyanin biosynthesis of Cyanidin-3-Galc (sd1825) responsible for leaf sheath color, and resulted in significant different accumulation of sd1825 between wild (purple) and cultivars (green). The results of knockout transgenic experiments showed that OsLSC6 regulated the biosynthesis and accumulation of sd1825, controlled the purple leaf sheath. Our further research revealed that OsLSC6 also confers resistance to cold stress during the seedling stage in rice. And we identified that a SNP in OsLSC6 was responsible for the leaf sheath color and chilling tolerance, supporting the importance of OsLSC6 in plant adaption. Our study could not only demonstrate that OsLSC6 is a vital regulator during anthocyanin biosynthesis and abiotic stress responses, but also provide a powerful complementary tool based on metabolites-to-genes analysis by mGWAS for functional gene identification andpromising candidate in future rice breeding and improvement.
包括花青素在内的植物代谢产物在植物生长以及调节对环境的生物和非生物胁迫反应中发挥着重要作用。在此，我们报告了对3315种代谢产物的全面分析，以及基于从311份水稻种质（包括160份野生稻和151份栽培品种）获得的292,485个单核苷酸多态性（SNP）进行的进一步基于代谢的全基因组关联研究（mGWAS）。我们在高通量水平上鉴定出数百个影响大量次生代谢产物的常见变异，其效应较大。最后，我们鉴定出一个新基因，即OsLSC6（水稻叶鞘颜色6），它编码一种UDP 3-O-葡萄糖基转移酶，参与负责叶鞘颜色的矢车菊素-3-半乳糖苷（sd1825）的花青素生物合成，并导致野生型（紫色）和栽培品种（绿色）之间sd1825的积累存在显著差异。基因敲除转基因实验结果表明，OsLSC6调节sd1825的生物合成和积累，控制紫色叶鞘。我们的进一步研究表明，OsLSC6在水稻幼苗期也赋予对冷胁迫的抗性。并且我们确定OsLSC6中的一个SNP负责叶鞘颜色和耐冷性，支持了OsLSC6在植物适应性中的重要性。我们的研究不仅可以证明OsLSC6是花青素生物合成和非生物胁迫反应中的关键调节因子，还可以提供一个基于mGWAS的代谢物到基因分析的强大补充工具，用于功能基因鉴定以及未来水稻育种和改良中有前景的候选基因。
