Xie Meili, Zhao Chuanji, Song Min, Xiang Yang, Tong Chaobo
Guizhou Rapeseed Institute, Guizhou Academy of Agricultural Sciences, Guiyang, China.
The Key Laboratory of Biology and Genetic Improvement of Oil Crops, The Ministry of Agriculture and Rural Affairs, Oil Crops Research Institute, Chinese Academy of Agricultural Sciences, Wuhan, China.
Front Plant Sci. 2022 Oct 20;13:998082. doi: 10.3389/fpls.2022.998082. eCollection 2022.
Crop genomics and breeding CLAVATA3/EMBRYO SURROUNDING REGION-RELATED (CLE) proteins belong to a small peptide family in plants. During plant development, gene family members play a pivotal role in regulating cell-to-cell communication and stem cell maintenance. However, the evolutionary process and functional importance of s are unclear in Brassicaceae. In this study, a total of 70 s were identified in (2n = 4x = 38, AC): 32 from the A subgenome, 36 from the C subgenome, and 2 from the unanchored subgenome. Meanwhile, 29 and 32 genes were explored in (2n = 2x = 20, A) and (2n = 2x = 18, C). Phylogenetic analysis revealed that 163 s derived from three species and can be divided into seven subfamilies. Homology and synteny analyses indicated whole-genome triplication (WGT) and segmental duplication may be the major contributors to the expansion of family. In addition, RNA-seq and qPCR analysis indicated that 19 and 16 s were more highly expressed in immature seeds and roots than in other tissues. Some gene pairs exhibited different expression patterns in the same tissue, which indicated possible functional divergence. Furthermore, genetic variations and regional association mapping analysis indicated that 12 s were potential genes for regulating important agronomic traits. This study provided valuable information to understand the molecular evolution and biological function of s in and its diploid progenitors, which will be helpful for genetic improvement of high-yield breeding in .
CLAVATA3/胚胎周围区域相关（CLE）蛋白属于植物中的一个小肽家族。在植物发育过程中，该基因家族成员在调节细胞间通讯和干细胞维持方面发挥着关键作用。然而，在十字花科中，它们的进化过程和功能重要性尚不清楚。在本研究中，在甘蓝型油菜（2n = 4x = 38，AC）中总共鉴定出70个CLE基因：32个来自A亚基因组，36个来自C亚基因组，2个来自未锚定的亚基因组。同时，在白菜（2n = 2x = 20，A）和甘蓝（2n = 2x = 18，C）中分别探索到29个和32个CLE基因。系统发育分析表明，来自三种十字花科物种的163个CLE基因可分为七个亚家族。同源性和共线性分析表明，全基因组三倍化（WGT）和片段重复可能是CLE家族扩张的主要原因。此外，RNA测序和qPCR分析表明，19个和16个CLE基因在未成熟种子和根中的表达高于其他组织。一些CLE基因对在同一组织中表现出不同的表达模式，这表明可能存在功能分化。此外，遗传变异和区域关联图谱分析表明，12个CLE基因是调控重要农艺性状的潜在基因。本研究为理解甘蓝型油菜及其二倍体祖先中CLE基因的分子进化和生物学功能提供了有价值的信息，这将有助于甘蓝型油菜高产育种的遗传改良。
