Genome-wide survey and expression analyses of the GRAS gene family in Brassica napus reveals their roles in root development and stress response
Genome-wide survey and expression analyses of the GRAS gene family in Brassica napus reveals their roles in root development and stress response
复制标题
甘蓝型油菜 GRAS 基因家族的全基因组调查和表达分析揭示了它们在根系发育和应激反应中的作用
DOI：
10.1007/s00425-019-03199-y
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发表时间：
2019-10-01
期刊：
影响因子：
4.3
通讯作者：
Du, Hai
中科院分区：
文献类型：
--
作者：
Guo, Pengcheng;Wen, Jing;Du, Hai
主要结论油菜GRAS基因的全基因组鉴定、分类、表达分析和功能研究表明，GRAS基因在油菜根系发育和逆境响应中具有重要作用。GRAS蛋白是植物特异性转录因子基因家族，参与组织发育和逆境应答。通过系统发育分析，将甘蓝型油菜基因组中的87个GRAS基因分为13个亚科。甘蓝型油菜（B. napus）蛋白质在亚科之间保守性较低，但在每个亚科内是保守的。一系列的分析表明，89.7%的BnGRAS没有内含子插入，并在N-末端发现了24个特异性基序。在陆地植物中的HAM亚家族中观察到高度保守的microRNA 171（miRNA 171）靶标。共预测了868对相互作用蛋白，其中主要是参与转录调控和信号转导的转录因子。综合比较分析了26种藻类、苔藓、蕨类、裸子植物和被子植物的GRAS基因，发现该基因家族起源于早期苔藓植物，可分为19个亚科，其中14个可能起源于早于苔藓植物的进化。RNA-Seq分析表明，大部分BnGRAS在B不同发育阶段的不同组织器官中广泛表达。24个BnGRAS在根中高度/特异表达。从qRT-PCR分析的结果表明，属于SCR和LISCL亚家族的两个BnGRAS可能在根的胁迫反应中起重要作用。
Main conclusion Genome-wide identification, classification, expression analyses, and functional characterization of GRAS genes in oil crop, Brassica napus, indicate their importance in root development and stress response. GRAS proteins are a plant-specific transcription factor gene family involved in tissues development and stress response. We classified 87 putative GRAS genes in the Brassica napus genome (BnGRASs) into 13 subfamilies by phylogenetic analysis. The C-terminal GRAS domains of Brassica napus (B. napus) proteins were less conserved among subfamilies, but were conserved within each subfamily. A series of analyses revealed that 89.7% of the BnGRASs did not have intron insertions, and 24 specific-motifs were found at the N-terminal. A highly conserved microRNA 171 (miRNA171) target was observed specifically in the HAM subfamily across land plants. A total of 868 pairs of interaction proteins were predicted, the primary of which were transcription factors involved in transcriptional regulation and signal transduction. Integrated comparative analysis of GRAS genes across 26 species of algae, mosses, ferns, gymnosperms, and angiosperms revealed that this gene family originated in early mosses and was classified into 19 subfamilies, 14 of which may have originated prior to bryophyte evolution. RNA-Seq analysis demonstrated that most BnGRASs were widely expressed in different tissues/organs at different stages in B. napus, and 24 BnGRASs were highly/specifically expressed in roots. Results from a qRT-PCR analysis suggested that two BnGRASs belonging to SCR and LISCL subfamilies potentially have important roles in the stress response of roots.