Liu Yanfeng, Wang Wei
School of Resources and Environmental Engineering, Ludong University, Yantai, Shandong, China.
PeerJ. 2021 Feb 23;9:e10811. doi: 10.7717/peerj.10811. eCollection 2021.
GRAS transcription factors play important roles in many processes of plant development as well as abiotic and biotic stress responses. However, little is known about this gene family in bread wheat (), one of the most important crops worldwide. The completion of a quality draft genome allows genome-wide detection and evolutionary analysis of the GRAS gene family in wheat. In this study, 188 genes were detected and divided into 12 subfamilies based on phylogenetic analyses: DELLA, DLT, HAM, LISCL, SCL3, SCL4/7, SCR, SHR, PAT1, Os19, Os4 and LAS. Tandem and segmental duplications are the main contributors to the expansion of , which may contribute to the adaptation of wheat to various environmental conditions. A high rate of homoeolog retention during hexaploidization was detected, suggesting the nonredundancy and biological importance of homoeologs. Systematic analyses of indicated the conserved expression pattern and function of the same subfamily during evolution. In addition, we detected five genes belonging to the LISCL subfamily induced by both biotic and abiotic stresses and they may be potential targets for further research through gene editing. Using degradome and ChIP-seq data, we identified the targets of miR171 and histone modifications and further analyzed the contribution of epigenetic modification to the subfunctionalization of . This study laid a foundation for further functional elucidation of genes.
GRAS转录因子在植物发育的许多过程以及非生物和生物胁迫反应中发挥着重要作用。然而,对于全球最重要的作物之一面包小麦中的这个基因家族,人们了解甚少。高质量基因组草图的完成使得能够对小麦中的GRAS基因家族进行全基因组检测和进化分析。在本研究中,通过系统发育分析检测到188个GRAS基因,并将其分为12个亚家族:DELLA、DLT、HAM、LISCL、SCL3、SCL4/7、SCR、SHR、PAT1、Os19、Os4和LAS。串联重复和片段重复是GRAS基因家族扩张的主要原因,这可能有助于小麦适应各种环境条件。在六倍体化过程中检测到较高的同源基因保留率,表明同源基因的非冗余性和生物学重要性。对GRAS基因的系统分析表明,同一亚家族在进化过程中具有保守的表达模式和功能。此外,我们检测到5个属于LISCL亚家族的基因在生物和非生物胁迫下均被诱导,它们可能是通过基因编辑进行进一步研究的潜在靶点。利用降解组和ChIP-seq数据,我们鉴定了miR171的靶标和组蛋白修饰,并进一步分析了表观遗传修饰对GRAS基因亚功能化的贡献。本研究为进一步阐明GRAS基因的功能奠定了基础。