长链非编码RNA(lncRNA)在甘蓝型油菜分枝角度调控中的功能分析与预测  

Functional analysis and prediction of long non-coding RNA(lncRNA)in the regulation of branch angle in Brassica napus L.

作　　者：孙程明 周晓婴 陈锋[1] 张维[1] 王晓东[1] 彭琦[1] 郭月[1] 高建芹[1] 胡茂龙[1] 付三雄[1] 张洁夫[1] SUN Cheng-Ming;ZHOU Xiao-Ying;CHEN Feng;ZHANG Wei;WANG Xiao-Dong;PENG Qi;GUO Yue;GAO Jian-Qin;HU Mao-Long;FU San-Xiong;ZHANG Jie-Fu(Institute of Industrial Crops,Jiangsu Academy of Agricultural Sciences/Key Laboratory of Cotton and Rapeseed(Nanjing),Ministry of Agriculture and Rural Affairs/Jiangsu Collaborative Innovation Center for Modern Crop Production,Nanjing 210014,Jiangsu,China)

机构地区：[1]江苏省农业科学院经济作物研究所/农业农村部长江下游棉花与油菜重点实验室/江苏省现代作物生产协同创新中心,江苏南京210014

出　　处：《作物学报》2025年第3期559-567,I0001-I0676,共685页Acta Agronomica Sinica

基　　金：国家自然科学基金项目(32472192);财政部和农业农村部国家现代农业产业技术体系建设专项(CARS-12);江苏省种业振兴揭榜挂帅项目[JBGS(2021)061]资助。

摘　　要：分枝角度是影响油菜种植密度和机收效率的关键株型性状,适度紧凑的株型结构有利于提高油菜种植密度、降低机收损失。本研究以2个分枝角度差异大的株系为材料,对抽苔期幼嫩分枝进行链特异性RNA-seq。分析表明,6305个基因在2个株系间差异表达,包括FUL、SGR5、SGR6、SGR9、AXR1、ARG1、PIN1和PIN5等分枝角度相关途径基因在油菜中的同源拷贝,GO富集通路包括色氨酸、生长素和磷脂酰肌醇等重力反应相关物质的合成、代谢通路。基于转录组数据,鉴定了4467个在分枝中活跃表达的lncRNA,包括3460个lincRNA、778个lncNAT和229个ilncRNA。50.3%的lncRNA包含转座子序列,其中Gypsy和Copia家族LTR逆转座子是2种主要插入类型。分析发现,1713个lncRNA在2个株系间差异表达,比较与50个分枝角度关联位点的位置关系,37个差异lncRNA落在26个关联位点的置信区间内。利用本研究和已公开的共计103份分枝转录组数据进行表达相关性分析,共鉴定了17,782个lncRNA-基因间靶向关系,包括1003个lncRNA和4592个基因,靶向基因包括LAZY1、SGR5、FUL1、WRKY40等分枝角度已知基因在油菜中的同源拷贝。本研究结果有助于解析lncRNA在油菜分枝角度调控中的作用,为今后分子调控机制的研究奠定了基础。Branch angle is a key trait in plant architecture that influences planting density and the efficiency of mechanical harvesting in rapeseed.A moderately compact plant structure promotes higher planting density and reduces harvesting losses.In this study,we used two rapeseed accessions with significant differences in branch angle and performed strand-specific RNA-seq on young branches at the bolting stage.The analysis identified 6305 differentially expressed genes(DEGs)between the two accessions,including homologs of branch angle-related genes such as FUL,SGR5,SGR6,SGR9,AXR1,ARG1,PIN1,and PIN5.Gene Ontology(GO)enrichment analysis highlighted pathways related to the synthesis and metabolism of tryptophan,auxin,and phosphatidylinositol,all of which are associated with gravity response.Based on the transcriptome data,we identified 4467 actively expressed long non-coding RNAs(lncRNAs)in the branches,including 3460 lincRNAs,778 lncNATs,and 229 ilncRNAs.Of these,50.3%contained transposon sequences,with Gypsy and Copia family LTR retrotransposons being the predominant insertion types.Moreover,1713 lncRNAs were found to be differentially expressed between the two accessions.When comparing the locations of these lncRNAs with 50 known branch angle-associated loci,37 differentially expressed lncRNAs were located within the confidence intervals of 26 associated loci.Expression correlation analysis,using a total of 103 branch transcriptome datasets(including those from this study and publicly available data),identified 17,782 lncRNA-gene targeting relationships,involving 1003 lncRNAs and 4592 genes.These target genes included homologs of known branch angle regulators such as LAZY1,SGR5,FUL1,and WRKY40.This study provides insights into the role of lncRNAs in regulating branch angles in rapeseed,laying a foundation for future research into the molecular mechanisms governing plant architecture.

关 键 词：甘蓝型油菜 株型 分枝角度 长链非编码RNA 转录组 

分 类 号：S565.4[农业科学—作物学]