Li Hui, Wang Wei, Liu Rui, Tong Botong, Dai Xinren, Lu Yan, Yu Yixun, Dai Seping, Ruan Lin
Department of Botany, Guangzhou Institute of Forestry and Landscape Architecture, Guangzhou, China.
College of Forestry and Landscape Architecture, South China Agricultural University, Guangzhou, China.
Front Plant Sci. 2023 Jul 27;14:1215044. doi: 10.3389/fpls.2023.1215044. eCollection 2023.
, an evergreen shrubby flower known for its superior adaptation ability in South China, has gained increased attention in garden applications. However, scant attention has been paid to its flower development and color formation process at the non-coding RNA level. To fill this gap, we conducted a comprehensive analysis based on long non-coding RNA sequencing (lncRNA-seq), RNA-seq, small RNA sequencing (sRNA-seq), and widely targeted metabolome detection of three different flower developmental stages of . After differentially expressed lncRNAs (DElncRNAs), differentially expressed mRNAs (DEmRNAs), differentially expressed microRNAs (DEmiRNAs), and differentially synthesized metabolites (DSmets) analyses between the different flower developmental stages, Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) were conducted to identify some key genes and metabolites in flavonoid, flavone, anthocyanin, carotenoid, and alkaloid-related GO terms and biosynthetic pathways. Three direct-acting models, including antisense-acting, cis-acting, and trans-acting between lncRNAs and mRNAs, were detected to illustrate the direct function of lncRNAs on target genes during flower development and color formation. Based on the competitive endogenous RNA (ceRNA) regulatory theory, we constructed a lncRNA-mediated regulatory network composed of DElncRNAs, DEmiRNAs, DEmRNAs, and DSmets to elucidate the indirect role of lncRNAs in the flower development and color formation of . By utilizing correlation analyses between DERNAs and DSmets within the ceRNA regulatory network, alongside verification trials of the ceRNA regulatory mechanism, the study successfully illustrated the significance of lncRNAs in flower development and color formation process. This research provides a foundation for improving and regulating flower color at the lncRNA level in , and sheds light on the potential applications of non-coding RNA in studies of flower development.
一种在中国南方以其卓越适应能力而闻名的常绿灌木花卉，在园林应用中受到了越来越多的关注。然而，在非编码RNA水平上，其花发育和颜色形成过程却很少受到关注。为了填补这一空白，我们基于长链非编码RNA测序（lncRNA-seq）、RNA测序（RNA-seq）、小RNA测序（sRNA-seq）以及对该花卉三个不同花发育阶段进行广泛靶向代谢组检测，开展了全面分析。在对不同花发育阶段之间的差异表达lncRNAs（DElncRNAs）、差异表达mRNAs（DEmRNAs）、差异表达微小RNAs（DEmiRNAs）和差异合成代谢物（DSmets）进行分析之后，进行了基因本体论（GO）和京都基因与基因组百科全书（KEGG）分析，以鉴定黄酮类、黄酮醇类、花青素类、类胡萝卜素类和生物碱相关GO术语及生物合成途径中的一些关键基因和代谢物。检测到lncRNAs与mRNAs之间的三种直接作用模型，包括反义作用、顺式作用和反式作用，以阐明lncRNAs在花发育和颜色形成过程中对靶基因的直接功能。基于竞争性内源RNA（ceRNA）调控理论，我们构建了一个由DElncRNAs、DEmiRNAs、DEmRNAs和DSmets组成的lncRNA介导调控网络，以阐明lncRNAs在该花卉花发育和颜色形成中的间接作用。通过利用ceRNA调控网络内DERNAs与DSmets之间的相关性分析以及ceRNA调控机制的验证试验，该研究成功阐明了lncRNAs在花发育和颜色形成过程中的重要性。本研究为在该花卉中基于lncRNA水平改善和调控花色提供了基础，并为非编码RNA在花发育研究中的潜在应用提供了启示。
