Liu Chen, Liu Xianxian, Xu Wenling, Fu Weimin, Wang Fengde, Gao Jianwei, Li Qiaoyun, Zhang Zhigang, Li Jingjuan, Wang Shufen
Shandong Key Laboratory of Greenhouse Vegetable Biology, Shandong Branch of National Vegetable Improvement Center, Institute of Vegetables and Flowers, Shandong Academy of Agricultural Sciences, Jinan, 250100 Shandong People's Republic of China.
3 Biotech. 2018 Jul;8(7):311. doi: 10.1007/s13205-018-1330-z. Epub 2018 Jul 10.
High-throughput small RNA sequencing and degradome analysis were used in this study to thoroughly investigate the role of miRNA-mediated regulatory network in tuberous root development of radish. Samples from the early seedling stage (RE) and the cortex splitting stage (RL) were used for the construction of six small RNA libraries and one degradome library. A total of 518 known and 976 novel miRNAs were identified, of which, 338 known and 18 novel miRNAs were expressed in all six libraries, respectively. A total of 52 known and 57 novel miRNAs were identified to be significantly differentially expressed between RE and RL, and 195 mRNAs were verified to be the targets of 194 miRNAs by degradome sequencing. According to the degradome analysis, 11 differentially expressed miRNAs had miRNA-mRNA targets, and 13 targets were identified for these 11 miRNAs. Of the 13 miRNA-mRNA targets, 4 genes (RSG11079.t1, RSG11844.t1, RSG16775.t1, and RSG42419.t1) were involved in hormone-mediated signaling pathway, 2 gens (RSG11079.t1 and RSG16775.t1) were related to post-embryonic root development, and 1 gene (RSG23799.t1) was involved in anatomical structure morphogenesis, according to the GO function analysis for biological process. Target Genes participated in these processes are important candidates for further studies. This study provides valuable information for a better understanding of the molecular mechanisms involved in radish tuberous root formation and development.
本研究采用高通量小RNA测序和降解组分析，全面探究miRNA介导的调控网络在萝卜肉质根发育中的作用。将幼苗早期（RE）和皮层分裂期（RL）的样本用于构建6个小RNA文库和1个降解组文库。共鉴定出518个已知miRNA和976个新miRNA，其中分别有338个已知miRNA和18个新miRNA在所有6个文库中表达。共鉴定出52个已知miRNA和57个新miRNA在RE和RL之间存在显著差异表达，通过降解组测序验证了195个mRNA是194个miRNA的靶标。根据降解组分析，11个差异表达的miRNA具有miRNA-mRNA靶标，为这11个miRNA鉴定出13个靶标。在这13个miRNA-mRNA靶标中，根据生物学过程的GO功能分析，4个基因（RSG11079.t1、RSG11844.t1、RSG16775.t1和RSG42419.t1）参与激素介导的信号通路，2个基因（RSG11079.t1和RSG16775.t1）与胚后根发育相关，1个基因（RSG23799.t1）参与解剖结构形态发生。参与这些过程的靶基因是进一步研究的重要候选基因。本研究为更好地理解萝卜肉质根形成和发育所涉及的分子机制提供了有价值的信息。
