Xie Yunjie, Jiang Shenfei, Li Lele, Yu Xiangzhen, Wang Yupeng, Luo Cuiqin, Cai Qiuhua, He Wei, Xie Hongguang, Zheng Yanmei, Xie Huaan, Zhang Jianfu
College of Plant Protection, Fujian Agriculture and Forestry University, Fuzhou, China.
Rice Research Institute, Fujian Academy of Agricultural Sciences, Fuzhou, China.
Front Plant Sci. 2020 Dec 8;11:603302. doi: 10.3389/fpls.2020.603302. eCollection 2020.
Discovering transcription factor (TF) targets is necessary for the study of regulatory pathways, but it is hampered in plants by the lack of highly efficient predictive technology. This study is the first to establish a simple system for predicting TF targets in rice () leaf cells based on 10 × Genomics' single-cell RNA sequencing method. We effectively utilized the transient expression system to create the differential expression of a TF (OsNAC78) in each cell and sequenced all single cell transcriptomes. In total, 35 candidate targets having strong correlations with OsNAC78 expression were captured using expression profiles. Likewise, 78 potential differentially expressed genes were identified between clusters having the lowest and highest expression levels of OsNAC78. A gene overlapping analysis identified 19 genes as final candidate targets, and various assays indicated that Os01g0934800 and Os01g0949900 were OsNAC78 targets. Additionally, the cell profiles showed extremely similar expression trajectories between OsNAC78 and the two targets. The data presented here provide a high-resolution insight into predicting TF targets and offer a new application for single-cell RNA sequencing in plants.
发现转录因子（TF）靶标对于调控途径的研究至关重要，但在植物中由于缺乏高效的预测技术而受到阻碍。本研究首次基于10×基因组学的单细胞RNA测序方法，建立了一个用于预测水稻（）叶片细胞中TF靶标的简单系统。我们有效地利用瞬时表达系统在每个细胞中创建了一个TF（OsNAC78）的差异表达，并对所有单细胞转录组进行了测序。总共，利用表达谱捕获了35个与OsNAC78表达具有强相关性的候选靶标。同样，在OsNAC78表达水平最低和最高的簇之间鉴定出78个潜在的差异表达基因。基因重叠分析确定了19个基因作为最终候选靶标，各种分析表明Os01g0934800和Os01g0949900是OsNAC78的靶标。此外，细胞图谱显示OsNAC78与这两个靶标之间的表达轨迹极其相似。本文提供的数据为预测TF靶标提供了高分辨率的见解，并为植物单细胞RNA测序提供了新的应用。
