Deciphering the transcriptional regulatory networks that control size, color, and oil content in Brassica rapa seeds
Deciphering the transcriptional regulatory networks that control size, color, and oil content in Brassica rapa seeds
复制标题
破译控制甘蓝种子大小、颜色和含油量的转录调控网络
DOI：
10.1186/s13068-020-01728-6
复制
发表时间：
2020-05-18
影响因子：
6.3
通讯作者：
Lu, Kun
中科院分区：
文献类型：
--
作者：
Niu, Yue;Wu, Limin;Lu, Kun
背景芜菁是重要的油料作物和蔬菜作物，是甘蓝型油菜和芥菜型油菜的A亚基因组供体。虽然种子大小（SZ），种子颜色（SC）和含油量（OC）在很大程度上影响种子的产量和质量，调控这些性状在芸苔属作物的机制仍然不清楚。结果我们从一对B中收集到种子。在7个种子发育阶段（授粉后7 - 49天每隔7天）对具有显著差异的SZ、SC和OC的油菜种质进行比较，从每个发育阶段的种质间7对比较中鉴定出28，954个差异表达基因（DEG）。K-means聚类分析确定了一组与B SZ变异密切相关的细胞周期相关基因。拉帕。加权相关性分析，使用WGCNA包在R揭示了两个重要的共表达模块，包括基因的表达是正相关的SZ增加和负相关的种子黄度，分别。其中一个模块中细胞周期相关基因的上调表达对G（2）/M细胞周期转换具有重要作用，转录因子Bra.A05TSO1可能正向刺激两个CYCB 1;2基因的表达，促进种子发育。在第二个模块中，由转录因子TT 8调控的保守复合物似乎通过下调TT 8及其靶基因TT 3、TT 18和ANR来决定SC。在第三个模块中，WRI 1和FUS 3被保守以增加种子OC，Bra.A03GRF5被揭示为脂质生物合成的关键转录因子。此外，参与三酰甘油生物合成和种子油体中储存的基因的上调可能增加OC。我们通过15个DEG的定量实时PCR进一步验证了转录组数据的准确性。最后，我们使用我们的研究结果来构建详细的模型，以澄清在B的SZ，SC和OC的变化背后的监管机制。拉帕。结论本研究通过转录组比较揭示了植物SZ、SC和OC基因变异的调控机制。这些发现为在未来的分子育种中通过关键基因的基因工程来提高种子产量、质量和OC提供了很大的希望。
Background Brassica rapa is an important oilseed and vegetable crop species and is the A subgenome donor of two important oilseed Brassica crops, Brassica napus and Brassica juncea. Although seed size (SZ), seed color (SC), and oil content (OC) substantially affect seed yield and quality, the mechanisms regulating these traits in Brassica crops remain unclear. Results We collected seeds from a pair of B. rapa accessions with significantly different SZ, SC, and OC at seven seed developmental stages (every 7 days from 7 to 49 days after pollination), and identified 28,954 differentially expressed genes (DEGs) from seven pairwise comparisons between accessions at each developmental stage. K-means clustering identified a group of cell cycle-related genes closely connected to variation in SZ of B. rapa. A weighted correlation analysis using the WGCNA package in R revealed two important co-expression modules comprising genes whose expression was positively correlated with SZ increase and negatively correlated with seed yellowness, respectively. Upregulated expression of cell cycle-related genes in one module was important for the G(2)/M cell cycle transition, and the transcription factor Bra.A05TSO1 seemed to positively stimulate the expression of two CYCB1;2 genes to promote seed development. In the second module, a conserved complex regulated by the transcription factor TT8 appear to determine SC through downregulation of TT8 and its target genes TT3, TT18, and ANR. In the third module, WRI1 and FUS3 were conserved to increase the seed OC, and Bra.A03GRF5 was revealed as a key transcription factor on lipid biosynthesis. Further, upregulation of genes involved in triacylglycerol biosynthesis and storage in the seed oil body may increase OC. We further validated the accuracy of the transcriptome data by quantitative real-time PCR of 15 DEGs. Finally, we used our results to construct detailed models to clarify the regulatory mechanisms underlying variations in SZ, SC, and OC in B. rapa. Conclusions This study provides insight into the regulatory mechanisms underlying the variations of SZ, SC, and OC in plants based on transcriptome comparison. The findings hold great promise for improving seed yield, quality and OC through genetic engineering of critical genes in future molecular breeding.