Table_2_Reprogramming of the Hevea brasiliensis Epigenome and Transcriptome in Response to Cold Stress.XLSX

Low temperature is a key factor limiting the rubber plantation extending to high latitude area. Previous work has shown that cold-induced DNA demethylation was coordinated with the expression of cold-responsive (COR) genes in Hevea brasiliensis. In this work, reduced representation bisulphite sequencing analysis of H. brasiliensis showed that cold treatment induced global genomic DNA demethylation and altered the sequence contexts of methylated cytosines, but the levels of mCG methylation in transposable elements were slightly enhanced by cold treatment. Integrated analysis of the DNA methylome and transcriptome revealed 400 genes whose expression correlated with altered DNA methylation. DNA demethylation in the upstream region of gene seems to correlate with higher gene expression, whereas demethylation in the gene body has less association. Our results suggest that cold treatment globally change the genomic DNA methylation status of the rubber tree, which might coordinate reprogramming of the transcriptome.

低温是限制橡胶树种植扩展至高纬度区域的关键因素。既往研究业已表明，冷诱导的DNA去甲基化与巴西橡胶树（Hevea brasiliensis）中冷响应基因（COR）的表达相协调。在本研究中，通过对H. brasiliensis进行的降低代表性亚硫酸氢盐测序分析表明，冷处理可诱导全基因组DNA去甲基化，并改变甲基化胞嘧啶的序列环境，但可移动元件中mCG甲基化的水平在冷处理下略有增强。DNA甲基组与转录组的综合分析揭示了400个与DNA甲基化改变相关的基因表达。基因上游区域的DNA去甲基化似乎与基因的高表达相关，而基因体内的去甲基化与表达的相关性较低。我们的研究结果提示，冷处理可全局改变橡胶树的基因组DNA甲基化状态，这或许与转录组的重编程相协调。