School of Life Sciences, Laboratory of Translational and Evolutionary Genomics, Jawaharlal Nehru University, New Delhi 110067, India.
School of Life Sciences, Laboratory of Translational and Evolutionary Genomics, Jawaharlal Nehru University, New Delhi 110067, India; Biotechnology Division, CSIR-Institute of Himalayan Bioresource and Technology, Palampur, Himachal Pradhesh, India.
Genomics. 2020 Sep;112(5):3342-3353. doi: 10.1016/j.ygeno.2020.04.031. Epub 2020 Jun 17.
Single-base cytosine methylation analysis across fruits of Capsicum annuum, C. chinense and C. frutescens showed global average methylation ranging from 82.8-89.1%, 77.6-83.9%, and 22.4-25% at CG, CHG and CHH contexts, respectively. High gene-body methylation at CG and CHG was observed across Capsicum species. The C. annuum showed the highest proportion (>80%) of mCs at different genomic regions compared to C. chinense and C. frutescens. Cytosine methylation for transposable-elements were lower in C. frutescens compared to C. annuum and C. chinense. A total of 510,165 CG, 583112 CHG and 277,897 CHH DMRs were identified across three Capsicum species. The differentially methylated regions (DMRs) distribution analysis revealed C. frutescens as more hypo-methylated compared to C. annuum and C. chinense, and also the presence of more intergenic DMRs in Capsicum genome. At CG and CHG context, gene expression and promoter methylation showed inverse correlations. Furthermore, the observed correlation between methylation and expression of genes suggested the potential role of methylation in Capsicum fruit development/ripening.
对辣椒属的辣椒、辣椒和辣椒的果实进行单个碱基胞嘧啶甲基化分析，结果表明 CG、CHG 和 CHH 上下文的平均甲基化率分别为 82.8-89.1%、77.6-83.9%和 22.4-25%。在辣椒属的不同物种中，均观察到基因体 CG 和 CHG 处的高甲基化。与辣椒和辣椒相比，辣椒的不同基因组区域的 mCs 比例最高（>80%）。与辣椒和辣椒相比，辣椒中的转座元件胞嘧啶甲基化较低。在三个辣椒物种中，共鉴定出 510,165 个 CG、583112 个 CHG 和 277,897 个 CHH DMR。差异甲基化区域（DMR）分布分析表明，与辣椒和辣椒相比，辣椒的甲基化程度较低，而且辣椒基因组中存在更多的基因间 DMR。在 CG 和 CHG 背景下，基因表达和启动子甲基化呈负相关。此外，观察到基因的甲基化和表达之间的相关性表明，甲基化在辣椒果实发育/成熟中可能发挥作用。
