哪有情可长 (2025-06-30 20:27):
#paper Evolutionary and functional genomics of DNA methylation in maize domestication and improvement, Nature Communication, 02 November 2020,https://doi.org/10.1038/s41467-020-19333-4. DNA 甲基化是一种普遍存在的染色质特征,存在于玉米基因组中 25% 的胞嘧啶中,但在玉米驯化过程中甲基化景观的变异和进化在很大程度上仍然未知。本文中利用现代玉米、地方品种和大刍草 (Zea mays ssp. parviglumis,玉米祖先) 种群的全基因组测序 (WGS) 和全基因组亚硫酸氢盐测序 (WGBS) 数据来估计表观突变率和选择系数。结果发现在任何情况下 DNA 甲基化直接选择的证据都很弱,但在整个种群范围内确定了数千个与近期选择相关的差异甲基化区域 (DMR)。对于两个性状相关的 DMR,vgt1-DMR 和 tb1-DMR,HiChIP 数据表明,DMR 和相应下游基因之间的交互环存在于现代玉米品系 B73 中,但在大刍草中不存在。该结果有助于更好地理解作用于 DNA 甲基化模式的进化力,并表明甲基化变异在适应性进化中的作用。
Evolutionary and functional genomics of DNA methylation in maize domestication and improvement
翻译
Abstract:
AbstractDNA methylation is a ubiquitous chromatin feature, present in 25% of cytosines in the maize genome, but variation and evolution of the methylation landscape during maize domestication remain largely unknown. Here, we leverage whole-genome sequencing (WGS) and whole-genome bisulfite sequencing (WGBS) data on populations of modern maize, landrace, and teosinte (Zea mays ssp. parviglumis) to estimate epimutation rates and selection coefficients. We find weak evidence for direct selection on DNA methylation in any context, but thousands of differentially methylated regions (DMRs) are identified population-wide that are correlated with recent selection. For two trait-associated DMRs, vgt1-DMR and tb1-DMR, HiChIP data indicate that the interactive loops between DMRs and respective downstream genes are present in B73, a modern maize line, but absent in teosinte. Our results enable a better understanding of the evolutionary forces acting on patterns of DNA methylation and suggest a role of methylation variation in adaptive evolution.
翻译
回到顶部