有丝分裂过程中 DNA 甲基化的遗传动力学和机制及其在与衰老相关的甲基组恶化中的作用。

Kinetics and mechanisms of mitotic inheritance of DNA methylation and their roles in aging-associated methylome deterioration.

机构信息

Graduate Program, Peking Union Medical College and Chinese Academy of Medical Sciences, Beijing, 100730, China.

National Laboratory of Biomacromolecules, CAS Center for Excellence in Biomacromolecules, Institute of Biophysics, Chinese Academy of Sciences, Beijing, 100101, China.

出版信息

Cell Res. 2020 Nov;30(11):980-996. doi: 10.1038/s41422-020-0359-9. Epub 2020 Jun 24.

Abstract

Mitotic inheritance of the DNA methylome is a challenging task for the maintenance of cell identity. Whether DNA methylation pattern in different genomic contexts can all be faithfully maintained is an open question. A replication-coupled DNA methylation maintenance model was proposed decades ago, but some observations suggest that a replication-uncoupled maintenance mechanism exists. However, the capacity and the underlying molecular events of replication-uncoupled maintenance are unclear. By measuring maintenance kinetics at the single-molecule level and assessing mutant cells with perturbation of various mechanisms, we found that the kinetics of replication-coupled maintenance are governed by the UHRF1-Ligase 1 and PCNA-DNMT1 interactions, whereas nucleosome occupancy and the interaction between UHRF1 and methylated H3K9 specifically regulate replication-uncoupled maintenance. Surprisingly, replication-uncoupled maintenance is sufficiently robust to largely restore the methylome when replication-coupled maintenance is severely impaired. However, solo-WCGW sites and other CpG sites displaying aging- and cancer-associated hypomethylation exhibit low maintenance efficiency, suggesting that although quite robust, mitotic inheritance of methylation is imperfect and that this imperfection may contribute to selective hypomethylation during aging and tumorigenesis.

摘要

有丝分裂过程中 DNA 甲基化模式的遗传是维持细胞身份的一项艰巨任务。不同基因组环境中的 DNA 甲基化模式是否都能被忠实保留,这仍是一个悬而未决的问题。几十年前提出了一种复制偶联的 DNA 甲基化维持模型,但一些观察结果表明存在复制解偶联的维持机制。然而,复制解偶联维持的能力及其潜在的分子事件尚不清楚。通过在单分子水平上测量维持动力学,并评估各种机制受到干扰的突变细胞,我们发现复制偶联维持的动力学受 UHRF1-连接酶 1 和 PCNA-DNMT1 相互作用的控制,而核小体占有率和 UHRF1 与甲基化 H3K9 之间的相互作用特异性调节复制解偶联维持。令人惊讶的是,复制解偶联维持非常稳健,当复制偶联维持严重受损时,它可以在很大程度上恢复甲基组。然而, solo-WCGW 位点和其他表现出与衰老和癌症相关的低甲基化的 CpG 位点的维持效率较低,这表明尽管相当稳健,但甲基化的有丝分裂遗传并不完美,这种不完美可能导致衰老和肿瘤发生过程中的选择性低甲基化。

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