追踪单细胞进化使用时钟式的染色质可访问性位点
Yu Xiao1,2, Wan Jin2,3, Lingao Ju2
1Department of Urology, Zhongnan Hospital of Wuhan University, Wuhan, China.
Nature biotechnology
|May 9, 2024
概括
EpiTrace使用单细胞染色质可访问性测序 (scATAC-seq) 来测量细胞年龄和追踪发育系. 这种方法分析了开放的钟形位置,以揭示各种组织和物种的生物见解.
科学领域:
- 基因组学就是基因组学.
- 发展生物学 发展生物学
- 表观遗传学 在表观遗传学中,表观遗传学是指表观遗传学.
背景情况:
- 单细胞染色体可访问性测序 (scATAC-seq) 用于基于细胞表型的发育轨迹重建.
- 推断精确的发育轨迹仍然是细胞生物学中的一个重大挑战.
- 与年龄相关的DNA甲基化 (DNAm) 变化发生在特定的基因组区域,称为时钟式微分甲基化位点 (ClockDML).
研究的目的:
- 开发一种新的方法,EpiTrace,用于确定细胞年龄,并使用scATAC-seq数据进行血统追踪.
- 为了利用细胞分裂后钟形位置的染色质可访问性减少的异质性,作为线粒体年龄的衡量标准.
- 为了验证EpiTrace与已建立的发育层次结构和其他谱系追踪方法的一致性.
主要方法:
- 开发了EpiTrace,一种分析scATAC-seq数据的计算方法.
- 量化了开放的钟形位置的分数,以推断细胞年龄.
- 应用EpiTrace跨多种细胞系和物种,包括血液形成,器官发育和瘤生物学.
主要成果:
- EpiTrace成功地确定了细胞年龄,并重建了发育轨迹.
- 该方法与已知的发育层次结构有很强的一致性.
- 结果与基于DNA甲基化的时钟相对应,并补充了其他谱系追踪技术,如基于突变的追踪和RNA速度.
结论:
- 使用scATAC-seq.EpiTrace提供了一个强大的工具,用于确定细胞年龄和使用scATAC-seq.追踪血统.
- 该方法提供了有价值的生物学见解,在发育,免疫力和癌症等领域具有潜在的临床相关性.
- 通过整合表观遗传和染色质可访问性数据,EpiTrace提高了我们对细胞过程的理解.
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