可访问的基因边界建立了Arabidopsis中染色体结构的核心结构单元
Hongwoo Lee1, Pil Joon Seo1,2
1Department of Chemistry, Seoul National University, Seoul 08826, Korea.
Nucleic acids research
|October 26, 2023
概括
研究人员确定了新型基因领域作为植物中基本的3D染色体架构单元. 这些结构取决于染色体的可访问性,影响转录调节和更高阶基因组折叠.
科学领域:
- 植物基因组学和表观遗传学
- 3D基因组组织 3D基因组组织
- 转录法规 转录法规
背景情况:
- 三维 (3D) 染色质结构在包括植物在内的多细胞真核生物的转录调节中起着至关重要的作用.
- 以前的研究已经确定了拓关联域 (TADs) 作为一些真核生物基因组中的关键结构单元,但它们在植物中的存在仍在争论中.
研究的目的:
- 通过使用高分辨率的Hi-C数据,研究植物基因组中3D染色质结构的基本单元.
- 确定染色质可访问性,转录因子结合和3D染色质结构的形成之间的关系.
- 探索这些单元对植物高阶基因组折叠和转录调节的贡献.
主要方法:
- 在植物基因组 (Arabidopsis,番茄,玉米,Marchantia polymorpha) 上进行了高分辨率的Hi-C (高通量染色体构造捕获) 实验.
- 计算机建模被用来模拟Hi-C接触地图,使用染色体可访问性数据作为输入.
- 分析的重点是确定结构单元及其对基因组特征的依赖,如转录起点 (TSS),转录终点 (TES) 和可访问区域.
主要成果:
- 在植物基因组中发现了一种新的3D染色体结构的小结构单元,称为"基因域",与TAD不同.
- 这些基因域通常围绕单个基因组织,并取决于TSS和TES的染色质可访问性.
- 还观察到包含多个基因的更大的接触域,依赖于可访问的边界区域,并由转录因子结合形成.
结论:
- 基因域代表了植物3D染色体结构的基本构建块.
- 这些域由染色质可访问性和转录因子结合建立,影响基因调节.
- 鉴定到的基因域可能对植物中观察到的更高阶3D基因组折叠有显著的贡献.
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