3D基因组分析揭示了由复杂的结构变化引起的新型增强器劫持,这些变化驱动着基因过度表达
Katelyn L Mortenson1, Courtney Dawes2, Emily R Wilson1
1Department of Oncological Sciences, Huntsman Cancer Institute, University of Utah, Salt Lake City, UT, USA.
Nature communications
|July 20, 2024
概括
科学家们开发了高活性促进体相互作用 (HAPI) 分析,以检测癌症中的增强器劫持. 这种3D基因组学方法揭示了像MYC这样的瘤基因是如何被劫持增强剂激活的,即使是在复杂的染色体外DNA上.
科学领域:
- 基因组学就是基因组学.
- 癌症生物学 癌症生物学
- 3D基因组学 3D基因组学
背景情况:
- 癌症基因组在染色体和染色体外DNA (ecDNA) 上表现出复杂的结构变化.
- 识别被劫持用于癌基因激活的非编码增强器区域是具有挑战性的.
- 了解瘤基因激活机制对于癌症治疗的发展至关重要.
研究的目的:
- 开发和应用基于3D基因组学的分析,高度活跃的促进者相互作用 (HAPI),用于表征增强器劫持.
- 在癌细胞系中通过增强器劫持激活的瘤基因的识别.
- 通过增强器劫持来研究ecDNA在瘤基因激活中的作用.
主要方法:
- 将HAPI分析应用于34个癌细胞系的HiChIP数据.
- 利用3D基因组学绘制促进剂-增强剂相互作用的地图.
- 使用CRISPR干扰 (CRISPRi) 来研究基因调节.
主要成果:
- 确定了增强剂劫持事件,激活已知和新瘤基因 (例如,MYC,CCND1,ETV1,CRKL,ID4).
- 观察到增强器劫持多个瘤基因,包括MYC,在复杂的amplicons如ecDNA.
- 描述了一个MYC-ERBB2仿真ecDNA,其中ERBB2劫持了MYC增强剂;CRISPRi针对MYC促进剂增加了ERBB2-MYC增强剂相互作用和ERBB2表达.
结论:
- HAPI分析提供了一种强大的策略,用于检测癌症中增强器劫持.
- 揭示了通过增强器劫持驱动的瘤基因激活机制的新见解.
- 证明了ecDNA在通过增强器劫持调解基因激活中的重要作用.
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