拓学关联域和在米中三维基因组架构的演变
Amina Kurbidaeva1, Sonal Gupta1,2, Maricris Zaidem1,3
1Center for Genomics and Systems Biology, New York University, New York, New York, 10003, USA.
The Plant journal : for cell and molecular biology
|May 19, 2025
概括
这项研究表明,大米中的拓关联域 (TAD) 与动物的遗传和表观遗传特征相同. 虽然整体基因组组织得到保护,但个别的TADs表现出差异,与进化距离相关.
科学领域:
- 基因组学就是基因组学.
- 进化生物学 进化生物学
- 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:
- 三维 (3D) 基因组构造在基因调节中起着至关重要的作用.
- 拓关联域 (TADs) 是基因组组织的基本单元,但它们在物种,特别是植物中的进化保护尚未得到充分理解.
研究的目的:
- 研究大米属 (Oryza) 中的3D基因组构造,特别是TADs的特征和演变.
- 将植物TAD与动物TAD进行比较,确定共享的监管特征.
- 评估大米3D基因组结构的进化保护和分歧.
主要方法:
- 采用了一种经过修改的高分辨率染色体构造捕获技术,Micro-C,用于大米基因组分析.
- 采用基于计算机视觉的算法来比较染色质接触图,并分析3D基因组分歧.
- 评估了不同水物种中个别TAD及其边界的进化保存情况.
主要成果:
- 米TAD边界表现出高的转录活性,低甲基化,低的可转移元素含量和增加的基因密度.
- 在TADs中的基因显示相关的表达水平,表明共享的调节功能.
- 植物TAD与动物TAD具有共同的遗传和表观遗传特征,这表明了保留的调节机制.
- 在大米中,总体的染色质组织是保留的,3D结构分歧与进化距离相关.
- 个别的TAD表现出有限的保存,即使在短的进化时间尺度.
结论:
- 米TAD具有与动物相似的保存遗传和表观遗传特性,这意味着共同的监管原则.
- 大米中的3D基因组组织在很大程度上得到了保护,但显示出跟踪进化历史的分歧.
- 在个别的TAD中缺乏保护,凸显了它们的动态性质和快速进化的潜力.
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