染色体连接图显示了动态促进剂-增强剂的长距离关联
Yubo Zhang1, Chee-Hong Wong1, Ramon Y Birnbaum2
1Sequencing Technology Group, Joint Genome Institute, Lawrence Berkeley National Laboratory, Walnut Creek, California 94598, USA.
Nature
|November 12, 2013
概括
这项研究绘制了小鼠干细胞中的全基因组染色质相互作用图,以了解转录调节. 它揭示了细胞类型特定的增强剂-促进剂连接,在发育过程中将染色质结构与基因表达联系起来.
科学领域:
- 基因组学就是基因组学.
- 分子生物学分子生物学
- 发展生物学 发展生物学
背景情况:
- 转录调节对于多细胞生物的细胞分化和命运决定至关重要.
- 促进者和调节元件之间的动态色素配置对于转录至关重要.
- 转录工厂在3D核空间和全基因组染色质连接中的作用仍然在很大程度上未被描述.
研究的目的:
- 通过全基因组的染色质连接地图来探索转录互动体.
- 在渐进系承诺期间研究细胞类型特定的染色质结构.
- 了解控制增强剂-促进剂结合的原理及其在基因表达中的作用.
主要方法:
- 使用对结尾标记 (ChIA-PET) 的染色质相互作用分析.
- 使用针对RNA聚合酶II预启动复合物的抗体.
- 分析了三种小鼠细胞类型 (胚胎干细胞,神经干细胞,神经圈干细胞/祖先细胞).
主要成果:
- 确定了大约4万个长距离染色体相互作用.
- 精确的增强剂-促进剂关联和细胞类型特定的染色质结构被揭示出来.
- 观察到促进剂和远端增强剂的广泛局部化,增强剂经常准非最近的活性基因.
结论:
- 促进剂-增强剂相互作用是高度细胞类型的特异性,但涉及一般常见和活跃的促进剂.
- 染色体连接性将关键重编程基因的物理接近与胚胎干细胞中的协调基因表达联系起来.
- 这项研究为剖析空间基因组结构及其在发育中的作用提供了基础.
相关概念视频
Chromatin Position Affects Gene Expression
22.5K
Chromatin is the massive complex of DNA and proteins packaged inside the nucleus. The complexity of chromatin folding and how it is packaged inside the nucleus greatly influences access to genetic information. Generally, the nucleus' periphery is considered transcriptionally repressive, while the cell's interior is considered a transcriptionally active area.
Topologically Associated Domains (TADs)
The 3-dimensional positioning of chromatin in the nucleus influences the...
Topologically Associated Domains (TADs)
The 3-dimensional positioning of chromatin in the nucleus influences the...
22.5K
Spreading of Chromatin Modifications
8.1K
The histone proteins in the nucleosomes are post-translationally modified (PTM) to increase or decrease access to DNA. The commonly observed PTMs are methylation, acetylation, phosphorylation, and ubiquitination of lysine amino acids in the histone H3 tail region. These histone modifications have specific meaning for the cell. Hence, they are called "histone code". The protein complex involved in histone modification is termed as "reader-writer" complex.
Writers
The writer...
Writers
The writer...
8.1K
Euchromatin
6.8K
The extent of chromatin compaction can be studied by staining chromatin using specific DNA binding dyes. Under the microscope, the dense-compacted regions take up more dye, appearing darker, while the less-compact areas take up less dye and appear lighter. Based on the compaction level, chromatins are classified into two primary forms – euchromatin and heterochromatin.
Euchromatin is the less dense region of the chromatin and stains lighter. Euchromatin contains histone H3 extensively...
Euchromatin is the less dense region of the chromatin and stains lighter. Euchromatin contains histone H3 extensively...
6.8K
Euchromatin
2.8K
2.8K
The Eukaryotic Promoter Region
16.2K
The eukaryotic promoter region is a segment of DNA located upstream of a gene. It contains an RNA polymerase binding site, a transcription start site, and several cis-regulatory sequences. The proximal promoter region is located in the vicinity of the gene and has cis-regulatory sequences and the core promoter. The core promoter is the binding site for RNA polymerase and is usually located between -35 and +35 nucleotides from the transcription start site. The distal promoter regions are...
16.2K
Heterochromatin
12.0K
The extent of chromatin compaction can be studied by staining chromatin using specific DNA binding dyes. Under the microscope, the dense-compacted regions that take up more dye are called heterochromatin. Heterochromatin is further classified into two forms – constitutive heterochromatin and facultative heterochromatin.
Constitutive heterochromatin: It is a highly compact region of chromatin that is mostly concentrated in the centromere and telomere. Unlike euchromatin, the amino acid at...
Constitutive heterochromatin: It is a highly compact region of chromatin that is mostly concentrated in the centromere and telomere. Unlike euchromatin, the amino acid at...
12.0K


