人类促进体中两个位点的物理特征:在基因功能中的普遍性和多样化使用
Kohei Uemura1, Takashi Ohyama1,2
1Major in Integrative Bioscience and Biomedical Engineering, Graduate School of Science and Engineering, Waseda University, 2-2 Wakamatsu-cho, Shinjuku-ku, Tokyo 162-8480, Japan.
International journal of molecular sciences
|February 10, 2024
概括
人类基因促进体在转录起始点和TATA盒附近表现出独特的物理特性. 这些独特的DNA特征与特定的基因功能相关,为基因组组织和调节提供了新的见解.
科学领域:
- 基因组学就是基因组学.
- 分子生物学分子生物学
- 生物物理学的生物物理.
背景情况:
- 之前的研究确定了转录起始点 (TSS) 和TATA盒中的平均物理特征.
- 个体基因变异和与这些物理性质的功能联系在很大程度上仍未被探索.
研究的目的:
- 为了研究人类促进体中DNA的独特物理性质.
- 确定这些属性是否与基因功能和本体学相关.
主要方法:
- 在21056个人类蛋白质编码基因中分析了DNA的10个物理性质.
- 检查TSS和-27位置周围的属性.
- 在TSSs的±300bp范围内评估区域双重DNA自由能量.
主要成果:
- 大约97%的人类促进体在TSS和/或位置-27.0显示出独特的物理特性.
- 近65%的人在两个地点都显示了这些属性.
- 大约55%的基因在TSSs附近具有最小区域双重DNA自由能量.
- 独特的促进物质和自由能量将基因分成五个群,每个与特定的基因本体学 (GO) 术语相关.
- 免疫反应基因显示了独特的周围区域自由能量配置文件.
结论:
- 人类促进体具有与基因功能相关的独特的物理DNA特性.
- 基于物理特征的基因组分析可以揭示基因组织和调节的新方面.
相关概念视频
The Eukaryotic Promoter Region
16.3K
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...
16.3K
General Transcription Factors
5.3K
Tissue-specific transcription factors contribute to diverse cellular functions in mammals. For example, the gene for beta globin, a major component of hemoglobin, is present in all cells of the body. However, it is only expressed in red blood cells because the transcription factors that can bind to the promoter sequences of the beta globin gene are only expressed in these cells. Tissue-specific transcription factors also ensure that mutations in these factors may impair only the function of...
5.3K
Position-effect Variegation
6.3K
In 1928, a German botanist Emil Heitz observed the moss nuclei with a DNA binding dye. He observed that while some chromatin regions decondense and spread out in the interphase nucleus, others do not. He termed them euchromatin and heterochromatin, respectively. He proposed that the heterochromatin regions reflect a functionally inactive state of the genome. It was later confirmed that heterochromatin is transcriptionally repressed, and euchromatin is transcriptionally active chromatin.
6.3K
Conserved Binding Sites
4.2K
Many proteins’ biological role depends on their interactions with their ligands, small molecules that bind to specific locations on the protein known as ligand-binding sites. Ligand-binding sites are often conserved among homologous proteins as these sites are critical for protein function.
Binding sites are often located in large pockets, and if their location on a protein’s surface is unknown, it can be predicted using various approaches. The energetic method computationally...
Binding sites are often located in large pockets, and if their location on a protein’s surface is unknown, it can be predicted using various approaches. The energetic method computationally...
4.2K
Chromatin Position Affects Gene Expression
23.3K
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...
23.3K
Combinatorial Gene Control
8.3K
Combinatorial gene control is the synergistic action of several transcriptional factors to regulate the expression of a single gene. The absence of one or more of these factors may lead to a significant difference in the level of gene expression or repression.
The expression of more than 30,000 genes is controlled by approximately 2000-3000 transcription factors. This is possible because a single transcription factor can recognize more than one regulatory sequence. The specificity in gene...
The expression of more than 30,000 genes is controlled by approximately 2000-3000 transcription factors. This is possible because a single transcription factor can recognize more than one regulatory sequence. The specificity in gene...
8.3K


