功能性cis元素的进化保守的星座编程了人类 (epi) 基因组对病毒反应的命运
Marianna A Koutsi1, Marialena Pouliou1, Dimitris Chatzopoulos1
1Center of Basic Research, Biomedical Research Foundation, Academy of Athens, Athens 11527, Greece.
Nucleic acids research
|March 25, 2025
概括
人类细胞使用新型病毒响应性cis-regulatory模块 (vrCRMs) 来控制免疫反应. 这些基因组元素,包括超级增强剂,对于抗病毒防御和维持平衡至关重要,影响自身免疫性疾病风险.
科学领域:
- 基因组学和表观基因组学
- 免疫学 免疫学 免疫学
- 进化生物学 进化生物学
背景情况:
- 人类细胞对病毒的防御依赖于复杂的基因组调节.
- 对参与这些反应的体内功能性 cis-regulatory 模块 (CRM) 的理解是有限的.
- 现有的知识差距阻碍了对细胞在病毒攻击期间如何调整基因表达的充分理解.
研究的目的:
- 研究人类表观基因组对病毒反应的命运.
- 确定新的功能性病毒响应CRM (vrCRM) 和它们在细胞免疫中的作用.
- 探索这些基因组元素的进化起源和疾病相关性.
主要方法:
- 功能性基因组学和计算生物学方法.
- DNA演化和DNA语法和语法分析.
- TFs-STARR-seq用于评估vrCRMs的复合DNA序列.
主要成果:
- 发现了新的功能性vrCRM,包括典型增强剂,超级增强剂和重复性DNA增强剂.
- 在抗病毒细胞状态中识别广泛的表观基因组重编程,涉及关键转录因子和染色质修饰.
- 在已识别的SE和vrCRM中或附近的许多自身免疫疾病相关遗传变异的映射.
结论:
- 人类表观基因组具有基础免疫和定制抗病毒反应的调节基础.
- 进化分析揭示了抗微生物转录因子和染色体复合物的保存特征.
- 功能障碍的vrCRM和SE有助于人类生理学和自身免疫性疾病的发展,突出显示了它们的重要性.
更多相关视频
13:47Lentiviral Vector Platform for the Efficient Delivery of Epigenome-editing Tools into Human Induced Pluripotent Stem Cell-derived Disease Models
Published on: March 29, 2019
9.5K
10:10HOX Loci Focused CRISPR/sgRNA Library Screening Identifying Critical CTCF Boundaries
Published on: March 31, 2019
8.2K
相关概念视频
Epigenetic Regulation
30.8K
Epigenetic mechanisms play an essential role in healthy development. Conversely, precisely regulated epigenetic mechanisms are disrupted in diseases like cancer.
30.8K
Multi-species Conserved Sequences
3.9K
Next-generation sequencing technologies have created large genomic databases of a variety of animals and plants. Ever since the human genome project was completed, scientists studied the genome of primates, mammals, and other phylogenetically distant living beings. Such large-scale studies have provided new insights into the evolutionary relationship between organisms.
Although the genome of each species varies greatly from each other, a few sequences are highly conserved. Such conserved...
Although the genome of each species varies greatly from each other, a few sequences are highly conserved. Such conserved...
3.9K
Cis-regulatory Sequences
9.6K
Cis-regulatory sequences are short fragments of non-coding DNA that are present on the same chromosomes as the genes that they regulate. These fragments serve as binding sites for transcriptional regulators, proteins that are responsible for controlling gene transcription and differential gene expression across cell types in eukaryotes. Cis-regulatory sequences can be close to the gene of interest or thousands of bases away in the DNA sequence; however, those sequences that are further away are...
9.6K
Conserved Binding Sites
4.1K
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...
4.1K
Histone Modification
12.9K
The histone proteins have a flexible N-terminal tail extending out from the nucleosome. These histone tails are often subjected to post-translational modifications such as acetylation, methylation, phosphorylation, and ubiquitination. Particular combinations of these modifications form “histone codes” that influence the chromatin folding and tissue-specific gene expression.
Acetylation
The enzyme histone acetyltransferase adds acetyl group to the histones. Another enzyme, histone...
Acetylation
The enzyme histone acetyltransferase adds acetyl group to the histones. Another enzyme, histone...
12.9K
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
