彩虹鱼调节元素的功能注释揭示了表观基因组在遗传选择和基因组进化中的作用
Mohamed Salem1, Rafet Al-Tobasei2, Ali Ali1
1Department of Animal and Avian Sciences, University of Maryland, College Park, MD 20742-231, USA.
GigaScience
|December 10, 2024
概括
这项研究为彩虹鱼 (RBT) 提供了第一个全面的表观基因组注释图,揭示了基因调控元素及其在环境适应和进化中的作用. 这些发现增强了RBT和其他鱼类物种的基因组研究.
科学领域:
- 水产养殖的基因组学
- 进行比较的基因组学.
- 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:
- 彩虹鱼 (RBT) 是一个重要的水产养殖物种和生物模型.
- 现有的RBT基因组序列缺乏全面的表观基因组注释.
- 了解表观基因组动态对于RBT的表型和进化变异至关重要.
研究的目的:
- 创建一个全面的RBT表观基因组注释轨迹目录.
- 识别基因调节元件及其与基因表达的相关性.
- 研究表观遗传学在RBT化,进化和基因复制中的作用.
主要方法:
- 结合染色体免疫沉测序,ATAC测序,甲基迷你测序和RNA测序.
- 检测基因调节元件,包括基因素修饰,染色质可访问性和DNA甲基化.
- 对表观基因组动态的分析和与基因表达的相关性.
主要成果:
- 制作了RBT表观基因组注释轨迹的全面目录.
- 鉴定了基因调节元件,包括染色质修饰和DNA甲基化.
- 表观基因组动态与基因表达相关,并确定了潜在的因果变异和转录因子.
结论:
- 这项研究为鱼类,特别是RBT.提供了第一个表观基因组注释地图.
- 这些发现提供了关于表观遗传学在RBT化,进化和重复基因保留中的作用的见解.
- 这些地图将改善基因组研究,包括GWAS和RBT中的基因组选择以及比较鱼类基因组学.
相关概念视频
Cis-regulatory Sequences
9.7K
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...
9.7K
Epigenetic Regulation
3.0K
Epigenetic changes alter the physical structure of the DNA without changing the genetic sequence and often regulate whether genes are turned on or off. This regulation ensures that each cell produces only proteins necessary for its function. For example, proteins that promote bone growth are not produced in muscle cells. Epigenetic mechanisms play an essential role in healthy development. Conversely, precisely regulated epigenetic mechanisms are disrupted in diseases like cancer.
X-chromosome...
X-chromosome...
3.0K
Epistasis
45.8K
In addition to multiple alleles at the same locus influencing traits, numerous genes or alleles at different locations may interact and influence phenotypes in a phenomenon called epistasis. For example, rabbit fur can be black or brown depending on whether the animal is homozygous dominant or heterozygous at a TYRP1 locus. However, if the rabbit is also homozygous recessive at a locus on the tyrosinase gene (TYR), it will have an unshaded coat that appears white, regardless of its TYRP1...
45.8K
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
Epistasis Analysis
4.9K
Although Mendel chose seven unrelated traits in peas to study gene segregation, most traits involve multiple gene interactions that create a spectrum of phenotypes. When the interaction of various genes or alleles at different locations influences a phenotype, this is called epistasis. Epistasis often involves one gene masking or interfering with the expression of another (antagonistic epistasis). Epistasis often occurs when different genes are part of the same biochemical pathway. The...
4.9K
Chromatin Structure Regulates pre-mRNA Processing
6.9K
In eukaryotic cells, nascent mRNA transcripts need to undergo many post-transcriptional modifications to reach the cell cytoplasm and translate into functional proteins. For a long time, transcription and pre-mRNA processing were considered two independent events that occur sequentially in the cell. However, it has now been well established that transcription and pre-mRNA processing are two simultaneous processes that are precisely regulated inside the cell.
The chromatin structure, especially...
The chromatin structure, especially...
6.9K


