全基因组检测位于拼接分支点和正规拼接受体位点之间的人类内部AG-gain变异
Peng Zhang1, Matthieu Chaldebas1, Masato Ogishi1
1St. Giles Laboratory of Human Genetics of Infectious Diseases, Rockefeller Branch, The Rockefeller University, New York, NY 10065.
概括
一个新的计算工具,AGAIN,精确地识别了破坏基因拼接并导致疾病的遗传变异. 该工具有助于诊断罕见的遗传疾病,通过精确确定与拼接缺陷相关的内基AG增益变异.
科学领域:
- 遗传学 是一个遗传学.
- 分子生物学分子生物学
- 生物信息学是一种生物信息学.
背景情况:
- 内子内的人类遗传变异,特别是分支点 (BP) 和拼接受体位点 (ACC) 之间的AG增益突变,可以破坏mRNA前拼接.
- 人类内核的BP-ACC区域表现出AG/YAG动机的极度耗尽,这表明对此类序列的功能约束.
研究的目的:
- 开发一种全基因组计算方法 (AGAIN) 以系统地识别BP-ACC区域内的内基因AG增益变异.
- 分析这些变体对拼接的影响,并预测由此产生的蛋白质产品.
- 在诊断患有无法解释的严重传染病的患者中再次应用.
主要方法:
- 开发GAIN (AG-gain INtro-variants) 计算工具,用于全基因组识别内部AG-gain变异.
- 对人类基因突变数据库和患者外基因组/基因组数据的分析.
- 实验验证已识别的变体及其对拼接的功能影响.
主要成果:
- 再次确定了350种引起疾病的AG-gain变异,其中74%产生了新的拼接受体位,31%导致了外因子跳转.
- 在 *SPPL2A* 中发现了一种新型的同卵性内部AG增益变体,该变体在患有菌根菌病的患者中被发现,通过拼接中断导致功能丧失.
- 高风险BP-ACC区域内的AG-gain变异始终导致错误拼接,与该地区以外的不同.
结论:
- AGAIN是一种有效的工具,可以精确识别引起疾病的内基AG-gain变体.
- 该研究强调了BP-ACC区域在拼接调节中的关键作用,并确定*SPPL2A*为与真菌菌病相关的基因.
- AGAIN通过发现由内基变异引起的拼接缺陷,促进了罕见疾病的遗传诊断.
相关概念视频
Single Nucleotide Polymorphisms-SNPs
15.2K
A single nucleotide polymorphism or SNP is a single nucleotide variation at a specific genomic position in a large population. It is the most prevalent type of sequence variation found in the human genome. Point mutations that occur in more than 1% of the population qualify as SNPs. These are present once every 1000 nucleotides on an average in the human genome. Replacement of a purine with another purine (A/G) or a pyrimidine with another pyrimidine (C/T) is known as a transition. In contrast,...
15.2K
Alternative RNA Splicing
21.2K
Alternative RNA splicing is the regulated splicing of exons and introns to produce different mature mRNAs from a single pre-mRNA. Unlike in constitutive splicing where a single gene produces a single type of mRNA, alternative splicing allows an organism to produce multiple proteins from a single gene and plays an important role in protein diversity.
There are five types of alternative RNA splicing that vary in the ways the pre-mRNA segments are removed or retained in the mature mRNA. The first...
There are five types of alternative RNA splicing that vary in the ways the pre-mRNA segments are removed or retained in the mature mRNA. The first...
21.2K
Chromatin Structure and RNA Splicing
2.7K
2.7K
Genome-wide Association Studies-GWAS
13.5K
Genome-wide association studies or GWAS are used to identify whether common SNPs are associated with certain diseases. Suppose specific SNPs are more frequently observed in individuals with a particular disease than those without the disease. In that case, those SNPs are said to be associated with the disease. Chi-square analysis is performed to check the probability of the allele likely to be associated with the disease.
GWAS does not require the identification of the target gene involved in...
GWAS does not require the identification of the target gene involved in...
13.5K
Pre-mRNA Processing: RNA Splicing
5.3K
5.3K
Cis-regulatory Sequences
3.0K
3.0K


