Convergent Genetic and Genomic Analyses of Schizophrenia

精神分裂症的融合遗传和基因组分析

• 批准号: 8586867
• 负责人: AYMAN H FANOUS
• 金额: --
• 依托单位: U.S. DEPT/VETS AFFAIRS MEDICAL CENTER
• 依托单位国家: 美国
• 财政年份: 2011
• 资助国家: 美国
• 起止时间: 2011-01-01 至 2015-12-31
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/8586867
• 关键词: Affect; Algorithms; Binding Sites; Bioinformatics; Biological Assay; Chromosomes; Classification; Collaborations; Collection; Complex; Copy Number Polymorphism; DNA Resequencing; Diagnosis; Disease; Ethnic group; European; Family; Funding; Gene Expression; Genes; Genetic; Genetic Markers; Genetic Risk; Genetic Variation; Genome; Genomics; Genotype; Glutamate Receptor; Glutamates; Health; Individual; Island; Large-Scale Sequencing; Link; Maps; Methods; MicroRNAs; Microsatellite Repeats; Molecular; Mutation; Nucleotides; Pathogenesis; Patients; Phase; Population; Promoter Regions; Protein Isoforms; Public Health; Publishing; Research Personnel; Risk; Sampling; Schizophrenia; Siblings; Structure; System; Testing; United States; Variant; Veterans; abstracting; base; chromosome 5q loss; cost; density; experience; follow-up; genetic variant; genome wide association study; health administration; neuropsychiatry; next generation; public health relevance; rare variant; risk variant; transcription factor

DESCRIPTION (provided by applicant): Project Summary/Abstract Objective: To identify common and rare genetic variants which increase the risk of schizophrenia. Specific Aims: 1. To sequence a linked region on chromosome 5q. 2. To rank the most promising variants discovered in Aim 1 using a combination of statistical and bioinformatics criteria. 3. To determine whether genetic risk variants discovered in (1) are associated with schizophrenia our sample, the Portuguese Island Collection (PIC). This will be done by genotyping the 1536 most promising variants in Aim 2 in 400 cases and 400 controls. Background: Schizophrenia is a major health concern in the Veterans Health Administration. Linkage studies of schizophrenia performed in multiple independent samples have repeatedly implicated chromosome 5q. We observed linkage in the PIC using two independent sets of genetic markers (microsatellites as well as Single Nucleotide Polymorphsims [SNPs]). Very recently published genome-wide association studies (GWAS) of large samples (which have included the PIC), strongly implicate rare variants in the pathogenesis of schizophrenia. Resequencing will be a necessary strategy in mapping disease variants, as standard methods of association mapping may not be able to detect them. In the last funding period, our GWAS of the PIC demonstrated a cluster of associated SNPs in and around the gene encoding the ionotropic glutamate receptor, AMPA 1 isoform (GRIA1), which is on 5q. This finding is strongly supported by the Glutamate Hypothesis of schizophrenia. Proposed Methods: We plan to sequence 30 MB of the chromosome 5q linkage region in 24 sibling pairs concordant for schizophrenia and 24 controls. In the first, or discover phase, we will exploit the family-based structure of the PIC, which is derived from a population isolate. Variants will be prioritized if they are shared by affected siblings, but do not occur in controls. We plan to use NimbleGen Sequence Capture arrays to partition the 5q region in the most efficient manner possible. This will be followed by sequencing using the "next generation" Illumina Genome Analyzer II. In the second, or association phase, we will test the 1536 SNPs having highest priority, in 400 cases and 400 controls in the PIC using the Illumina GoldenGate assay. PUBLIC HEALTH RELEVANCE: Project Narrative Schizophrenia is a devastating neuropsychiatric condition with an annual cost of $36.5 billion in the United States, making it a major public health concern. There are an estimated 90,000 patients with schizophrenia or other psychotic illnesses in the VA system nationwide. Although significant progress has been made in uncovering the genetic basis of schizophrenia, there are currently no specific genetic changes (mutations) known to cause illness across various ethnic groups. Most previous studies have only been able to identify relatively common mutations. Therefore, it will be important to use other ways of searching for mutations, as they may be rare. Determining the genetic sequence of regions of the genome is needed in order to identify rarer mutations, which are more likely to directly cause disease. The identification of such mutations may provide vital clues as to the causes of the illness as well as new treatments. In this project, we seek to determine the genetic sequence of individuals with schizophrenia and search for both common and rare mutations.

描述(由申请人提供)： 项目摘要/摘要目的：识别增加精神分裂症风险的常见和罕见的基因变异。具体目的：1.测序染色体5q上的连锁区。2.结合统计学和生物信息学标准，对在目标1中发现的最有希望的变异进行排名。3.为了确定(1)中发现的遗传风险变异是否与精神分裂症有关，我们的样本--葡萄牙岛标本(PIC)。这将通过在400例病例和400名对照中对AIM 2中最有希望的1536个变种进行基因分型来完成。背景：精神分裂症是退伍军人健康管理局的一个主要健康问题。在多个独立样本中进行的精神分裂症连锁研究反复发现染色体5q。我们使用两组独立的遗传标记(微卫星和单核苷酸多态[SNPs])观察到PIC中的连锁。最近发表的对大样本(包括PIC)的全基因组关联研究(GWAS)强烈表明，罕见的变异与精神分裂症的发病机制有关。重新测序将是绘制疾病变异图谱的必要策略，因为标准的关联图谱方法可能无法检测到它们。在上一次资助期间，我们PIC的GWAS展示了编码离子型谷氨酸受体AMPA1亚型(GRIA1)的基因及其周围的一系列相关SNPs，该基因位于5q上。这一发现得到了精神分裂症的谷氨酸假说的有力支持。建议的方法：我们计划对24对符合精神分裂症和24名对照的同胞对染色体5q连锁区的30MB进行测序。在第一个阶段，即发现阶段，我们将利用PIC的基于家庭的结构，它是从种群隔离派生出来的。如果变体由受影响的同级共享，则将优先处理它们，但不会出现在控件中。我们计划使用NimbleGen序列捕获阵列以最有效的方式分割5q区域。在第二阶段，或关联阶段，我们将使用Illumina GoldenGate分析在PIC的400例患者和400名对照中测试具有最高优先级的1536个SNP。 公共卫生相关性： 项目叙事精神分裂症是一种毁灭性的神经精神疾病，在美国每年花费365亿美元，使其成为一个主要的公共卫生问题。据估计，全国退伍军人管理局系统中有9万名精神分裂症或其他精神疾病患者。尽管在揭示精神分裂症的遗传基础方面取得了重大进展，但目前还没有已知的跨种族疾病的特定基因变化(突变)。以前的大多数研究都只能识别出相对常见的突变。因此，使用其他方法搜索突变将是重要的，因为它们可能很罕见。需要确定基因组区域的遗传序列，以确定更罕见的突变，这些突变更有可能直接导致疾病。对这种突变的识别可能会为疾病的病因以及新的治疗方法提供重要线索。在这个项目中，我们试图确定精神分裂症患者的基因序列，并寻找常见和罕见的突变。

项目成果

Genome-wide analyses of smoking behaviors in schizophrenia: Findings from the Psychiatric Genomics Consortium.

• DOI: 10.1016/j.jpsychires.2021.02.027
• 发表时间: 2021-05
• 期刊: Journal of psychiatric research
• 影响因子: 4.8
• 作者: Peterson RE;Bigdeli TB;Ripke S;Bacanu SA;Gejman PV;Levinson DF;Li QS;Rujescu D;Rietschel M;Weinberger DR;Straub RE;Walters JTR;Owen MJ;O'Donovan MC;Mowry BJ;Ophoff RA;Andreassen OA;Esko T;Petryshen TL;Kendler KS;Schizophrenia Working Group of the Psychiatric Genomics Consortium;Fanous AH
• 通讯作者: Fanous AH