Diabesity Gene Discovery at Chromosome 6q23

6q23 染色体上的糖尿病基因发现

• 批准号: 7029718
• 负责人: CHRISTOPHER P JENKINSON
• 金额: $ 45.06万
• 依托单位: UNIVERSITY OF TEXAS HLTH SCIENCE CENTER
• 依托单位国家: 美国
• 财政年份: 2004
• 资助国家: 美国
• 起止时间: 2004-04-01 至 2009-03-31
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/7029718
• 关键词: Mexican Americans; chromosomes; gene expression; genetic mapping; genetic susceptibility; genotype; high throughput technology; human genetic material tag; linkage disequilibriums; linkage mapping; microarray technology; noninsulin dependent diabetes mellitus; phenotype; polymerase chain reaction; protein structure function; quantitative trait loci; single nucleotide polymorphism

DESCRIPTION (provided by applicant): Type 2 diabetes mellitus (T2DM) and related disorders are a major health problem and rapidly increasing in prevalence in most human populations. We have identified a chromosomal location (6q23) which is strongly linked to "diabesity" phenotypes in Mexican Americans. The phenotypes include fasting plasma insulin and obesity. These findings have recently been independently replicated in several other populations. We propose to localize and identify the susceptibility gene or genes located at 6q23 in a large Mexican American cohort comprising > 2,000 subjects from two large population studies (SAFADS/SAFGDS and VAGES). This is the largest repository of Mexican American DNAs and phenotypic data for diabetes gene discovery and provides unprecedented power to localize genes. Genome-wide scans are complete in SAFADS/SAFGDS and will soon be completed in VAGES. We will select single nucleotide polymorphisms (SNPs), from public and private SNP databases, which cover the linked region at high density (1 per 10 kb). The SNPs will be located gene-centrically within the linkage peak region responsible for > 99% of the evidence for linkage. These SNPs will be genotyped using high-throughput procedures, and the resulting data will be used to measure linkage disequilibrium and define haplotype structure within the region. SNP genotyping will be performed in a novel cost-minimizing three-phase strategy using progressively larger datasets. We will calculate association of SNPs with diabesity phenotypes and perform linkage analysis conditional on associated SNPs, to define loci which contain variants that account for the observed linkage. All common gene-centric SNPs within a defined target gene or genes will be genotyped and the data analyzed using a novel quantitative trait nucleotide (QTN) approach which utilizes the information from all SNPs simultaneously to fully account for association. Rigorous validation of the highest probability gene(s) will utilize a battery of statistical and molecular genetic techniques: (i) QTN and conditional linkage analyses; (ii) bioinformatic analysis and prediction of gene/mRNA/protein structure, function, and cellular location; and (iii) expression analyses of normal and variant forms of the gene using DNA microarrays and quantitative RT-PCR, in appropriate cell lines, under various nutritional and hormonal perturbations, to elucidate pathophysiological mechanisms, prior to the design of complementary in vivo clinical studies.

描述（由申请方提供）：2型糖尿病（T2 DM）和相关疾病是一种主要的健康问题，在大多数人群中的患病率迅速增加。我们已经确定了一个染色体位置（6 q23），这是密切相关的“糖尿病”的墨西哥裔美国人的表型。表型包括空腹血浆胰岛素和肥胖。这些发现最近在其他几个人群中得到了独立的复制。我们建议在一个大型墨西哥裔美国人队列中定位和鉴定位于6 q23的一个或多个易感基因，该队列包括来自两个大型人群研究（SAFADS/SAFGDS和VAGES）的> 2，000名受试者。这是最大的墨西哥裔美国人DNA和糖尿病基因发现表型数据库，并为基因定位提供了前所未有的力量。全基因组扫描在SAFADS/SAFGDS中完成，很快将在VAGES中完成。我们将从公共和私人SNP数据库中选择单核苷酸多态性（SNP），这些数据库以高密度（每10 kb 1个）覆盖连锁区域。SNP将以基因为中心位于连锁峰区域内，负责> 99%的连锁证据。这些SNP将使用高通量程序进行基因分型，所得数据将用于测量连锁不平衡并确定区域内的单倍型结构。SNP基因分型将在一种新的成本最小化的三阶段策略中使用逐渐增大的数据集进行。我们将计算SNPs与糖尿病表型的关联，并在相关SNPs的条件下进行连锁分析，以定义包含解释所观察到的连锁的变体的基因座。将对定义的靶基因或基因内的所有常见基因中心SNP进行基因分型，并使用新型数量性状核苷酸（QTN）方法分析数据，该方法同时利用来自所有SNP的信息以充分说明相关性。 最高概率基因的严格验证将利用一系列统计和分子遗传技术：（i）QTN和条件连锁分析;（ii）基因/mRNA/蛋白质结构、功能和细胞位置的生物信息学分析和预测;和（iii）在适当的细胞系中，使用DNA微阵列和定量RT-PCR分析基因的正常和变异形式的表达，在各种营养和激素干扰下，在设计补充体内临床研究之前，阐明病理生理学机制。