MHC Genetic Typing Core

MHC 基因分型核心

• 批准号: 10625846
• 负责人: CHARLOTTE HOTCHKISS
• 金额: $ 15.64万
• 依托单位: UNIVERSITY OF WASHINGTON
• 依托单位国家: 美国
• 财政年份: 2002
• 资助国家: 美国
• 起止时间: 2002-09-30 至 2024-05-31
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/10625846
• 关键词: Acquired Immunodeficiency Syndrome; Alleles; Animal Model; Animals; Breeding; Chlamydia; Coccidioidomycosis; Communicable Diseases; DNA; Data; Discrimination; Disease; Disease Outcome; Disease Progression; Disease Resistance; Disease susceptibility; Encephalitis; Genetic; Genetic Variation; Genome; Genomics; Genotype; Goals; HIV; HIV/AIDS; Haplotypes; Human; Immune response; Inbreeding; Individual; Knowledge; MHC Class I Genes; Macaca; Macaca mulatta; Macaca nemestrina; Maintenance; Methodology; Microfluidics; Minor; Modeling; Modernization; Molecular; Monitor; Outcome; Parents; Population; Prevention; Records; Reporting; Reproducibility; Research; Research Design; Rhesus; Risk; Rodent Model; SIV; SNP array; Sampling; Short Tandem Repeat; Single Nucleotide Polymorphism; Study Subject; Study models; Technology; Testing; Update; Validation; Viral Load result; Work; design; genetic pedigree; genome analysis; genome-wide linkage; genomic tools; interest; nonhuman primate; novel; offspring; pathogen; research study; success; tool

Project Summary/Abstract: Macaca nemestrina serves as a critical animal model for the study and treatment of AIDS and AIDS-related diseases. However the genomic characterization of M. nemestrina remains limited. Thus one goal of the proposed work is to expand genome analysis, enabling the update of tools used to inform the genetic management and assignment of M. nemestrina for S/HIV studies. Towards this goal, we have used genotyping-by-sequencing (GBS) to identify single nucleotide polymorphisms (SNPs) with prevalent minor alleles among subjects in the WaNPRC breeding colony. These SNPs will be used to support the design of a 96 SNP panel for use in parentage validation. The 96 SNP array will then be evaluated by genotyping a set of 96 M. nemestrina DNAs, including 6 replicate samples to test for genotype reproducibility, and 90 DNA samples from animals with known parentage to test for accurate parentage discrimination. Once validation is complete, the SNP array will be used to re-genotype the breeding colony, enabling a smooth transition from the STR platform to SNP typing for parentage assessment. In addition, this project will expand MHC Class I allele haplotype analysis of the WaNPRC breeding colony to ensure that all SPF breeding colony animals are genetically characterized.

项目概要/摘要： 猕猴是研究和治疗艾滋病及艾滋病相关疾病的重要动物模型。 疾病然而，M. nemestrina仍然有限。因此， 拟议的工作是扩大基因组分析，使更新的工具，用于告知遗传 管理和分配M. Nemestrina用于S/HIV研究。为了实现这一目标，我们使用了 测序基因分型（GBS），以确定单核苷酸多态性（SNP）， WaNPRC繁殖群体中受试者之间的等位基因。这些SNP将用于支持设计一种 用于亲子鉴定的96个SNP组。然后通过对一组SNP进行基因分型来评估96个SNP阵列。 96米Nemestrina DNA，包括6个重复样品以测试基因型再现性，和90个DNA 从具有已知亲子关系的动物中采集样本，以测试准确的亲子关系区分。一旦确认 完成后，SNP阵列将用于对育种群体进行重新基因分型，从而实现从 STR平台用于SNP分型以进行亲子鉴定。此外，该项目将扩大MHC I类 WaNPRC繁殖群体的等位基因单倍型分析，以确保所有SPF繁殖群体动物 基因特征