MHC Genetic Typing Core

项目摘要-核心3：MHC基因分型核心 MHC和基因分型核心的目标是支持遗传特征和育种 SPF群体战略，重点是为艾滋病相关研究优化群体。核心的 三个目标建立在核心现有优势的基础上，并纳入新的方法，以实现更多 该殖民地的严格的遗传特征。 在目标1中，将使用高分辨率对艾滋病研究人员重要的MHC I类等位基因进行基因分型 与威斯康星州核子研究中心的怀斯曼博士合作进行的测序。185个品种的基因分型 每年都会得到动物。 在目标2中，将使用测序分型(GBS)和全基因组测序(WGS)来提供 A)确定印度和中国血统的更强大的血统信息标记(AIMS)集 全基因组和特定基因座的信息，b)亲子关系信息，以验证家系和 调查群体来源，c)基因类型信息，以便于识别携带 与艾滋病相关研究和影响传染病的已知和潜在新等位基因 致病机理和疫苗有效性，以及d)开发一种共享遗传数据的方法 研究社区使用基于Web的用户界面，允许访问LabKey管理的 数据。 在目标3中，目标1和目标2的遗传数据将用于最大化群体的遗传多样性，而 为SIV/HIV维持足够数量的具有特定MHC I类等位基因和祖先的动物 相关研究。核心3将与核心1和SPF监督委员会合作，将繁殖 使用来自两个群体1和2的动物的小组。

PROJECT SUMMARY – Core 3: MHC Genetic Typing Core The objectives of the MHC and Genetic Typing Core are to support the genetic characterization and breeding strategy of the SPF Colony, with a focus towards optimizing the colony for AIDS-related research. The Core's three aims build upon the current strengths of the Core and incorporate new approaches towards more rigorous genetic characterization of the colony. In Aim 1, MHC Class I alleles, important to AIDS investigators, will be genotyped using high resolution sequencing in collaboration with Dr. Wiseman at the Wisconsin NPRC. The genotypes on 185 animals will be obtained each year. In Aim 2, both genotype-by-sequencing (GbS) and whole genome sequencing (WGS) will be used to provide a) a more robust Ancestry Informative Markers (AIMs) set defining Indian and Chinese ancestry information both genome-wide and at specific loci, b) parentage information to verify pedigrees and investigate colony origins, c) genotypic information to allow for the identification of animals carrying known and potentially new alleles relevant for AIDS-related research and impacting infectious disease pathogenesis and vaccine effectiveness, and d) development of a means to share the genetic data with the research community using a web-based user interface allowing access to LabKey-managed data. In Aim 3, genetic data from Aims 1 and 2 will be used to maximize genetic diversity of the colony, while maintaining sufficient numbers of animals with specific MHC Class I alleles and ancestry for SIV/HIV related studies. Core 3 will work with Core 1 and the SPF Oversight Committee to assemble breeding groups using animals derived from the both Colonies 1 and 2.