MHC Genetics Core

摘要-核心C：MHC基因分型核心 MHC基因分型核心的目标是支持遗传特征和育种策略 恒河猴SPF群体的研究，重点是优化艾滋病相关研究的殖民地。的 核心的三个目标建立在核心的现有优势之上，并纳入了全基因组方法 对殖民地进行更严格的遗传鉴定。 具体目标1：对艾滋病研究者很重要的MHC I类等位基因，将使用高分辨率基因分型技术进行基因分型。 与威斯康星州NPRC Genomics Services合作进行测序。175只动物的基因型 将每年获得。 具体目标2：GbS（每年170只动物）、全外显子组序列（WES）（每年24只动物）和全外显子组序列（WES） 将生成基因组测序（WGS）（每年9只动物），以提供a）更稳健的AIM集 定义全基因组和特定基因座的印度和中国血统信息，B）亲子关系 用于验证谱系和调查菌落起源的信息， 鉴定携带与艾滋病研究相关的已知和新鉴定的等位基因的动物， 影响传染病发病机理和疫苗有效性，以及d）与 更广泛的研究社区。 具体目标3：目标1和2的遗传数据将用于最大限度地扩大殖民地的遗传多样性， 保持足够数量的动物具有特异性MHC I类等位基因和SIV/HIV祖先 相关研究。核心C将与SPF监督委员会和核心A合作， 使用来自原始殖民地1和2的亲本动物和新获得的 动物 我们对SNPRC U42支持的SPF印度恒河猴群体的表征将提供关键的 基于基因组学的信息，以确保这些有价值的动物艾滋病研究人员的可用性， 殖民地的后代此外，我们基于基因组学的数据对于计划中的 U42支持的殖民地扩张

Abstract– Core C: MHC Genetic Typing Core The objectives of the MHC Genetic Typing Core are to support the genetic characterization and breeding strategy of the rhesus macaque 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 genome-wide approaches towards more rigorous genetic characterization of the colony. Specific aim 1: MHC Class I alleles, important to AIDS investigators, will be genotyped using high resolution sequencing in collaboration with Wisconsin NPRC Genomics Services. The genotypes on 175 animals will be obtained each year. Specific aim 2: GbS (170 animals per year), whole exome sequence (WES) (24 animals per year) and whole genome sequencing (WGS) (9 animals per year) will be generated to provide a) a more robust 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 newly identified alleles relevant for AIDS research and impacting infectious disease pathogenesis and vaccine-effectiveness, and d) genetic data to share with the broader research community. Specific 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 C will work with the SPF Oversight Committee and Core A to assemble breeding groups across our single colony using parent animals from original Colonies 1 and 2 and newly acquired animals. Our characterization of the SNPRC U42-supported SPF Indian rhesus macaque colony will provide critical genomics-based information to ensure the availability of these valuable animals for AIDS researchers for many colony generations to come. Furthermore, our genomics-based data will also be important for the planned expansion of the U42-supported colony.