MHC GENETIC TYPING CORE

摘要 为了加强约翰霍普金斯大学猪尾猕猴群体作为研究资源， 艾滋病毒感染的各个方面，我们集中精力提高我们对猪尾猕猴（猕猴）的认识 nemestrina）遗传学。我们继续鉴定和研究猪尾猕猴MHC I类和MHC II类等位基因 使用最先进的下一代测序方法与大卫奥康纳博士合作 在威斯康星州大学。这项持续的努力已经发现了新的MHC等位基因，并定义了MHC I类 猪尾猕猴的单倍型为了扩大我们在MHC以外的工作范围，我们与Dr. 斯坦福大学的迈克尔·斯奈德（Michael Snyder）的研究小组， 长读测序技术。这种猪尾猕猴资源将促进功能基因组学的使用 在SIV研究中。扩大猪尾猕猴的遗传数据将a）增加 猪尾猕猴的研究用途和B）在来自 博士Sree Kanthaswamy，长期合作者。这些目标将通过以下两个目标实现： 曼考斯基医生的方向具体目标1是继续表征猪尾猕猴MHC I类和 使用最先进的深度测序方法在JHU集落出生的动物中检测MHC II类基因型， 从而提高HIV的SIV/猕猴模型的精确性和可重复性。具体目标2是提高我们的 从头长读序组装猪尾猕猴基因组，以增加这方面的研究价值 猕猴物种通过启用功能基因组方法。

Abstract To enhance the Johns Hopkins University pigtail macaque colony as a research resource for studying multiple facets of HIV infection, we have concentrated on improving our understanding of pigtail macaque (Macaca nemestrina) genetics. We continue to identify and study pigtail macaque MHC class I and MHC class II alleles using state of the art next generation sequencing approaches working in collaboration with Dr. David O'Connor at the University of Wisconsin. This ongoing effort has discovered novel MHC alleles and defined MHC class I haplotypes in pigtail macaques. To broaden the scope of our efforts beyond MHC, we have worked with Dr. Michael Snyder's team at Stanford to generate a de novo assembly of the pigtail macaque genome that used long-read sequencing technology. This pigtail macaque resource will facilitate use of functional genomics approaches in SIV studies. Expanding the genetic data available for pigtail macaques will a) increase the research utility of pigtail macaques and b) assist in genetic management of the JHU colony with guidance from Dr. Sree Kanthaswamy, a long term collaborator. These goals will be accomplished through two aims under the direction of Dr. Mankowski. Specific Aim 1 is to continue to characterize pigtail macaque MHC class I and MHC class II genotypes in JHU colony-born animals using state of the art deep sequencing approaches, thereby enhancing rigor and reproducibility of SIV/macaque models of HIV. Specific Aim 2 is to improve our de novo long-read sequencing assembly of the pigtail macaque genome to increase the research value of this macaque species by enabling functional genomic approaches.