Complete genomic DNA sequence of the sooty mangabey MHC

乌白眉猴 MHC 的完整基因组 DNA 序列

• 批准号: 8238286
• 负责人: DANIEL E. GERAGHTY
• 金额: $ 85.71万
• 依托单位: FRED HUTCHINSON CANCER RESEARCH CENTER
• 依托单位国家: 美国
• 财政年份: 2011
• 资助国家: 美国
• 起止时间: 2011-03-15 至 2013-12-31
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/8238286
• 关键词: Acquired Immunodeficiency Syndrome; Africa; African; Animal Model; Antigens; Basic Science; Benign; Biological; Cercocebus atys; Cercopithecus aethiops; Cercopithecus pygerythrus; Chronic; Clinical Research; Communities; Complex; DNA Sequence; Data; Disease; Doctor of Philosophy; Fred Hutchinson Cancer Research Center; Future; Gene Expression; Genes; Genetic; Genetic Polymorphism; Genetic screening method; Genome; Genomic Library; Genomics; HIV; HIV-1; HIV-2; Health; Human; Human Genome Project; Immune Response Genes; Immune response; Immunologic Deficiency Syndromes; Individual; Infection; Laboratories; Location; Macaca; Macaca mulatta; Major Histocompatibility Complex; Methods; Phase; Phenotype; Population; Principal Investigator; Property; Research; Resources; SIV; Screening procedure; Seroprevalences; Structure; Technology; Time; Universities; Vaccine Design; Virus Diseases; Washington; comparative; cost; nonhuman primate; public health relevance; receptor; research study; transmission process

DESCRIPTION (provided by applicant): Simian immunodeficiency viruses (SIV) naturally infect a variety of nonhuman primates of African origin. SIV seroprevalence is particulariy high in some troops of sooty mangabeys (Cercocebus atys atys). While SIV share many structural and biological properties with human immunodeficiency viruses (HIV), they rarely induce AIDS in their natural hosts. The causative factors that underlie the ability of the same SIV isolate to induce disease in one species and a chronic but benign infection in another species are host genetic factors that have to a large extent been little characterized. A central component of these genetic factors is the Major Histocompatibiltiy Complex (MHC), within which the MHC class I and II antigen-presenting genes reside, alongside a large number of other genes, including some that control MHC-I and -II expression and genes that are in other ways involved in the host immune response. As the human genome project has shown many times over, the establishment of framework genomic DNA sequences can provide fundamental support for, and extension of, a plethora of basic and clinical research studies that are now advancing human health. However, as the human genome project has also shown, establishing framework DNA sequences for regions of the genome harboring immune response genes, including notably the MHC region, is difficult and has largely been ignored by those efforts. We propose to combine commercially available advancements in sequencing technology with methods proven to produce high quality genomic sequence to yield a completed phased genomic DNA sequence of the sooty mangabey MHC as a resource for future studies, including comparative analysis with the rhesus macaque MHC sequence, which we previously completed. Such a resource will provide a direction for functional testing of genetic factors that relate to long- term nonprogression of SIV infection in rhesus macaques, and then to the same phenotype for HIV-1 infection in humans. The identification of causative host genetic factors that control HIV-1 infection in humans would have important implications for disease treatment as well as for vaccine design. To accomplish these objectives we propose to carry out the following specific aims: (1) To derive complete and high quality genomic sequences of the major histocompatibility complex (MHC) and killer Ig-like receptor (KIR) regions from the sooty mangabey. (2) To annotate and make available the derived sequences with an emphasis towards relevance to the SIV research community. PUBLIC HEALTH RELEVANCE (provided by applicant): Simian immunodeficiency viruses (SIV) naturally infect a variety of nonhuman primates and share many structural and biological properties with human immunodeficiency viruses (HIV), but rarely induce AIDS in their natural hosts. We propose to produce a completed phased genomic DNA sequence of the sooty mangabey major histocompatibility complex (MHC) as a resource for future studies using animal models of human HIV-1 infection. This resource will contribute to identifying causative host genetic factors controlling HIV-1 infection in humans, providing direction for disease treatment as well as for vaccine design.

描述（由申请人提供）：猿猴免疫缺陷病毒（SIV）自然感染多种非洲血统的非人灵长类动物。SIV在某些黑白眉（Cercocebus atys atys）群中的血清患病率特别高。虽然SIV与人类免疫缺陷病毒（HIV）具有许多相同的结构和生物学特性，但它们很少在其自然宿主中诱发艾滋病。同一SIV分离物在一个物种中诱发疾病而在另一个物种中诱发慢性但良性感染的能力背后的致病因素是宿主遗传因素，这些因素在很大程度上几乎没有被表征。这些遗传因素的核心组成部分是主要组织相容性复合体（MHC），其中MHC I类和II类抗原呈递基因与大量其他基因一起存在，包括一些控制MHC-I和-II表达的基因以及以其他方式参与宿主免疫反应的基因。正如人类基因组计划多次表明的那样，框架基因组DNA序列的建立可以为目前正在推进人类健康的大量基础和临床研究提供基本支持和扩展。然而，正如人类基因组计划所显示的那样，为包含免疫反应基因的基因组区域（特别是MHC区域）建立框架DNA序列是困难的，并且在很大程度上被这些努力所忽视。我们建议将商业上可用的先进测序技术与已证明可以产生高质量基因组序列的方法相结合，以产生完整的黑白眉猴MHC基因组DNA序列，作为未来研究的资源，包括与我们之前完成的恒河猴MHC序列进行比较分析。这一资源将为恒河猴SIV感染长期不进展的遗传因素的功能测试提供方向，然后为人类HIV-1感染的相同表型提供方向。确定控制人类HIV-1感染的致病宿主遗传因素将对疾病治疗和疫苗设计具有重要意义。为了实现这些目标，我们提出以下具体目标：(1)获得黑白眉主要组织相容性复合体（MHC）和杀伤igg样受体（KIR）区域的完整和高质量的基因组序列。(2)对衍生序列进行注释和提供，重点是与SIV研究界的相关性。