Development of nonhuman primate reference transcriptome resources

非人灵长类参考转录组资源的开发

• 批准号: 8147510
• 负责人: MICHAEL G KATZE
• 金额: $ 79.11万
• 依托单位: UNIVERSITY OF WASHINGTON
• 依托单位国家: 美国
• 财政年份: 2011
• 资助国家: 美国
• 起止时间: 2011-09-01 至 2015-06-30
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/8147510
• 关键词: AIDS Vaccines; Acquired Immunodeficiency Syndrome; Acute; Amino Acid Sequence; Animals; Archives; Atlases; Binding Sites; Bioinformatics; Biology; Biomedical Research; Charge; Code; Communities; Comparative Biology; Complement; Data; Data Analyses; Data Set; Databases; Deposition; Development; Developmental Process; Disease; Drug Delivery Systems; Evolution; Exons; Funding; Gene Expression; Gene Expression Profile; Gene Proteins; Genes; Genetic; Genetic Transcription; Genome; Genomics; Goals; Health; Human; Immune response; Infection; Inflammatory; Introns; Investigation; Letters; Light; Macaca; Macaca mulatta; MicroRNAs; Modeling; Monoclonal Antibody R24; National Center for Research Resources; Natural Immunity; Peptide Sequence Determination; Phase; Primates; Principal Investigator; Process; Proteins; Proteomics; RNA; RNA Sequence Analysis; Reading; Regulation; Research; Research Activity; Research Personnel; Resource Development; Resources; Role; SIV; Sampling; Scientist; Staging; Structure; Systems Biology; Technology; Tissue Sample; Tissues; Transcript; Translational Research; Untranslated RNA; Vaccine Research; Variant; Virus Diseases; Work; computerized data processing; cost; design; genome sequencing; human disease; next generation; nonhuman primate; novel vaccines; programs; research study; response; tool; tool development; virus host interaction; web site; working group

DESCRIPTION (provided by applicant): We propose to generate comprehensive nonhuman primate (NHP) reference transcriptome databases using lllumina's next-generation sequencing platform. These databases will contain information on protein-coding, long noncoding, and small noncoding transcripts, and will provide vast amounts of new information regarding gene and transcript structure, expression, and regulation. To enhance this resource, we will also generate a tissue-specific transcriptome atlas for rhesus macaque and whole transcriptome information from a NHP model of AIDS. These databases will serve as a resource for scientists working on evolution, comparative biology, genetics, genomics, and NHP models of human disease. In Aim 1, we will collaborate with lllumina scientists to generate whole transcriptome (protein-coding and long noncoding) information for 14 NHP species/subspecies, lllumina will perform this sequencing at no cost to the application. The majority of these NHP genomes will be sequenced within the year, and transcriptome information will facilitate genome assembly, annotation, development of new tools for systems biology research, while also providing broad resources for evolutionary biologists. To complement the whole transcriptome project, we will use our lllumina Genome Analyzer to generate a tissue specific transcriptome for rhesus macaque, the most widely used NHP in biomedical research. In Aim 2, we will sequence protein-coding, long noncoding, and small noncoding transcripts from an independently funded study focused on a NHP acute infection model of AIDS. The resulting data will expand the NHP reference transcriptome databases to include new information on virus-host interactions, innate immunity, inflammatory processes, the transition to the adaptive immune response, and infection-induced transcripts. Finally, whole transcriptome data from both Aims will enable the discovery and quantification of noncoding RNAs, which have widespread functionality but are not well understood. Given the importance of NHP primates as models for human health and disease, it is imperative that whole transcriptome information be available for these animals. PUBLIC HEALTH RELEVANCE (provided by applicant): We will use new sequencing technologies to generate information about the structure of nonhuman primate genomes; and the vast diversity of transcripts that these genomes express. This information will have a wide variety of uses, including helping to understand the role of these transcripts in human diseases such as AIDS, the identification of new drug targets, or the design of new vaccine strategies.

描述（由申请人提供）：我们建议使用Lllumina的下一代测序平台生成全面的非人类灵长类动物（NHP）参考转录组数据库。这些数据库将包含有关蛋白质编码，长期编码和小型非编码转录本的信息，并将提供有关基因和转录本结构，表达和调节的大量新信息。为了增强此资源，我们还将从NHP的AIDS模型中生成一个针对恒河猴和整个转录组信息的组织特异性转录组图集。这些数据库将成为研究人类疾病进化，比较生物学，遗传学，基因组学和NHP模型的科学家的资源。在AIM 1中，我们将与Lllumina科学家合作，为14种NHP物种/亚种生成整个转录组（蛋白质编码和长期非编码）信息，Lllumina将免费执行该测序。这些NHP基因组中的大多数将在一年内进行测序，转录组信息将促进基因组组装，注释，开发新的系统生物学研究工具，同时还为进化生物学家提供广泛的资源。为了补充整个转录组项目，我们将使用lllumina基因组分析仪为恒河猴（Rhesus Macaque）生成组织特异性转录组，这是生物医学研究中最广泛使用的NHP。在AIM 2中，我们将从一项以NHP急性感染模型的独立研究的研究中对蛋白质编码，长期不编码和小型非编码转录本进行测序。最终的数据将扩展NHP参考转录组数据库，包括有关病毒宿主相互作用，先天免疫，炎症过程，向适应性免疫反应的过渡以及感染引起的转录本的新信息。最后，来自两个目标的整个转录组数据将使非编码RNA的发现和量化具有广泛的功能，但并未得到充分了解。鉴于NHP灵长类动物作为人类健康和疾病的模型的重要性，因此必须为这些动物提供整个转录组信息。 公共卫生相关性（由申请人提供）：我们将使用新的测序技术来生成有关非人类灵长类动物基因组结构的信息；以及这些基因组表达的大量转录本。这些信息将具有多种用途，包括帮助了解这些成绩单在人类疾病中的作用，例如艾滋病，新药物靶标的识别或新疫苗策略的设计。