CROSS SPECIES MICROARRAY-BASED GENOMIC SELECTION APPLICATION

基于跨物种微阵列的基因组选择应用

• 批准号: 8357528
• 负责人: James W Thomas
• 金额: $ 2.47万
• 依托单位: EMORY UNIVERSITY
• 依托单位国家: 美国
• 财政年份: 2011
• 资助国家: 美国
• 起止时间: 2011-08-01 至 2012-04-30
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/8357528
• 关键词: Callithrix; Drops; Funding; Genomics; Grant; Human; Human Genome; Macaca mulatta; Methodology; Methods; National Center for Research Resources; Pan Genus; Pongo pygmaeus; Primates; Principal Investigator; Research; Research Infrastructure; Resources; Sampling; Source; Technology; Testing; United States National Institutes of Health; base; comparative genomics; cost; genome sequencing; population based; vertebrate genome

This subproject is one of many research subprojects utilizing the resources provided by a Center grant funded by NIH/NCRR. Primary support for the subproject and the subproject's principal investigator may have been provided by other sources, including other NIH sources. The Total Cost listed for the subproject likely represents the estimated amount of Center infrastructure utilized by the subproject, not direct funding provided by the NCRR grant to the subproject or subproject staff. Technological advances and the proven value of comparative genomics have led to the sequencing of a diverse sample of vertebrate genomes. Even so, only a tiny fraction of all species have been selected for genome sequencing. Microarray-based genomic selection (MGS) is a technology being tested using the available NHP genomic resources as a springboard for population-based genomic sequencing in a greater diversity of species. To date we have developed an MGS array based on the sequence of the human genome, and have tested the ability of this array to capture orthologous fragments from 4 NHP (chimpanzee, orangutan, rhesus macaque and marmoset), at increasing evolutionary distances to human. As expected, the efficiency of MGS was correlated negatively with the divergence from human. Our results to date suggest that the MGS methodology is quite tolerant of mismatches between the probe and target sequence when they are 97.5% identical, but the efficiency of this method drops off significantly as the divergence increases. Moreover, these initial results demonstrate that we are well on our way to quantifying the cross-species efficiency of this method.

这个子项目是许多利用资源的研究子项目之一 由NIH/NCRR资助的中心赠款提供。次级项目的主要支助 而子项目的主要调查员可能是由其他来源提供的， 包括其他NIH来源。 为子项目列出的总成本可能 代表子项目使用的中心基础设施的估计数量， 而不是由NCRR赠款提供给子项目或子项目工作人员的直接资金。 技术的进步和比较基因组学的价值已经得到证实，导致脊椎动物基因组的多样化样本的测序。即便如此，所有物种中只有一小部分被选中进行基因组测序。基于微阵列的基因组选择（MGS）是一种正在测试的技术，使用现有的NHP基因组资源作为跳板，在更大的物种多样性的群体为基础的基因组测序。到目前为止，我们已经开发了一个MGS阵列的基础上，人类基因组的序列，并测试了该阵列的能力，以捕获orthopathic片段从4 NHP（黑猩猩，猩猩，恒河猴和绒猴），在不断增加的进化距离到人类。正如预期的那样，MGS的效率与与人类的分歧呈负相关。我们的研究结果表明，MGS方法是相当宽容的探针和靶序列之间的错配时，他们是97.5%相同，但这种方法的效率下降显着的分歧增加。此外，这些初步结果表明，我们正在量化这种方法的跨物种效率。