Analytical Tools for Studies of the Genomics of Isolation between Plant Taxa

用于研究植物类群之间分离的基因组学的分析工具

• 批准号: 0701757
• 负责人: Christian Buerkle
• 金额: $ 39.94万
• 依托单位: University of Wyoming
• 依托单位国家: 美国
• 项目类别: Standard Grant
• 财政年份: 2007
• 资助国家: 美国
• 起止时间: 2007-09-01 至 2011-08-31
• 项目状态: 已结题
• 来源: https://www.nsf.gov/awardsearch/showAward?AWD_ID=0701757&HistoricalAwards=false
• 关键词: Analytical; Tools; Studies; Genomics; Isolation

Genes are limited in their tendency to move between hybridizing plant species by their effects on plant traits and their interaction with a foreign genetic background. This project will result in statistical tools and software for uncovering the genetic basis of isolation between plant taxa and in the application of these tools to plants of economic importance. Hybridization in sunflowers and cottonwoods (Populus) will serve as tests of the methods and software. The application of these tools to sunflowers will result in the identification of genetic and phenotypic components of isolation between crop plants and wild sunflowers. For example, genes that are closely associated with traits of domesticated plants (e.g., loss of seed dormancy) are expected to move into the gene pool of wild sunflowers at a reduced rate relative to genes that are not closely associated with domestication traits. In the case of the common hybridization between species of cottonwoods (Populus), these tools will identify genomic regions that contribute to isolation in multiple pairs of species and among geographic locations at which species meet and hybridize. Hybridization is likely to continue to play a significant role in the generation and improvement of Populus cultivars. An understanding of which portions of the genome move easily across species boundaries, and from cultivars to wild relatives, will be an important consideration in future breeding efforts. Research groups currently studying these taxa will cooperate in the development by providing user feedback and diverse datasets. In the process of developing these research tools, several graduate and postdoctoral students will receive significant training in computational biology. The sharing of ideas between developers and users will be facilitated by significant exchanges of personnel. The resulting software, written in R, will be broadly disseminated for use by plant biologists who work with hybridizing taxa (available from http://www.uwyo.edu/buerkle/software), and archived on a global network (CRAN http://cran.us.r-project.org). Release and updates will be announced through an R a mailing list.

基因在杂交植物物种之间移动的倾向受到它们对植物性状的影响以及它们与外来遗传背景的相互作用的限制。该项目将产生统计工具和软件，用于揭示植物分类群之间隔离的遗传基础，并将这些工具应用于具有经济重要性的植物。杂交向日葵和三角叶杨（杨）将作为测试的方法和软件。这些工具的应用向日葵将导致作物植物和野生向日葵之间的隔离的遗传和表型成分的鉴定。例如，与驯化植物的性状密切相关的基因（例如，种子休眠的丧失）相对于那些与驯化性状不密切相关的基因而言，预计将以较低的速度进入野生向日葵的基因库。在三角叶杨（Populus）物种之间的常见杂交的情况下，这些工具将识别有助于在多对物种中以及在物种相遇和杂交的地理位置中分离的基因组区域。杂交在杨树品种的产生和改良中可能继续发挥重要作用。了解基因组的哪些部分容易跨越物种界限，从栽培品种到野生亲缘关系，将是未来育种工作的重要考虑因素。目前正在研究这些分类群的研究小组将通过提供用户反馈和不同的数据集来合作开发。在开发这些研究工具的过程中，一些研究生和博士后学生将接受计算生物学方面的重要培训。开发人员和用户之间的思想交流将通过大量的人员交流得到促进。用R语言编写的软件将广泛传播，供从事杂交分类群工作的植物生物学家使用（可从http：//www.uwyo.edu/buerkle/software获得），并在全球网络上存档（CRAN http://cran.us.r-project.org）。 发布和更新将通过R a邮件列表公布。