TRTech-PGR: Establishment of a community resource for analysis of gene phenotype in a tractable rice variety

TRTech-PGR：建立用于分析易驯化水稻品种基因表型的社区资源

• 批准号: 2027795
• 负责人: Pamela Ronald
• 金额: $ 110万
• 依托单位: University of California-Davis
• 依托单位国家: 美国
• 项目类别: Standard Grant
• 财政年份: 2020
• 资助国家: 美国
• 起止时间: 2020-09-01 至 2024-08-31
• 项目状态: 已结题
• 来源: https://www.nsf.gov/awardsearch/showAward?AWD_ID=2027795&HistoricalAwards=false
• 关键词: TRTech; PGR; Establishment; community; resource

This project will result in a community resource for analysis of gene function in rice, a staple food crop. The fully sequence-indexed mutant collection will provide researchers an 80% probability of identifying a obtaining a rice line with a mutation in their gene of interest. The mutant and associated data will be made publicly accessible via KitBase and public repositories. Public availability and distribution of these tools will enable researchers to advance characterization of genes controlling diverse biological processes rapidly. The proposed genetic resource is expected to facilitate research significantly in rice as well as in other cereal crops and will set the stage for functional genomics analysis of diverse traits in other staple food crops. Graduate students, postdoctoral fellows, visiting scholars, and faculty will receive online tutorials in sequence data analysis, rice growth and genetic techniques, and assays to identify the mutation corresponding to the gene of interest. Sequence-indexed plant mutant collections have significantly facilitated plant and animal biology research, especially in model organisms, e.g., Arabidopsis thaliana. Such a collection is particularly important for rice, which is a globally important staple food crop, and which also serves as a model for other monocotyledonous species. The Ronald laboratory and collaborators created a publicly available, fully sequenced mutant collection in the model, genetically tractable, Japonica rice variety KitaakeX. KitaakeX has a short life cycle (9-10 weeks), approaching that of Arabidopsis. This proposal takes advantage of an established, fast-neutron-mutagenized mutant population generated KitaakeX. Compared to insertional mutagenesis that requires thousands of transformations, fast-neutron irradiation-induced mutagenesis does not require transformation and regeneration, saving labor and time. The aim of the proposed project is to further characterize and distribute the KitaakeX mutant population, providing researchers rice lines with mutations in their genes of interest. In collaboration with the Joint Genome Institute (JGI), the Ronald laboratory has sequenced 3200 mutant lines. In-depth characterization of the first set of 1504 mutant lines reveals a total of 91,513 mutations affecting 32,307 genes, i.e., 58% of all rice genes, with mutations evenly distributed across the genome. The proposed project will characterize the genetic mutations in 3200 mutant lines and make key data via an optimized database, KitBase. The seeds will be made available upon request.This award reflects NSF's statutory mission and has been deemed worthy of support through evaluation using the Foundation's intellectual merit and broader impacts review criteria.

该项目将产生一个社区资源，用于分析主食作物水稻的基因功能。全序列索引的突变体集合将为研究人员提供80%的概率，以确定获得在其感兴趣的基因中具有突变的水稻品系。突变体和相关数据将通过KitBase和公共存储库公开访问。这些工具的公开可用性和分发将使研究人员能够快速推进控制各种生物过程的基因的表征。预计拟议的遗传资源将大大促进水稻和其他谷类作物的研究，并将为其他主食作物不同性状的功能基因组学分析奠定基础。研究生，博士后研究员，访问学者和教师将获得序列数据分析，水稻生长和遗传技术的在线教程，以及鉴定与感兴趣的基因对应的突变的测定。序列索引的植物突变体集合显著地促进了植物和动物生物学研究，特别是在模式生物中，例如，拟南芥这样的收集对于水稻尤其重要，水稻是全球重要的主粮作物，也是其他单子叶植物物种的模型。罗纳德实验室和合作者在遗传上易处理的粳稻品种KitaakeX中创建了一个公开可用的、完全测序的突变体集合。KitaakeX的生命周期很短（9-10周），接近拟南芥。该提议利用了KitaakeX产生的已建立的快中子诱变突变群体。与需要数千次转化的插入诱变相比，快中子辐照诱变不需要转化和再生，节省了劳动力和时间。拟议项目的目的是进一步表征和分布KitaakeX突变群体，为研究人员提供感兴趣基因突变的水稻品系。罗纳德实验室与联合基因组研究所（JGI）合作，对3200个突变株系进行了测序。对第一组1504个突变株系的深入表征揭示了总共91,513个突变影响32,307个基因，即，所有水稻基因的58%，突变均匀分布在整个基因组中。拟议的项目将表征3200个突变株系中的基因突变，并通过优化的数据库KitBase获得关键数据。该奖项反映了NSF的法定使命，并被认为是值得通过使用基金会的知识价值和更广泛的影响审查标准进行评估的支持。