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

该项目将为水稻这一主要粮食作物的基因功能分析提供一个社区资源。完全序列索引的突变体收集将为研究人员提供80%的可能性，以确定获得具有其感兴趣基因突变的水稻品系。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多种生物过程的基因表征。拟议的遗传资源预计将极大地促进水稻和其他谷类作物的研究，并将为其他主粮作物的多种性状的功能基因组学分析奠定基础。研究生、博士后、访问学者和教职员工将获得有关序列数据分析、水稻生长和遗传技术以及鉴定感兴趣基因对应突变的分析的在线教程。序列索引的植物突变体集合极大地促进了植物和动物生物学的研究，特别是在模式生物中，如拟南芥。水稻是全球重要的主要粮食作物，这样的收集对水稻尤其重要，也为其他单子叶植物物种提供了榜样。罗纳德实验室和合作者在模型中创建了一个公开的、完全测序的突变集合，遗传上易于处理，日本水稻品种KitaakeX。KitaakeX的生命周期短（9-10周），接近拟南芥。该方案利用了一个已建立的、快中子诱变的突变种群产生的KitaakeX。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，节省了人力和时间。拟议项目的目的是进一步表征和分布KitaakeX突变群体，为研究人员提供他们感兴趣的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个突变系进行了测序。对第一组1504个突变系的深入分析显示，共有91513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。该项目将描述3200个突变系的基因突变特征，并通过优化的数据库KitBase获取关键数据。种子将根据要求提供。该奖项反映了美国国家科学基金会的法定使命，并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，被认为值得支持。

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.