UniformMu: A Transposon Resource for Functional Genomics of Maize

UniformMu：玉米功能基因组学的转座子资源

• 批准号: 1116561
• 负责人: Donald McCarty
• 金额: $ 211.11万
• 依托单位: University of Florida
• 依托单位国家: 美国
• 项目类别: Standard Grant
• 财政年份: 2011
• 资助国家: 美国
• 起止时间: 2011-09-01 至 2018-08-31
• 项目状态: 已结题
• 来源: https://www.nsf.gov/awardsearch/showAward?AWD_ID=1116561&HistoricalAwards=false
• 关键词: UniformMu; Transposon; Resource; Functional; Genomics

PI: Donald R McCarty (University of Florida - Gainesville)CoPI: Karen E. Koch (University of Florida - Gainesville)Collaborators: Carolyn Lawrence (Iowa State University/USDA-ARS) and Marty Sachs (University of Illinois at Urbana-Champaign/USDA-ARS) A public resource for functional genomics of maize will be constructed by sequencing and mapping of thousands of transposon insertions in the maize genome. By generating mutations in genes, transposons provide an important tool for dissecting the functions of maize genes. The resource will be based on the UniformMu population. UniformMu is a large inbred maize population developed specifically for transposon mutagenesis of the maize genome. Thousands of unique, heritable transposon insertions in the population will be mapped in the maize genome using Next Generation DNA sequencing technology. The precisely mapped insertions will be searchable online using the MaizeGDB.org genome browser and database tools. Insertions are linked online to high-quality, sustainable seed stocks distributed to the public without charge by the Maize Genetics Cooperation Stock Center (maizecoop.cropsci.uiuc.edu). By achieving the following objectives the project will approximately double the size and genome coverage of the UniformMu resource:1) Create sustainable seed stocks of 5,760 mutant enriched UniformMu F3 lines for the Maize Genetics Cooperation Stock Center;2) Map the unique germinal transposon insertions in the F3 lines using Next Generation sequencing methods; and, 3) Enhance public awareness and accessibility of the UniformMu resource via MaizeGDB and the Maize Stock Center.Broader impacts: The broad relevance of the UniformMu resource is founded on 1) the importance of maize to basic and applied biological research in the US; 2) the uniqueness of the UniformMu resource inside and outside the US as a tool for functional genomics of maize; 3) the breadth of expected usage by the research community including scientists working with other plant species; and, 4) the dissemination of the resource through established community and national resource centers (MaizeGDB, Maize Genetics Cooperation Stock Center and Genbank) ensuring long-term public accessibility and sustainability of the UniformMu resource. In addition, the project provides a rich training environment that engages diverse undergraduates and postdoctoral mentors in integration of large scale field genetics, transposon biology, next generation sequencing technology, bioinformatics and genomics methods. The resource is accessible online at MaizeGDB.org and seed stocks are distributed by the Maize Genetics Cooperation Stock Center (maizecoop.cropsci.uiuc.edu). Consensus sequences used to map the transposon insertions are deposited in Genbank (www.ncbi.nlm.nih.gov).

PI：Donald R McCarty（佛罗里达大学-盖恩斯维尔）CoPI：Karen E. Koch（佛罗里达大学-盖恩斯维尔）合作者：Carolyn Lawrence（爱荷华州州立大学/USDA-ARS）和Marty Sachs（伊利诺伊大学厄巴纳-香槟分校/USDA-ARS）通过对玉米基因组中数千个转座子插入序列进行测序和作图，将构建玉米功能基因组学的公共资源。 通过在基因中产生突变，转座子为剖析玉米基因的功能提供了重要工具。 该资源将基于UniformMu人口。 UniformMu是专门为玉米基因组的转座子诱变而开发的大型近交玉米群体。将使用下一代DNA测序技术在玉米基因组中绘制数千个独特的、可遗传的转座子插入。精确映射的插入将使用MaizeGDB.org基因组浏览器和数据库工具在线搜索。插入物与玉米遗传合作库存中心（maizecoop.cropsci.uiuc.edu）免费向公众分发的高质量、可持续的种子库存在线链接。 通过实现以下目标，该项目将使UniformMu资源的规模和基因组覆盖率大约翻一番：1）为玉米遗传合作储备中心创建5，760个突变体富集的UniformMu F3系的可持续种子库;2）使用下一代测序方法绘制F3系中独特的germ转座子插入; 3）通过MaizeGDB和玉米储备中心提高公众对UniformMu资源的认识和可访问性。UniformMu资源的广泛相关性基于：1）玉米对美国基础和应用生物学研究的重要性; 2）UniformMu资源作为玉米功能基因组学工具在美国内外的独特性; 3）研究界（包括与其他植物物种合作的科学家）预期使用的广度;以及，4）通过已建立的社区和国家资源中心（MaizeGDB、玉米遗传合作库存中心和Genbank）传播资源，确保UniformMu资源的长期公众可及性和可持续性。此外，该项目还提供了丰富的培训环境，使不同的本科生和博士后导师参与大规模现场遗传学，转座子生物学，下一代测序技术，生物信息学和基因组学方法的整合。 该资源可在MaizeGDB.org在线访问，种子库存由玉米遗传合作库存中心（maizecoop.cropsci.uiuc.edu）分发。用于定位转座子插入的共有序列保存在Genbank（www.ncbi.nlm.nih.gov）中。