The Grass Regulome Initiative: Integrating Control of Gene Expression and Agronomic Traits Across the Grasses

草调节组计划：整合草类基因表达和农艺性状的控制

• 批准号: 0701405
• 负责人: Erich Grotewold
• 金额: $ 247.96万
• 依托单位: Ohio State University Research Foundation -DO NOT USE
• 依托单位国家: 美国
• 项目类别: Continuing Grant
• 财政年份: 2007
• 资助国家: 美国
• 起止时间: 2007-09-01 至 2012-08-31
• 项目状态: 已结题
• 来源: https://www.nsf.gov/awardsearch/showAward?AWD_ID=0701405&HistoricalAwards=false
• 关键词: Grass; Regulome; Initiative; Integrating; Control

PI: Erich Grotewold (The Ohio State University (OSU))coPIs: John Gray (University of Toledo (UT),OH; subawardee) and Ramana Davuluri (The Ohio State University (OSU))Collaborator: Daniel Janies (The Ohio State University (OSU))An emerging theme in plant systems biology is establishing the architecture of regulatory networks and linking system components to agronomic traits. The goal of this project is to provide a concerted effort to perform comparative transcriptional genomics across several grass crops (maize, sorghum, sugarcane and rice), combining the development of experimental tools and bioinformatic resources to discover and display regulatory motifs. The Grass Regulatory Information Service (GRASSIUS, http://www.grassius.org/) will be implemented as a public web resource that integrates sequence and expression information on transcription factors (TFs), their DNA-binding properties, TF binding sites in the genome, the genes that TFs target for regulation and the regulatory motifs in which they participate. A method for the in vivo identification of direct targets for TFs, which should be applicable even in the absence of a complete genome sequence, will be developed and applied towards the identification of direct targets for a small subset of maize, rice, sorghum and sugarcane TFs. Together with the generation of a large centralized collection of plasmids harboring open reading frames for several TFs and antibodies to a subset of them, this project will facilitate the community-wide identification of protein-DNA interactions, essential for establishing the grass regulatory map. The experimental and computational integration of regulatory motifs with QTLs will provide an accelerated translation of findings derived from these studies to issues of agronomic relevance. Benefiting from the increasing amount of genome sequence available, this proposal integrates genetics, molecular biology, biochemistry, statistics, bioinformatics and computer sciences in establishing the architecture of the regulatory networks that control plant gene expression, in a pioneering effort to launch the comparative transcriptional genomics field to important grass crops. The interdisciplinary nature of this project provides a unique opportunity for training at various levels (undergraduate, graduate and post-doctoral) across several disciplines, training that will be complemented by the application of tools and resources developed here into the classroom at UT and OSU, in the existing OSU Functional Genomics Training Workshop, and through the development of a new workshop in Plant Regulatory Networks. The expansion of ongoing collaborations with international leaders in the field of grass genomics will further enhance the educational impact of this proposal, by offering students and postdocs an opportunity to advance their research abroad in areas of actual need, but for which modest research is ongoing nationally (e.g., sugarcane research). Finally, the development of Web-accessible public databases will continue to ensure that the findings derived from this project will have the broadest possible dissemination.

PI：Erich Grotewold(俄亥俄州立大学(OSU))Copis：John Gray(俄亥俄州托莱多大学(UT)；获奖者)和Ramana Davuluri(俄亥俄州立大学(OSU)合作者：Daniel Janies(俄亥俄州立大学(OSU))植物系统生物学的一个新兴主题是建立调控网络的架构，并将系统组件与农艺性状联系起来。该项目的目标是协同努力，对几种草本植物(玉米、高粱、甘蔗和水稻)进行比较转录基因组学研究，结合实验工具和生物信息资源的开发，以发现和展示调控基序。草类调控信息服务(GRASSIUS，http://www.grassius.org/))将作为一个公共网络资源，整合关于转录因子的序列和表达信息、它们的DNA结合特性、基因组中的转录因子结合位点、转录因子作为调控目标的基因及其参与的调控基序。将开发一种体内鉴定转铁蛋白直接靶标的方法，该方法即使在没有完整基因组序列的情况下也应该适用，并将应用于鉴定玉米、水稻、高粱和甘蔗转铁蛋白的一小部分的直接靶标。随着大量集中收集的含有几个转录因子的开放阅读框架和其中一部分抗体的质粒的产生，该项目将促进在社区范围内识别蛋白质-DNA相互作用，这对建立GRASS调控图谱至关重要。调控基序与QTL的实验和计算集成将加速将这些研究得出的结果转化为与农艺相关的问题。得益于可获得的基因组序列的数量不断增加，该建议整合了遗传学、分子生物学、生物化学、统计学、生物信息学和计算机科学，建立了控制植物基因表达的调控网络的体系结构，为将比较转录基因组学领域应用于重要的牧草作物做出了开创性的努力。该项目的跨学科性质为几个学科的不同层次(本科生、研究生和博士后)的培训提供了一个独特的机会，培训将通过将这里开发的工具和资源应用于德克萨斯大学和俄勒冈州立大学的课堂、在现有的俄勒冈州大学功能基因组学培训讲习班中以及通过在植物监管网络中开发一个新的研讨会来补充。通过为学生和博士后提供机会推进他们在实际需要但国内正在进行的适度研究(例如甘蔗研究)领域的研究，扩大与草基因组学领域国际领先者的持续合作将进一步加强这一提议的教育影响。最后，开发可上网的公共数据库将继续确保该项目得出的结论将得到尽可能广泛的传播。