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））coPI：John Gray（托莱多大学（UT），俄亥俄州；亚获奖者）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体系结构并将系统组件与农艺性状联系起来。该项目的目标是共同努力，对几种禾本科作物（玉米、高粱、甘蔗和水稻）进行比较转录基因组学，结合实验工具和生物信息资源的开发来发现和展示调控基序。草地监管信息服务（GRASSIUS，http://www.grassius.org/）将作为公共网络资源实施，整合转录因子（TF）的序列和表达信息、它们的 DNA 结合特性、基因组中的 TF 结合位点、TF 调控的目标基因以及它们参与的调控基序。将开发一种体内识别转录因子直接靶标的方法，即使在缺乏完整基因组序列的情况下也应该适用，并将其应用于鉴定一小部分玉米、水稻、高粱和甘蔗转录因子的直接靶标。连同产生大量集中的质粒集合，这些质粒包含多个转录因子的开放阅读框和其中一个子集的抗体，该项目将促进全社区范围内蛋白质-DNA相互作用的识别，这对于建立草调控图谱至关重要。调控基序与 QTL 的实验和计算整合将加速将这些研究结果转化为农艺相关问题。受益于越来越多的可用基因组序列，该提案整合了遗传学、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，开创了重要禾本科作物比较转录基因组学领域的先河。该项目的跨学科性质为跨多个学科的各级（本科生、研究生和博士后）培训提供了独特的机会，培训将通过将此处开发的工具和资源应用到德克萨斯大学和俄勒冈州立大学的课堂、现有的俄勒冈州立大学功能基因组学培训研讨会以及通过在植物监管网络中开发新研讨会来补充培训。扩大与草本基因组学领域国际领导者的持续合作将进一步增强该提案的教育影响，为学生和博士后提供在国外实际需要的领域推进研究的机会，但国内正在进行的研究规模不大（例如甘蔗研究）。最后，可通过网络访问的公共数据库的开发将继续确保该项目的研究结果得到尽可能广泛的传播。