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.

主要研究者：Erich Grotewold（The俄亥俄州State University（OSU））coPI：John Gray（University of Toledo（UT），OH; subawardee）and Ramana Davuluri（The俄亥俄州State University（OSU））合作者：丹尼尔Janies（The俄亥俄州州立大学（OSU））植物系统生物学的一个新兴主题是建立将系统组分和农艺性状联系起来的调控网络架构。该项目的目标是提供一个协调一致的努力，在几种禾本科作物（玉米，高粱，甘蔗和水稻）之间进行比较转录基因组学，结合实验工具和生物信息学资源的开发，以发现和显示调控基序。Grass Regulatory Information Service（GRASSIUS，http：//www.grassius.org/）将作为一个公共网络资源，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调控靶向的基因以及它们参与的调控基序。将开发一种用于体内鉴定TF的直接靶点的方法，该方法即使在没有完整基因组序列的情况下也应该适用，并将其应用于鉴定玉米、水稻、高粱和甘蔗TF的一小部分的直接靶点。连同产生一个大型的集中收集的质粒窝藏开放阅读框架的几个TF和抗体的一个子集，这个项目将促进社区范围内的蛋白质-DNA相互作用的识别，建立草的监管地图至关重要。调控基序与QTL的实验和计算整合将提供来自这些研究的结果的加速翻译到农学相关性的问题。受益于越来越多的基因组序列，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，建立控制植物基因表达的调控网络的架构，开创性地将比较转录基因组学领域推向重要的禾本科作物。该项目的跨学科性质提供了一个独特的机会，在不同层次的培训（本科生，研究生和博士后）在几个学科，培训将通过工具和资源的应用程序在这里开发到UT和俄勒冈州立大学的课堂，在现有的俄勒冈州立大学功能基因组学培训研讨会，并通过在植物调控网络的新研讨会的发展。与草基因组学领域的国际领导者正在进行的合作的扩大将进一步加强这一提议的教育影响，通过为学生和博士后提供在实际需要的领域在国外推进研究的机会，但在国内正在进行适度的研究（例如，甘蔗研究）。最后，将继续开发可上网查阅的公共数据库，以确保尽可能广泛地传播该项目的调查结果。