Gramene: A Platform for Comparative Plant Genomics

主要研究者：林肯斯坦（冷泉港实验室）CoPI：多琳·韦尔（冷泉港实验室）、苏珊·麦克库奇、爱德华·巴克勒和潘卡伊·贾斯瓦尔（康奈尔大学; subawardee）Gramene数据库（http：www.gramene.org）是一个在线资源，由美国国家科学基金会和美国农业部农业研究服务局联合支持。它整合了水稻、玉米和其他谷物的基因组、遗传和表型信息，从而使科学家和其他终端用户能够方便地获得这些综合信息。 该项目将通过将来自玉米、水稻、小麦、高粱和其他谷物的生物途径和遗传多样性信息纳入资源来增强Gramene。将开发比较基因组学工具，从而使研究人员能够利用从一种植物物种中获得的知识，确定和描述其他物种基因组中具有重要功能的基因和其他要素。科学家们可以利用这些资源来推进我们对具有经济重要性的植物过程的基本理解，如杂种优势，谷物发育，种子休眠，耐旱性和抗病性。此外，所开发的工具将允许估计个别遗传变异的育种价值，从而使育种者能够选择理想的种子组合，以创造具有理想特性的品种，如健壮性、在边缘环境中生长的能力，或具有作为生物燃料和其他高经济价值材料来源的高潜力。通过基因组学努力开发和正在开发的信息资源是推进我们未来生物经济的基本知识基础和满足不断扩大的世界人口预期需要的关键因素。许多信息资源仍然没有得到充分利用，因为数据集支离破碎，缺乏工具在它们之间建立有意义的联系。为了充分释放植物基因组数据的潜力，必须整合不同的数据集，以便在物种内部和物种之间共享信息。提供这种集成是Gramene的目标之一。该项目的另一个目标是通过提供引人注目的，直观的用户界面，将集成数据集交付给植物遗传学家，分子生物学家，进化生物学家和育种家。 最后，该项目将通过一系列在线教程和现场讲习班，向学生、公众和代表性不足的少数群体进行宣传，这涉及一种新颖的、具有成本效益的公私伙伴关系。Gramene产生的所有信息资源将免费提供给科学家，育种家和公众，没有知识产权限制。

PI: Lincoln Stein (Cold Spring Harbor Laboratory)CoPIs: Doreen Ware (Cold Spring Harbor Laboratory), Susan McCouch, Edward Buckler, and Pankaj Jaiswal (Cornell University; subawardee)The Gramene database (http://www.gramene.org) is an online resource, jointly supported by NSF and the US Department of Agriculture's Agricultural Research Service. It integrates the genomic, genetic and phenotypic information in rice, maize and other cereals, thereby giving scientists and other end-users easy access to this integrated information. This project will provide for the enhancement of Gramene by incorporating biological pathway and genetic diversity information from maize, rice, wheat, sorghum, and other cereals into the resource. Comparative genomics tools will be developed, thereby allowing researchers to use knowledge gained in one plant species to identify and characterize functionally significant genes and other elements in the genomes of other species. Scientists can use the resource to make advances in our fundamental understanding of the plant processes of economic importance such as hybrid vigor, grain development, seed dormancy, drought tolerance, and resistance to diseases. In addition, the tools developed will allow for the estimation of the breeding value of individual genetic variants, thereby providing breeders with the ability to select the ideal combinations of seed stocks to create varieties that have desirable traits such as robustness, the ability to grow in marginal environments, or have high potential as a source for biofuels and other materials of high economic value. Information resources developed, and being developed, through genomics efforts are key elements to advance our fundamental knowledge base for a future bio-based economy and to address the expected need for feeding an expanding world population. Many of the information resource are still underutilized because of the fragmentation of the datasets and the absence of tools to make meaningful connections among them. To fully unlock the potential of plant genome data, the diverse datasets must be integrated so that information is shared both within and between species. It is one of the goals of Gramene to provide that integration. Another goal of the project is to deliver the integrated dataset into the hands of plant geneticists, molecular biologists, evolutionary biologists and breeders by providing compelling, intuitive, user interfaces. Lastly, the project will reach out to students, the public, and to underrepresented minorities via a series of online tutorials and on-site workshops that involves a novel, and cost-effective, public/private partnership. All the information resources generated by Gramene will be available to scientists, breeders, and members of the general public free of charge and without intellectual property restrictions.