Leveraging Untapped Genetic Diversity in Soybean

Pi：Scott Jackson(普渡大学)COPIS：Randy Shoemaker(爱荷华州立大学/USDA-ARS)，Jeremy Schmutz(哈德逊阿尔法研究所，阿拉巴马州亨茨维尔)，Jeff Doyle(康奈尔大学)，Perry Cregan(马里兰大学-学院公园/USDA-ARS)高级人员：Jane Grimwood(哈德逊阿尔法研究所，阿拉巴马州亨茨维尔)，建新和Jessica Schlueter(普渡大学)大豆(Glyine Max)是美国燃料和饲料经济的重要组成部分。然而，大豆的遗传改良受到缺乏遗传多样性的困扰，这使得大豆容易受到害虫、病原菌和非生物胁迫的威胁。该项目将开发一套工具，使研究人员能够利用最近发布的大豆基因组草案序列来开发大豆属的遗传多样性，并开始了解该属物种/基因组多样化的性质。在这一过程中，重要的是要了解在这组物种中发现的多倍化和二倍化的循环。其具体目标是：1)利用来自一系列具有系统发育信息的大豆物种的基因组克隆，将多样性图谱叠加到大豆基因组序列上；2)在染色体/序列水平上探索大豆属的基因组进化，以了解多倍体/二倍化循环；3)针对大豆物种的同源区域进行测序，以了解可用于遗传和育种的连锁不平衡和遗传多样性水平；以及4)将数据与其他豆类整合，这对于将其应用于其他所谓的“孤儿”豆类如菜豆是必要的。该项目的更广泛影响将是开发一个基础设施，该基础设施将普遍可供更广泛的豆类社区使用，以利用多样性并了解这种经济重要属的基因组进化。该项目将继续并扩大一项针对西南部(主要是新墨西哥州和亚利桑那州)美国原住民和拉美裔本科院校的成功外联计划，以提供暑期研究培训机会，并进一步发展与这些教职员工和学生的互动。所有项目数据和工具都可以通过http://soybase.org/.上的SoyBase访问序列数据将通过GenBank保存和获取，BAC克隆资源将由亚利桑那州基因组研究所在成本回收的基础上进行维护和分发。

PI: Scott Jackson (Purdue University)CoPIs: Randy Shoemaker (Iowa State University/USDA-ARS), Jeremy Schmutz (HudsonAlpha Institute, Huntsville, Alabama), Jeff Doyle (Cornell University), Perry Cregan (University of Maryland - College Park/USDA-ARS)Senior Personnel: Jane Grimwood (HudsonAlpha Institute, Huntsville, Alabama), Jianxin Ma and Jessica Schlueter (Purdue University)Soybean (Glycine max) is an important part of the US fuel and feed economy. However, genetic improvement of soybean is beset by a lack of genetic diversity leaving soybean open to threats of pests, pathogens and abiotic stresses. This project will develop a set of tools that will allow investigators to leverage the recently released draft soybean genome sequence to exploit genetic diversity in the genus Glycine and to begin to understand the nature of species/genome diversification in the genus. Important in this process is an understanding of the cycle of polyploidization followed by diploidization found in this set of species. The specific objectives are to: 1) overlay diversity maps onto the soybean genome sequence using genomic clones from a set of phylogenetically informative Glycine species; 2) explore genome evolution in the genus Glycine at the chromosomal/sequence level to understand the polyploidy/diploidization cycle; 3) sequence targeted orthologous regions across the Glycine species in order to understand levels of linkage disequilibrium and genetic diversity that can be exploited for genetics and breeding; and 4) integrate data with other legumes which is necessary to extend its usefulness to other so-called "orphan" legumes such as common bean. The broader impacts of this project will be the development of an infrastructure that will be generally accessible by the broader legume community to exploit diversity and understand genome evolution in this economically important genus. The project will continue and expand a successful outreach program targeted toward Native American and Hispanic undergraduate institutions in the Southwest (primarily New Mexico and Arizona) to provide summer research training opportunities and further develop interactions with these faculty and students. All project data and tools will be accessible though SoyBase at http://soybase.org/. Sequence data will be deposited and accessible through GenBank and BAC clone resources will be maintained and distributed on a cost-recovery basis by the Arizona Genome Institute.