Comparative Genomics of Legume Disease Resistance Gene Homologs

豆类抗病基因同源物的比较基因组学

• 批准号: 0605251
• 负责人: Douglas Cook
• 金额: $ 495.99万
• 依托单位: University of California-Davis
• 依托单位国家: 美国
• 项目类别: Continuing Grant
• 财政年份: 2006
• 资助国家: 美国
• 起止时间: 2006-08-01 至 2011-07-31
• 项目状态: 已结题
• 来源: https://www.nsf.gov/awardsearch/showAward?AWD_ID=0605251&HistoricalAwards=false
• 关键词: Comparative; Genomics; Legume; Disease; Resistance

The legume family, or Fabaceae, is one of the largest and most diverse plant families. Three species, Medicago truncatula, Lotus japonicus and soybean, have emerged as reference species for investigating the generic properties of legumes. The research in this project leverages knowledge gained in the reference legumes to develop a broad infrastructure for comparative genomics, including representatives from the key phylogenetic nodes of the Papilionoid subfamily in which reside almost all of the economically important legume species. Understanding Papilionoid genome evolution, particularly the evolution of resistance genes, is the primary goal of this work. Among the outcomes will be a road map that links ancestral genomic landmarks between related species, providing insight into the evolution of these species and yielding genetic tools of use to basic research. One such product will be the cloning and genetic mapping of the majority of disease resistance genes in each of the target species, resulting in a comprehensive candidate gene resource of nucleotide binding site - leucine-rich repeat (NBS-LRR) proteins. We expect to gain insight into the timing of resistance gene radiation relative to speciation; the identification of ancient and stable, versus recently derived and fast-evolving, resistance genes; the nature of specific evolutionary processes and whether they operate symmetrically across taxa; the history and frequency of specific mechanisms for resistance gene and resistance gene-cluster variation across the legume family. Resources to be generated by the project include: (1) comparative genetic maps between legume genomes based on orthologous gene markers, (2) deep coverage Bacterial Artificial Chromosome (BAC) libraries and moderate coverage BAC end sequence data to facilitate gene discovery, (3) species-specific genetic markers that link BAC clones to genetic intervals, and (4) a complete inventory of resistance gene homologs for each of give legume species.Broader ImpactsCurrently legumes provide an estimated 33% of the protein in the human diet. The significance of legumes to human society is evidenced by their importance as commodities in the US; soybean and alfalfa, for example are major economic entities, while a diversity of grain legumes occupy part of the staple diet of US citizens. Although knowledge of genome content and structure could enable improved strategies for basic and applied research in each of the various legume species, their sheer number precludes a systematic in-depth analysis of each of their genomes. Each species selected for this project is of economic importance in the US and/or in the developing countries of Africa and in India. An ancillary goal of this project is to enhance opportunities for genomics-enabled breeding and biotechnology in legumes generally.Access to project outcomesProject data will be deposited in public databases at the National Center for Biotechnology Information (http:www.ncbi.nlm.nih.gov) and available from a project web site accessible through http://medicago.ucdavis.edu. BAC libraries will be available from the Arizona Genomics Institute (http://www.genome.arizona.edu/).

豆科家庭或豆科是最大，最多样化的植物家庭之一。三种物种，即Medicago truncatula，Lotus Japonicus和大豆，已成为研究豆类通用特性的参考物种。该项目中的研究利用参考豆类中获得的知识为比较基因组学开发了广泛的基础设施，其中包括来自木papionoid的关键系统发育淋巴结的代表，几乎所有经济上重要的豆类物种都存在。理解木木素基因组进化，尤其是抗性基因的进化，是这项工作的主要目标。结果将是一个路线图，该路线图将相关物种之间的祖先基因组地标联系起来，从而深入了解这些物种的进化，并将使用的遗传工具用于基础研究。这样的产物将是每个靶物质中大多数抗病基因的克隆和遗传图，从而产生核苷酸结合位点的全面候选基因资源 - 富含亮氨酸的重复（NBS-LRR）蛋白。我们期望与物种相对于物种形成的抗性基因辐射的时机有所了解。鉴定古代和稳定，与最近衍生和快速发展的抗性基因的鉴定；特定进化过程的性质以及它们是否在整个分类单元中对称运作；豆科族家族中抗性基因和抗性基因群体变异的特定机制的历史和频率。该项目要产生的资源包括：（1）基于直系同源基因标记的豆类基因组之间的比较遗传图，（2）深层覆盖细菌细菌细菌人造染色体（BAC）列表（BAC）鉴定和中等覆盖的BAC BAC终端序列数据，以促进基因发现的基因遗传学，以促进基因的遗传学分子，这些遗传学的遗传学分别是基因的遗传学遗传学，并且（4）基因的遗传学分别（4），（4）遗传学的遗传学分别（4）（4）（4）（4）（4）（4）（4）（4）（4）（4）（4）（4）（4）（4）（4）。豆类物种。豆类的影响量估计在人类饮食中估计蛋白质的33％。豆类对人类社会的重要性证明了它们作为美国商品的重要性；例如，大豆和苜蓿是主要的经济实体，而各种谷物豆类则占据了美国公民的主食的一部分。尽管对基因组含量和结构的知识可以在各种豆类物种中为基本和应用研究提供改进的策略，但它们的纯粹数量排除了对其每个基因组的系统深入分析。为该项目选择的每个物种在美国和/或非洲和印度的发展中国家都具有经济重要性。该项目的一个辅助目标是增加豆科植物中支持基因组学的育种和生物技术的机会。项目范围内的数据将存放在国家生物技术信息中心的公共数据库中（http：http：http：http：www.ncbi.nlm.nih.gov），从项目网站上可用。 BAC图书馆将从亚利桑那基因组学院（http://www.genome.arizona.edu/）提供。