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YIA-PGR: Tools for Plant Comparative Genomics

YIA-PGR：植物比较基因组学工具

基本信息

批准号：
0227314
负责人：
Todd Vision
金额：
$ 101.08万
依托单位：
University of North Carolina at Chapel Hill
依托单位国家：
美国
项目类别：
Continuing Grant
财政年份：
2002
资助国家：
美国
起止时间：
2002-09-01 至 2008-08-31
项目状态：
已结题

来源：
https://www.nsf.gov/awardsearch/showAward?AWD_ID=0227314&HistoricalAwards=false
关键词：
YIA PGR Tools Plant Comparative

项目摘要

The diversity of model systems presents both challenges and opportunities for applying comparative and phylogenetic approaches to questions in plant functional genomics. New methodologies are needed in order to describe features of biological sequences and maps across multiple organisms that are related by a known phylogeny, as opposed to making either simple pair-wise comparisons or 'flat' comparisons among multiple organisms that ignore the presence of phylogenetic structure. This research focuses on two test applications of phylogenomics: (1) identifying conserved motifs and residues that define particular lineages within a gene family and (2) reconstructing genome rearrangement events along a phylogeny in such a way as to be able to predict gene content and order in sparsely sampled genomes. Because some of the methodology proposed is computationally intensive and requires the integration of data from a variety of public sources, this work is complemented by the development of an online plant phylogenomics database called Phytome. In collaboration with the Partnership for Minority Advancement in the Biosciences, an inquiry-based K-12 educational module is developed and delivered to targeted public schools in North Carolina through a mobile science teaching laboratory. Information regarding all the deliverables for our Plant Genome Project willbe posted at the following URL:http://www.phytome.org

模式系统的多样性提出了挑战和机遇，应用比较和系统发育的方法在植物功能基因组学的问题。需要新的方法来描述生物序列的特征，并通过已知的系统发育相关的多个生物体之间的地图，而不是简单的成对比较或忽略系统发育结构的存在的多个生物体之间的“平面”比较。本研究的重点是两个测试应用的基因组学：（1）确定保守的基序和残基，定义特定的谱系内的基因家族和（2）重建基因组重排事件沿着这样一种方式，以便能够预测基因的内容和顺序在稀疏采样的基因组。由于提出的一些方法是计算密集型的，需要整合来自各种公共来源的数据，这项工作是由一个名为Phytome的在线植物基因组学数据库的开发补充。与促进少数群体生物科学进步伙伴关系合作，开发了一个基于调查的K-12教育模块，并通过一个移动的科学教学实验室向北卡罗来纳州的目标公立学校提供。有关我们的植物基因组计划的所有可交付成果的信息将在以下网址发布：www.example.com