Arabidopsis 2010: The Arabidopsis Gene Collection/ORFeome Project

拟南芥 2010：拟南芥基因收集/ORFeome 项目

• 批准号: 0520253
• 负责人: Joseph Ecker
• 金额: $ 300万
• 依托单位: The Salk Institute for Biological Studies
• 依托单位国家: 美国
• 项目类别: Continuing Grant
• 财政年份: 2005
• 资助国家: 美国
• 起止时间: 2005-11-01 至 2008-10-31
• 项目状态: 已结题
• 来源: https://www.nsf.gov/awardsearch/showAward?AWD_ID=0520253&HistoricalAwards=false
• 关键词: Arabidopsis; 2010; Gene; Collection; ORFeome

This research program pertains to the development of tools and resources for the plant biology community. Computational studies of the genome sequence of the reference plant Arabidopsis thaliana have identified approximately 30,000 genes. In order to carry out a variety of functional genomics and proteomics applications, it is essential to identify all of the genes and determine their transcription unit structures. This project will utilize a newly developed single chip whole genome tiling array to experimentally map the transcription units in the Arabidopsis genome. The transcription unit mapping information will be used to amplify and clone, in recombination-based vector, 6,000 full-length (FL) cDNA and open-reading-frame (ORF) clones. The DNA sequences of each clone will be determined to high accuracy and this information can be used to improve the genome annotation. The construction of an error-free ORF clone for each protein-coding gene will enable a variety of functional genomics and proteomics studies. All cDNA/ORF clones will be deposited with the Arabidopsis Biological Resource Center and the clone sequences will be will be deposited in GenBank. DNA sequence and tiling array hybridization data will also be displayed on the SIGnAL project web site: http://signal.salk.edu. Broader Impacts: The beneficiaries of this research program include the entire plant biology community. The transcription unit DNA sequence information and cDNA/ORF clones produced by this project will provide investigators with essential information necessary to elucidate the functions of the Arabidopsis proteome. The collection of Arabidopsis ORF clones will enable the construction of whole genome protein arrays, the development of protein-protein interaction maps and the ability to rapidly create plants that ectopically express any ORF using any promoter of choice. The long-term impact of these enabling tools and technologies on agriculture is expected to be profound, providing fundamental knowledge for the construction of plants with superior agronomic traits. Importantly, all of the ORF clones, array data and DNA sequences will be made freely available to the research community. Finally, an important feature of the program is the training of high school and undergraduate students in bioinformatics and functional genomic methodologies.

该研究计划涉及为植物生物学社区开发工具和资源。对参考植物拟南芥的基因组序列的计算研究已经鉴定了大约30，000个基因。为了开展各种功能基因组学和蛋白质组学应用，必须鉴定所有基因并确定其转录单位结构。本计画将利用新开发的单晶片全基因组平铺阵列，以实验方式绘制拟南芥基因组中的转录单位。转录单位图谱信息将用于在基于重组的载体中扩增和克隆6，000个全长（FL）cDNA和开放阅读框（ORF）克隆。每个克隆的DNA序列将被确定为高精度，并且该信息可以用于改进基因组注释。构建每个蛋白质编码基因的无错误ORF克隆将使各种功能基因组学和蛋白质组学研究成为可能。所有cDNA/ORF克隆将存放在拟南芥生物资源中心，克隆序列将存放在基因库中。DNA序列和平铺阵列杂交数据也将显示在SIGNAL项目网站上：http://signal.salk.edu。更广泛的影响：这项研究计划的受益者包括整个植物生物学界。转录单位的DNA序列信息和cDNA/ORF克隆本项目产生的研究人员将提供必要的信息，阐明拟南芥蛋白质组的功能。拟南芥ORF克隆的收集将使得能够构建全基因组蛋白阵列、开发蛋白质-蛋白质相互作用图谱以及快速创建使用任何选择的启动子异位表达任何ORF的植物的能力。这些使能工具和技术对农业的长期影响预计将是深远的，为构建具有上级农艺性状的植物提供基础知识。重要的是，所有的ORF克隆，阵列数据和DNA序列将免费提供给研究界。最后，该计划的一个重要特点是在生物信息学和功能基因组学方法的高中和本科生的培训。