Arabidopsis 2010: The Arabidopsis Gene Collection/ORFeome Project

这项研究计划是关于为植物生物学社区开发工具和资源的。对参考植物拟南芥基因组序列的计算研究已经确定了大约30,000个基因。为了进行各种功能基因组学和蛋白质组学应用，鉴定所有的基因并确定它们的转录单位结构是至关重要的。该项目将利用新开发的单芯片全基因组拼接阵列来实验性地绘制拟南芥基因组中的转录单位。转录单位定位信息将被用于在基于重组的载体中扩增和克隆6000个全长(FL)cDNA和开放阅读框架(ORF)克隆。每个克隆的DNA序列将被高精度地确定，这些信息可以用于改进基因组注释。为每个蛋白质编码基因构建一个无错误的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。所有的cDNA/ORF克隆将保存在拟南芥生物资源中心，克隆序列将保存在GenBank中。DNA序列和拼接阵列杂交数据也将在信号项目网站上展示：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界。该项目产生的转录单位DNA序列信息和cDNA/ORF克隆将为研究人员提供必要的信息，以阐明拟南芥蛋白质组的功能。拟南芥ORF克隆的收集将有助于构建全基因组蛋白质阵列，开发蛋白质-蛋白质相互作用图，并能够使用所选择的任何启动子快速创建异地表达任何ORF的植物。这些使能工具和技术对农业的长期影响预计将是深远的，为构建具有优越农艺性状的植物提供基础知识。重要的是，所有ORF克隆、阵列数据和DNA序列都将免费提供给研究界。最后，该计划的一个重要特点是对高中生和本科生进行生物信息学和功能基因组方法学方面的培训。

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.