Reconstruction and Annotation of Transcribed Sequences in Plants

基因组学提供了一个很好的机会来识别不同生物体内的全部基因，并提供了必要的工具来开始理解这些基因在发育、疾病和进化中所起的作用。表达序列标签（EST）的测序提供了对许多生物体转录序列集合的初步了解，并且通过对EST数据的彻底分析可以获得重要的附加信息。TIGR对基因索引（http://www.tigr.org/tdb/tdb.html）中捕获的全球人类EST序列数据收集的分析提供了高可信度的组装共识序列，并代表了TIGR对EST转录序列收集的最佳估计。TIGR以人类EST序列分析技术为基础，维护多种重要模式生物的基因指数，包括拟南芥基因指数（AtGI）、水稻基因指数（OGI）、番茄基因指数（LGI）和马铃薯基因指数。总之，这些基因指数为植物基因的比较分析提供了一个独特的资源，并可能为深入了解基因的功能、调控和进化提供帮助。最近对多种重要作物物种的EST测序项目为建立其他植物物种的基因指数提供了必要的序列数据，包括玉米（Zea mays）和大豆（Glycine max）。该项目将为这些植物创建基因索引，继续整合现有的植物基因索引，并对索引进行一些改进，包括季度发布、扩展注释、与制图和基因组序列数据的集成以及更强大的搜索功能。此外，该项目将生成一组植物同源物，并开发一个基于网络的演示，允许探索这些同源物集的属性。这样的数据库将提供植物EST组合之间的直接联系，并将代表最广泛的植物同源物目录，为基因鉴定、功能域阐明以及基因和基因组进化分析提供宝贵的资源。

Genomics has provided a great opportunity to identify the entire complement of genes within a diverse collection of organisms and has provided the tools necessary to begin to understand the role these genes play in development, disease, and evolution. The sequencing of Expressed Sequence Tags (ESTs) has provided a firstglimpse of the collection of transcribed sequences in many organisms, and significant additional information can be obtained by a thorough analysis of the EST data. TIGR's analysis of the world's collection of human EST sequence data, captured in the Gene Indices (http://www.tigr.org/tdb/tdb.html), provides assembledconsensus sequences that are of high confidence and represent TIGR's best estimate of the collection of transcribed sequences underlying the ESTs. Based on the techniques developed for analysis of human EST sequences, TIGR maintains Gene Indices for a variety of important model organisms, including the Arabidopsis Gene Index (AtGI), the Rice Gene Index (OGI), the Tomato Gene Index (LGI) and the Potato Gene Index. Together, these Gene Indices represent a unique resource for the comparative analysis of plant genes and may provide insight into gene function, regulation, and evolution. Recent EST sequencing projects in a variety of important crop species have provided the sequence data necessary to create Gene Indices for additional plant species, including Maize (Zea mays) and Soybean (Glycine max). This project will create Gene Indices for these plants, continue to assemble the existing Plant Gene Indices, and make a number of improvements in the Indices, including quarterly releases, expanded annotation, integration with mapping and genomic sequence data, and more robust search capabilities. In addition, the project will generate a set of plant orthologues and develop a web-based presentation allowing the properties of these orthologue sets to be explored. Such a database would provide direct links between the plant EST assemblies and would represent the most extensive catalog of plant orthologues, providing a valuable resource for gene identification, elucidation of functional domains, and analysis of gene and genome evolution.