Fugu ESTs:: New resources for transcription analysis and genome annotation
Fugu ESTs:: New resources for transcription analysis and genome annotation
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DOI：
10.1101/gr.1691503
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发表时间：
2003-12-01
期刊：
影响因子：
7
通讯作者：
Johnson, SL
中科院分区：
文献类型：
--
作者：
Clark, MS;Edwards, YJK;Johnson, SL
红鳍东方鲀基因组草案于 2002 年发布，当时可用于帮助基因注释的 cDNA 相对较少。这里提供的数据描述了对 15 种不同的成体和幼体河豚组织生成的 24,398 个表达序列标签 (EST) 进行的测序和分析，其中 74% 与蛋白质数据库条目相匹配。将 EST 数据与 Fugu 基因组数据进行比较分析，预测已生成约 10,116 个基因标签，几乎覆盖了 Fugu 预测基因的三分之一。这代表了显着的经济节约。与华盛顿大学斑马鱼 EST 组件的比较表明鱼类物种内具有很强的保护性，但仍然存在显着差异。这可能代表这两种鱼类之间 S' 末端外显子和 UTR 序列的差异，尽管显然，这两种鱼类都没有完整的 EST 数据集。该项目提供了新的河豚资源，并且该分析极大地证明了 EST 程序仍然是基因组开发和注释的重要资源这一论点。随着来自不同生物体的基因组序列草案的可用性不断增加以及对基因功能和调控的日益重视，这一点尤其及时。
The draft Fugu rubripes genome was released in 2002, at which time relatively few cDNAs were available to aid in the annotation of genes. The data presented here describe the sequencing and analysis of 24,398 expressed sequence tags (ESTs) generated from 15 different adult and juvenile Fugu tissues, 74% of which matched protein database entries. Analysis of the EST data compared with the Fugu genome data predicts that approximately 10,116 gene tags have been generated, covering almost one-third of Fugu predicted genes. This represents a remarkable economy of effort. Comparison with the Washington University zebrafish EST assemblies indicates strong conservation within fish species, but significant differences remain. This potentially represents divergence of sequence in the S' terminal exons and UTRs between these two fish species, although clearly, complete EST data sets are not available for either species. This project provides new Fugu resources, and the analysis adds significant weight to the argument that EST programs remain an essential resource for genome exploitation and annotation. This is particularly timely with the increasing availability of draft genome sequence from different organisms and the mounting emphasis on gene function and regulation.