Visualizing syntenic relationships among the hemiascomycetes with the Yeast Gene Order Browser.
Visualizing syntenic relationships among the hemiascomycetes with the Yeast Gene Order Browser.
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DOI：
10.1093/nar/gkj041
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发表时间：
2006-01-01
影响因子：
14.9
通讯作者：
Wolfe KH
中科院分区：
文献类型：
--
作者：
Byrne KP;Wolfe KH
酵母基因顺序浏览器（YGOB）是一个在线工具，旨在促进比较基因组可视化和评估的同线性内和之间的七个半子囊酵母物种的基因组。这些基因组中有三个是多倍体，因此含有基因组内同线区域，YGOB的正确组装是一个特别成功的。YGOB旨在准确地组装，显示和评分基因顺序关系，既是浏览基因组数据的交互式工具，也是目前用于全基因组规模进化分析的软件引擎。在线界面的基础是YGOB数据库，该数据库由跨物种的同源性分配组成，基于序列相似性和新颖性进行了广泛的策划，对多个基因组中的基因组背景（同线性）进行了评估。目前，YGOB数据库包含来自酿酒酵母、光滑念珠菌、卡氏酵母、棉阿舒囊菌、乳酸克鲁维酵母、瓦尔氏克鲁维酵母和克鲁维酵母的基因组数据，但该系统可扩展以容纳额外的基因组。本文讨论了YGOB 1.0版的用法和实用性，该版本可在。
The Yeast Gene Order Browser (YGOB) is an online tool designed to facilitate the comparative genomic visualization and appraisal of synteny within and between the genomes of seven hemiascomycete yeast species. Three of these genomes are polyploid, and hence contain intra-genomic syntenic regions, the correct assembly of which is a particular success of YGOB. Designed to accurately assemble, display and score gene order relationships, YGOB is both an interactive tool for browsing genomic data, and a software engine now being used for evolutionary analyses on a whole-genome scale. Underlying the online interface is the YGOB database, which consists of homology assignments across the species, extensively curated based on sequence similarity and novelly, an appraisal of genomic context (synteny) in multiple genomes. Currently the YGOB database incorporates genome data from Saccharomyces cerevisiae, Candida glabrata, Saccharomyces castellii, Ashbya gossypii, Kluyveromyces lactis, Kluyveromyces waltii and Saccharomyces kluyveri, but the system is scaleable to accommodate additional genomes. This paper discusses the usage and utility of version 1.0 of YGOB, which is publicly available at .
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