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首页> 外文期刊>Journal of bacteriology >A Comparative Genomics, Network-Based Approach to Understanding Virulence in Vibrio cholerae
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A Comparative Genomics, Network-Based Approach to Understanding Virulence in Vibrio cholerae

机译：基于网络的比较基因组学方法了解霍乱弧菌的毒力

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Our views of the genes that drive phenotypes have generally been built up one locus or operon at a time. However, a given phenotype, such as virulence, is a multilocus phenomenon. To gain a more comprehensive view of the genes and interactions underlying a phenotype, we propose an approach that incorporates information from comparative genomics and network biology and illustrate it by examining the virulence phenotype of Vibrio cholerae O1 El Tor N16961. We assessed the associations among the virulence-associated proteins from Vibrio cholerae and all the other proteins from this bacterium using a functional-association network map. In the context of this map, we were able to identify 262 proteins that are functionally linked to the virulence-associated genes more closely than is typical of the proteins in this strain and 240 proteins that are functionally linked to the virulence-associated proteins with a confidence score greater than 0.9. The roles of these genes were investigated using functional information from online data sources, comparative genomics, and the relationships shown by the protein association map. We also incorporated core proteome data from the family Vibrionaceae; 35% of the virulence-associated proteins have orthologs among the 1,822 orthologous groups of proteins in the core proteome, indicating that they may be dual-role virulence genes or encode functions that have value outside the human host. This approach is a valuable tool in searching for novel functional associations and in investigating the relationship between genotype and phenotype.
机译：我们对驱动表型的基因的看法通常是一次建立一个基因座或操纵子。但是，给定的表型，例如毒力，是一种多基因座现象。为了更全面地了解表型下的基因和相互作用，我们提出了一种方法，该方法整合了来自比较基因组学和网络生物学的信息，并通过检查霍乱弧菌 O1 El Tor N16961的毒力表型进行了说明。 。我们使用功能关联网络图评估了霍乱弧菌的毒力相关蛋白与该细菌的所有其他蛋白之间的关联。在此图的背景下，我们能够鉴定262种与毒力相关基因功能性连接的蛋白，比该菌株中的典型蛋白更紧密，鉴定出240种与毒力相关蛋白功能性连接的蛋白。置信度大于0.9。使用来自在线数据源的功能信息，比较基因组学以及蛋白质关联图显示的关系，研究了这些基因的作用。我们还整合了来自弧菌科的核心蛋白质组数据。在核心蛋白质组中的1,822个直系同源蛋白质组中，有35％的与毒性相关的蛋白质具有直系同源物，表明它们可能是双重作用的致病基因或编码在人宿主之外具有价值的功能。该方法是寻找新型功能关联和研究基因型与表型之间关系的有价值的工具。

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