A Method for Species Comparison of Metabolic Networks Using Reaction Profile
A Method for Species Comparison of Metabolic Networks Using Reaction Profile
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DOI：
10.2197/ipsjdc.2.685
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发表时间：
2006-11
期刊：
影响因子：
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通讯作者：
Y. Tohsato
中科院分区：
文献类型：
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作者：
Y. Tohsato
不同物种间代谢网络的比较分析提供了关于生物体进化以及药理学靶点的重要信息。在本文中，提出了一种方法比较代谢网络的基础上酶反应在不同物种。具体来说，代谢网络被处理为酶促反应的集合。基于代谢反应的存在或不存在，生物体的代谢网络由数字“1”和“0“组成的位串表示，称为“反应谱”。然后，定义位串之间的相似度，然后按不同物种对代谢网络进行聚类。通过将我们的方法应用于MetaCyc数据库中的33种代表性生物的代谢网络，从细菌，古细菌和真核生物中选择，重建系统发育树，表示基于代谢表型的代谢网络的相似性。
Comparative analyses of the metabolic networks among different species provide important information regarding the evolution of organisms as well as pharmacological targets. In this paper, a method is proposed for comparing metabolic networks based on enzymatic reactions within different species. Specifically, metabolic networks are handled as sets of enzymatic reactions. Based on the presence or absence of metabolic reactions, the metabolic network of an organism is represented by a bit string comprised of the digits “1” and “0, ” called the “reaction profile.” Then, the degree of similarity between bit strings is defined, followed by clustering of metabolic networks by different species. By applying our method to the metabolic networks of 33 representative organisms selected from bacteria, archaea, and eukaryotes in the MetaCyc database, a phylogenetic tree was reconstructed that represents the similarity of metabolic network based on metabolic phenotypes.