Relationship between topology and functions in metabolic network evolution  

作　　者：WANG Zhuo CHEN Qi LIU Lei 

机构地区：[1]College of Life Science & Biotechnology, Shanghai Jiao Tong University, Shanghai 200240, China [2]Bioinformatics Center, Key Lab of Systems Biology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences Shanghai 200031, China [3]Shanghai Center for Bioinformation Technology, Shanghai 200235, China

出　　处：《Chinese Science Bulletin》2009年第5期776-782,共7页

基　　金：Supported by National Key Basic Research and Development Program of China (Grant Nos. 2006CB0D1203, 2006CB0D1205 and 2006CB910700);National Natural Science Fundation of China (Grant No. 30800199)

摘　　要：What is the relationship between the topological connections among enzymes and their functions during metabolic network evolution? Does this relationship show similarity among closely related or-ganisms? Here we investigated the relationship between enzyme connectivity and functions in meta-bolic networks of chloroplast and its endosymbiotic ancestor, cyanobacteria (Synechococcus sp. WH8102). Also several other species, including E. coli, Arabidopsis thaliana and Cyanidioschyzon merolae, were used for the comparison. We found that the average connectivity among different func-tional pathways and enzyme classifications (EC) was different in all the species examined. However, the average connectivity of enzymes in the same functional classification was quite similar between chloroplast and one representative of cyanobacteria, syw. In addition, the enzymes in the highly con-served modules between chloroplast and syw, such as amino acid metabolism, were highly connected compared with other modules. We also discovered that the isozymes of chloroplast and syw often had higher connectivity, corresponded to primary metabolism and also existed in conserved module. In conclusion, despite the drastic re-organization of metabolism in chloroplast during endosymbiosis, the relationship between network topology and functions is very similar between chloroplast and its pre-cursor cyanobacteria, which demonstrates that the relationship may be used as an indicator of the closeness in evolution.What is the relationship between the topological connections among enzymes and their functions during metabolic network evolution？ Does this relationship show similarity among closely related organisms？ Here we investigated the relationship between enzyme connectivity and functions in metabolic networks of chloroplast and its endosymbiotic ancestor, cyanobacteria （Synechococcus sp. WH8102）. Also several other species, including E. coli, Arabidopsis thaliana and Cyanidioschyzon merolae, were used for the comparison. We found that the average connectivity among different functional pathways and enzyme classifications （EC） was different in all the species examined. However, the average connectivity of enzymes in the same functional classification was quite similar between chloroplast and one representative of cyanobacteria, syw. In addition, the enzymes in the highly conserved modules between chloroplast and syw, such as amino acid metabolism, were highly connected compared with other modules. We also discovered that the isozymes of chloroplast and syw often had higher connectivity, corresponded to primary metabolism and also existed in conserved module. In conclusion, despite the drastic re-organization of metabolism in chloroplast during endosymbiosis, the relationship between network topology and functions is very similar between chloroplast and its precursor cyanobacteria, which demonstrates that the relationship may be used as an indicator of the closeness in evolution.

关 键 词：代谢网络 演化 拓扑 叶绿体 蓝细菌 

分 类 号：N941[自然科学总论—系统科学]