Reconstruction And Simulation Of Genome-scale Metabolic Network From Klebsiella Pneumoniae

Biological systems are inherently hierarchal and multiscale in time and space. A major challenge of systems biology is to describe biological systems as a computational model. The development of metabolic network reconstructions has increased over the last ten years. Such reconstructions are now available for a range of taxonomically diverse organisms,135genome-scale metabolic networks from Prokaryote, Eucaryote, and Archaea, and they have been applied to a number of research field including network analysis, metabolic engineering, evolutionary studies and so on.Klebsiella pneumoniae, a Gram-negative bacterium and facultative anaerobe of the family Enterobacteriaceae, K. pneumoniae is a pathogen in medicine, and K. pneumoniae is capable of metabolizing glycerol as a sole source of carbon to produce1,3-propanediol. In order to improve the yield of1,3-propanediol, there are a lot of research for glycerol metabolic pathway, it is a inevitable trend that study metabolic network from K. pneumoniae in genome-scale for the better genetic modification.First metabolite networks and enzyme networks of Klebsiella pneumoniae342were constructed, base on KEGG/PATHWAY Database guaranteeing the minimal information redundancy of data. Got a metabolite network with1115nodes and1408edges, and an enzyme network with694nodes and2030edges. Through comparing their topological parameters, the node degree distributions from them had a similar characteristic:the most of the network occupied by the nodes with low connectivity while there were fewer nodes with high connectivity, it belong to scale-free network. The characteristic path length from metabolite networks and enzyme networks were8.7and7.0respectively, belong to small world network. The structures of enzyme networks found to be more tight and intensive than that of metabolite networks.Then, enzyme networks from Klebsiella pneumoniae MGH78578, and Escherichia coli K-12MG1655were constructed respectively, topological features and modularity from global and regional were compared, key enzymes found to be conservative among different strains. Finally, the initial genome-scale metabolic network from K. pneumoniae342converted to SBML format, and refined by the published, well-curated reconstructions and BioModels. Then metabolic pathway from genetic engineering bacteria of1,3-propanediol were simulated by modifying well-known reconstructions S. cerevisiae iND750and E. coli iAF1260.