Analysis of robustness of metabolic networks focusing on environmental dependency of gene knockouts

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Systematic studies of genotype-phenotype correlation have revealed that most single- knockout mutants often show no observable phenotype during growth under laboratory conditions. However, such studies have mainly examined phenotypes under a limited number of conditions such as Glucose and LB mediums. Genes showing no phenotypes when absent under one condition may exhibit phenotypic changes under different specific conditions, if the gene function depends on environmental conditions. To elucidate the environmental dependency of genes, we analyzed growth data of wild-type and single-knockout mutant in Escherichia coli in 1920 medium conditions obtained from the Phenotype MicroArray. Furthermore, we develop a kinetic model for the central metabolism of E. coli that includes not only the glucose transport system, but also the glycerol transport system.