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

基因型-表型相关性的系统研究已经揭示，大多数单敲除突变体在实验室条件下生长期间通常不显示可观察到的表型。然而，这些研究主要在有限数量的条件下检查表型，例如葡萄糖和LB培养基。如果基因功能取决于环境条件，则在一种条件下不显示表型的基因可能在不同的特定条件下显示表型变化。为了阐明基因的环境依赖性，我们分析了大肠杆菌中野生型和单敲除突变体在1920年培养基条件下的生长数据，这些数据来自表型微阵列。在此基础上，建立了大肠杆菌代谢的动力学模型。大肠杆菌中不仅包括葡萄糖转运系统，而且还包括甘油转运系统。

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.