Metabolic engineering is a new technology developed in recent years.With the advance of omics technology,high throughput data integrating analysis is applied in the analysis of intracellular metabolic network and the modification of metabolic pathway in order to increase the yield of the product of interest.We reviewed the development of metabolic engineering,genome-scale analysis techniques,and the strategies of metabolic engineering in this paper.We also analyzed the roles of the genome-scale analysis methods of bioinformatics and system biology in the construction of metabolic pathway and the analysis of intracellular metabolic network,and set forth the existing problems and the soluble approaches.