Abstract: The development of novel fungicide is important for overcoming the resistance and ensuring the sustainable development of agricultural production. The knowledge about the mode of action and the target of the fungicides is of great importance for the design of novel fungicide molecular and the development of novel fungcides. The slow development in those field will restrict the discovery of novel fungcide precursor and the development of new fungicide. In this review, the application of target recognition and proteimic studies in target reconition and identification was elucidated. Firstly, the application of transcriptomic, proteomics-based research and drug affinity chromatography was summaried. Secondly, the application of multidisciplinary approaches in molecular target validation was reviewed. In addtion, the development and molecular design of fungicides of different types with different targets were also introduced in details, using the precursor of Qo inhibitor-strobilurin A, the precursor of oomycetes inhibitor-the cinnamic acid, and the precursor of succinic dehydrogenase inhibitor-the verticillium as examples.