The invention relates to a validamycin containing fungicidal composition and an application thereof and belongs to the technical field of agricultural control. The fungicidal composition contains active ingredients, i.e., validamycin and Bacillus velezensis, wherein based on that the Bacillus velezensis containing 100 billions of cfu/g is set as a 100% technical concentrate, the weight ratio of the validamycin to the Bacillus velezensis is (15: 1) to (1: 15). The fungicidal composition has the following advantages and remarkable technical effects that the validamycin and the Bacillus velezensis are different in action mechanism, and the synergistic effect of mixing of the validamycin and the Bacillus velezensis is obvious, so that the pesticide efficiency can be greatly increased, and thepesticide consumption and medication cost are reduced. Meanwhile, by the composition disclosed by the invention, the effect duration of the validamycin can be improved.