Botrytis cinerea (B. cinerea) is an aggressive fungal pathogen that infects more than 200 plant species. Furthermore, the pathogen can attack fruits of some plants, such as tomato and apple. B. cinerea has become one of the model systems in molecular phytopathology because of its economic importance and sophisticated genetic operation methods. Virulence assays are very important in the study of fungal pathogenesis. This protocol details the artificial inoculation procedure of B. cinerea on tomato and apple fruits. It also can be used to analyse the virulence of postharvest fungal pathogens on other fruits, such as pear, peach, jujube and so on.