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【Objective】The diversity of endophytic fungi of medicinal plants of Sarcandra glabra was analyzed,and the strains with strong antifungal activity were screened to lay a foundation for the search for new antimicrobial resources.【Method】Endophytic fungi with strong antimicrobial activities were isolated from different tissues of S. glabra by plate confrontation method,and their species was identified by combining morphological characteristics and ITS sequence to screen out endophytic fungi with strong antimicrobial activities.【Result】One hundred and eleven of various endophytes were obtained from the different organizations of S. glabra,forty-two strains of different morphological types were selected for molecular identification,which belonged to nine orders and twenty genera,twenty-eight species. The RJ-1 and JJ-1 had remarkable antimicrobial activities to fifteen pathogenic fungi. Morphological and molecular identification showed that RJ-1 and JJ-1 were Phomopsis heveicola and Neofusicoccum parvum,respectively. Their antifungal activity to seven pathogens including Botrytis sp.,Fusarium solani,Colltetorrichum gloeosporioides of Panax notoginseng,Colltetorrichum sp. of Musa,Phoma sp. of Blumea balsamifera,Alternaria sp. of Picria felterrae,Colletotrichum dematium of S. glabra was over 80 %,with strong antifungal broad-spectrum.【Conclusion】The endophytic fungi in S. glabra were diverse and rich. Some strains such as RJ-1 and JJ-1 deserve further research as an alternative antimicrobial resource. [ABSTRACT FROM AUTHOR]