Endophytic fungal communities in 30 trees of three kinds of arbores Cinnamomum longepaniculatum (Gamble) N. Chao, C. camphora (Linn.) Presl and Quercus fabri Hance grown in the same condition at a plantation in Yibin, Sichuan province were studied. The results indicated that: there was considerable diversity of endophytic fungi in the three kinds of arbores, and the compositions of endophytic fungi were different in different organs of the same arbor; Phacodium Pers. was the dominant endophytic fungus in all three kinds of plants; the compositions of endophytic fungi exhibited low similarities between different tissues and different kinds of arbores. The endophytic fungi in C. longepaniculatum (Gamble) N. Chao had higher similarity to that of C. camphora (Linn.) Presl than to that of Quercus fabri Hance, but there was not significant difference between them. These indicated the compositions of endophytic fungi were affected by gene-type of host plant and climate factors.