Abstract: During a survey of mycobiota of citrus and grapevine plantations in Assiut area, Egypt, several interesting filamentous fungal isolates were recovered. These isolates were examined for their macroscopic, microscopic features and identified. In suspected isolates, molecular techniques targeting internal transcribed spacer (ITS) sequences of nuclear ribosomal DNA were employed to confirm their identification. Most of these species are recorded here for the first time in Egypt and some of them are rarely isolated. Reference strains of all species recorded and ITS gene sequences of some of them are deposited at Assiut University Mycological Center Culture Collection (AUMC) and National Center for Biotechnological Information (NCBI) respectively. Key words: Citrus, grapevine, plantation, air, soil, phyllosphere, phylloplane, fruits, juices, ITS.