Aflatoxins are the most serious problem in production and export of pistachio of Iran. They are amongst the most toxic mycotoxins and are produced predominantly by Aspergillus flavus and A. parasiticus. Pistachio is susceptible to invasion by aflatoxigenic Aspergillus species and subsequent production of aflatoxins, during preharvesting, processing, transportation or storage. Various methods have been used to detect toxin in pistachio such as chromatography (TLC and HPLC), ELISA and PCR base methods. Some of these methods e.g. chromatography, are time consuming, labor-intensive and expensive. In this study, nuts sample of pistachio were collected from pistachio orchards in Kerman, Rafsanjan and Isfahan. Culture media AFPA and PDA, were used to isolate Aspergillus species. Two hundred and fifty isolates were obtained and based on microscopic and macroscopic studies, the isolates belonged to the genera, Aspergillus, Fusarium, Rhizopus, Alternaria and Cladosporium. Comparing morphological characters of Aspergillus species grown on CYA, CY20S and MEA after one week, 10 following Aspergillus species were identified: A. alliaceus, A. candidus, A. flavus, A. niger, A. niveus, A. ochraceus, A. parasiticus, A. tamari, A. terreus, A. unguis and A. wentii, that A. alliaceus, A. candidus, A. niveus, A. unguis and A. wentii, were reported for first time from pistachio in Iran. There was not a direct relationship between sclerotium and aflatoxin production in this study. Application of methylated b-cyclodextrin in culture media showed that it can be used for rapid detection of aflatoxigenic aspergilli.