Four fungal species, during indoor air monitoring for fungi that possibly affect the field testing of a newly bred shiitake cultivar in cultivation houses located in Cheongyang, Chungnam Province and Jangheung, Jeonnam Province. Of these species, two are known to be plant pathogens and the other two are saprobes but potent contaminators in the mushroom cultivation environment. This study reports the morphological characteristics and phylogenetic relationships of these four species based on nucleotide sequences of the internal transcribed spacer (ITS) and 18S rDNA region, including their known information.