Abstract: Mitochondrial genome is a genetic marker for the identification and classification of fungi,and is also of great value to phylogenetic analysis in fungi.Canadian researchers have introduced the term of Fungal Mitochondrial Genome Project (FMGP) recently.Fungal mitochondrial genomes,which are closed circuar DNA ranging from 10 to 80 kb,usually include respiratory chain subunit gene,adenosine triphosphate (ATP) synthase complex subunit gene,ribosomal RNA and tRNA genes.Further more,fungal mitochondrial genomes are pleiomorphic and can serve as the DNA fingerprint of different fungal species in fungal discrimination,as well as in the classification and phylogenetic analysis of pathogenic fungi.