Fungal diseases are problematic in cultured fish and shellfish, their seeds, and sometimes wild marine animals. In this chapter fungal diseases found in marine animals, especially in Japan, are described. Pathogens in the fungal diseases are divided into two groups. One of them is marine Oomycetes, which cause fungal diseases in marine shellfish and abalones. The diseases caused by the fungi of this group and the fungal characteristics are introduced. The pathogens include members of the genera Lagenidium, Haliphthoros, Halocrusticida, Halioticida, Atkinsiella, and Pythium. On the other hand, some fungal diseases caused by mitosporic fungi are also known in marine fish and shellfish. The diseases caused by these fungi and the fungal characteristics are described. The pathogens include members of the genera Fusarium, Ochroconis, Exophiala, Scytalidium, Plectosporium, and Acremonium.