Despite the harsh conditions, fungi are ubiquitously present in Antarctic ecosystems. The key to fungal success can be due to the vast array of specialized molecules, which allowed their colonization in almost every habitat of our Planet. In Antarctic marine environments, the fungal specific adaptions to low temperatures lead to the production of structurally novel enzymes and secondary metabolites that provide competitive advantages over other microorganisms. The bioprospecting of Antarctic fungi for new bioactive compounds and enzymes is important not only for elucidating their ecological role but also useful for developing blue biotechnologies.