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SwissFungi mainly provides information and distribution maps on non-native soil fungi and neomycetes associated with plants. Important interfaces to (i) animal pathogenic neomycetes, (ii) neomycetes occurring exclusively in agriculture on cultivated plants and (iii) neomycetes classified as "particularly dangerous harmful organisms" are listed below:

Animal pathogenic neomycetes such as the cause of the cancer plague Aphanomyces astaci (class Oomycetes, mock fungi) are the responsibility of the Federal Food Safety and Veterinary Office (FSVO). The FSVO provides information on individual diseases and pathogens and operates the public database InfoSM, where various information on animal diseases in Switzerland can be accessed.

The Swiss Federal Plant Protection Service (SPSS) is responsible for neomycetes, which occur exclusively in agriculture on cultivated plants, or neomycetes, which are classified as "particularly dangerous harmful organisms" in accordance with the Ordinance on Plant Protection (PSV). The SPSS is jointly managed by the Federal Office for Agriculture (FOAG) and the Federal Office for the Environment (FOEN), Forest Division.

Forest pathogenic neomycetes that affect forest health are also the responsibility of the SPSS or of the Swiss Forest Protection Service (WSS). The distribution database maintained by the Swiss Forest Protection Service (WSS) is synchronised at regular intervals with the SwissFungi database.