Between brackets is the number of accepted species
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2 Shows the number of accepted species within the taxon
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- Biota
- Kingdom Animalia
- Kingdom Archaea
- Kingdom Bacteria
- Kingdom Chromista
- Kingdom Fungi
- Phylum Aphelida accepted as Aphelidiomycota
- Phylum Aphelidiomycota
- Phylum Ascomycota
- Phylum Basidiobolomycota accepted as Zygomycota
- Phylum Basidiomycota
- Class Agaricomycetes
- Order Agaricales
- Order Agaricomycetes incertae sedis
- Order Agaricomycetidae incertae sedis
- Order Atheliales
- Order Auriculariales
- Order Boletales
- Family Amylocorticiaceae
- Family Astraeaceae accepted as Diplocystidiaceae
- Family Boletaceae Chevallier, 1828
- Family Boletales incertae sedis
- Family Boletinellaceae
- Family Boletogastraceae accepted as Boletaceae Chevallier, 1828
- Family Calostomataceae
- Family Coniophoraceae
- Genus Boninohydnum S. Ito & S. Imai, 1940 accepted as Gyrodontium Patouillard, 1900
- Genus Chrysoconia D.E. McCabe & G.A. Escobar, 1979
- Genus Coniophora A.P. de Candolle, 1815
- Genus Coniophorella P.A. Karsten, 1889 accepted as Coniophora A.P. de Candolle, 1815
- Genus Fibrillaria Persoon, 1822
- Genus Gyrodontium Patouillard, 1900
- Family Diplocystidiaceae
- Family Gasterellaceae
- Family Gastrosporiaceae
- Family Gomphidiaceae
- Family Gyroporaceae
- Family Hygrophoropsidaceae
- Family Melanogastraceae accepted as Paxillaceae
- Family Octavianinaceae accepted as Boletaceae Chevallier, 1828
- Family Paxillaceae
- Family Pisolithaceae accepted as Sclerodermataceae
- Family Protogastraceae
- Family Rhizopogonaceae
- Family Sclerodermataceae
- Family Sclerogastraceae
- Family Serpulaceae
- Family Suillaceae
- Family Tapinellaceae
- Order Cantharellales
- Order Corticiales
- Order Geastrales
- Order Gloeophyllales
- Order Gomphales
- Order Hymenochaetales
- Order Hysterangiales
- Order Phallales
- Order Polyporales
- Order Russulales
- Order Sebacinales
- Order Sistotremastrales
- Order Thelephorales
- Order Trechisporales
- Class Agaricostilbomycetes
- Class Atractiellomycetes
- Class Basidiomycota incertae sedis
- Class Classiculomycetes
- Class Cryptomycocolacomycetes
- Class Cystobasidiomycetes
- Class Dacrymycetes
- Class Entorrhizomycetes
- Class Exobasidiomycetes
- Class Geminibasidiomycetes
- Class Microbotryomycetes
- Class Mixiomycetes
- Class Pucciniomycetes
- Class Tremellomycetes
- Class Tritirachiomycetes
- Class Ustilaginomycetes
- Class Wallemiomycetes
- Phylum Blastocladiomycota
- Phylum Calcarisporiellomycota accepted as Zygomycota
- Phylum Caulochytriomycota accepted as Chytridiomycota
- Phylum Chytridiomycota
- Phylum Entomophthoromycota
- Phylum Fungi (awaiting allocation)
- Phylum Fungi incertae sedis
- Phylum Glomeromycota
- Phylum Kickxellomycota accepted as Zygomycota
- Phylum Monoblepharomycota accepted as Chytridiomycota
- Phylum Mortierellomycota accepted as Zygomycota
- Phylum Mucoromycota accepted as Zygomycota
- Phylum Nematophyta †
- Phylum Neocallimastigomycota accepted as Chytridiomycota
- Phylum Olpidiomycota accepted as Chytridiomycota
- Phylum Rozellomycota
- Phylum Zoopagomycota accepted as Zygomycota
- Phylum Zygomycota
- Genus Celluloxylon J.W. Dawson, 1881 † accepted as Prototaxites J.W. Dawson, 1859 †
- Genus Mucorites Meschinelli, 1898 † accepted as Mucorites Meschinelli ex Lindau, 1900 †
- Genus Mucorites Meschinelli ex Lindau, 1900 †
- Genus Mycelites W. Roux, 1887 †
- Genus Mycobystrovia Goujet & Locquin, 1979 †
- Genus Nematophycus Carruthers, 1872 † accepted as Prototaxites J.W. Dawson, 1859 †
- Genus Nematophyton J.W. Dawson, 1888 † accepted as Prototaxites J.W. Dawson, 1859 †
- Genus Ourasphaira C.C. Loron, R.H. Rainbird, E.C. Turner, J.W. Greenman & E.J. Javaux, 2019 †
- Genus Petsamomyces M.Y. Belova, 2006 †
- Genus Pilula S.D. Harker & W.A.S. Sarjeant in Harker et al., 1990 † accepted as Pilula S.D. Harker & W.A.S. Sarjeant ex S.D. Harker & W.A.S. Sarjeant, 1992 †
- Genus Pilula S.D. Harker & W.A.S. Sarjeant ex S.D. Harker & W.A.S. Sarjeant, 1992 †
- Genus Polycellaria H.D. Pflug, 1965 †
- Genus Prototaxites J.W. Dawson, 1859 †
- Genus Rhyniomycelium M. Krings & C.J. Harper, 2023 †
- Kingdom Plantae
- Kingdom Protista accepted as Protozoa
- Kingdom Protozoa
- Kingdom Viruses
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