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
- Class Archaeorhizomycetes
- Class Arthoniomycetes
- Class Ascomycetes
- Class Ascomycota incertae sedis
- Class Ascomycotina incertae sedis
- Class Dothideomycetes
- Class Eurotiomycetes
- Order Arachnomycetales
- Order Ascosphaerales
- Order Chaetothyriales
- Order Chaetothyriomycetidae incertae sedis
- Order Coryneliales
- Order Eurotiales
- Order Eurotiomycetes incertae sedis
- Order Eurotiomycetidae incertae sedis
- Order Mycocaliciales
- Order Onygenales
- Family Ajellomycetaceae
- Genus Ajellomyces McDonough & A.L. Lewis, 1968
- Genus Blastomyces J.N. Costantin & Rolland, 1888 accepted as Histoplasma S. Darling, 1906
- Genus Emmonsiella K.J. Kwon-Chung, 1972 accepted as Ajellomyces McDonough & A.L. Lewis, 1968
- Genus Histoplasma S. Darling, 1906
- Species Histoplasma capsulatum Darling, 1906
- Species Histoplasma duboisii Vanbreus., 1952
- Species Histoplasma farciminosum (Rivolta & Micelloni) Redaelli & Cif., 1934 accepted as Histoplasma capsulatum Darling, 1906
- Genus Lutziomyces O.M. Fonseca, 1939 accepted as Paracoccidioides F.P. Almeida, 1930
- Genus Paracoccidioides F.P. Almeida, 1930
- Genus Polytolypa J.A. Scott & D.W. Malloch in J.A. Scott, D.W. Malloch & J.B. Gloer, 1993
- Family Arthrodermataceae
- Family Gymnascaceae accepted as Gymnoascaceae
- Family Gymnoascaceae
- Family Onygenaceae
- Family Onygenales incertae sedis
- Family Paracoccidioidaceae accepted as Ajellomycetaceae
- Family Spiromastigaceae Hirooka, Tanney & Seifert, 2016
- Order Pyrenolales accepted as Pyrenulales
- Order Pyrenulales
- Order Verrucariales
- Class Geoglossomycetes
- Class Laboulbeniomycetes
- Class Lecanoromycetes
- Class Leotiomycetes
- Class Lichinomycetes
- Class Neolectomycetes
- Class Orbiliomycetes
- Class Pezizomycetes
- Class Pneumocystidomycetes
- Class Saccharomycetes
- Class Sareomycetes
- Class Schizosaccharomycetes
- Class Sordariomycetes
- Class Taphrinomycetes
- Class Xylonomycetes
- Phylum Basidiobolomycota accepted as Zygomycota
- Phylum Basidiomycota
- Phylum Blastocladiomycota
- Phylum Calcarisporiellomycota accepted as Zygomycota
- Phylum Caulochytriomycota accepted as Chytridiomycota
- Phylum Chytridiomycota
- Phylum Entomophthoromycota
- Phylum Eumycota
- 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 Sanchytriomycota
- 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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