Between brackets is the number of accepted species
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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
- Class Geoglossomycetes
- Class Laboulbeniomycetes
- Class Lecanoromycetes
- Order Acarosporales
- Order Agyriales
- Order Baeomycetales
- Order Candelariales
- Order Lecanorales
- Order Lecanoromycetes incertae sedis
- Order Lecanoromycetidae incertae sedis
- Order Lecideales
- Order Ostropales
- Order Ostropomycetidae incertae sedis
- Order Peltigerales
- Order Pertusariales
- Order Rhizocarpales
- Order Sarrameanales
- Order Teloschistales
- Family Buelliaceae accepted as Caliciaceae
- Family Caliciaceae
- Genus Abacina Norman, 1853 accepted as Diplotomma Flotow, 1849
- Genus Acoliomyces Ciferri & Tomaselli, 1953 accepted as Thelomma A. Massalongo, 1860
- Genus Acolium (Acharius) S.F. Gray, 1821 accepted as Cyphelium Acharius, 1815
- Genus Acolium Trevisan, 1862 accepted as Cyphelium Acharius, 1815
- Genus Acroscyphus Léveillé, 1846
- Genus Amandinea Choisy ex C. Scheidegger & M. Mayrhofer in C. Scheidegger, 1993
- Genus Amandinea M. Choisy, 1950 accepted as Amandinea Choisy ex C. Scheidegger & M. Mayrhofer in C. Scheidegger, 1993
- Genus Anapyrenium J. Müller Arg., 1880 accepted as Buellia G. De Notaris, 1846
- Genus Aplotomma A. Massalongo ex Beltramini, 1858 accepted as Buellia G. De Notaris, 1846
- Genus Arongylium Link, 1809
- Genus Australiaena M. Matzer, H. Mayrhofer & J.A. Elix, 1997
- Genus Baculifera B. Marbach & Kalb in B. Marbach, 2000
- Genus Beltraminia Trevisan, 1857 accepted as Dimelaena Norman, 1853
- Genus Buellia G. De Notaris, 1846
- Genus Buelliomyces E.A. Thomas ex Ciferri & Tomaselli, 1953 accepted as Diploicia A. Massalongo, 1852
- Genus Buelliopsis A. Schneider, 1897 accepted as Buellia G. De Notaris, 1846
- Genus Caliciella Vainio, 1927 accepted as Calicium Persoon in Roemer & Usteri, 1794
- Genus Caliciomyces E.A. Thomas ex Ciferri & Tomaselli, 1953 accepted as Calicium Persoon in Roemer & Usteri, 1794
- Genus Calicium Persoon in Roemer & Usteri, 1794
- Genus Calycium A.P. de Candolle in Lamarck & A.P. de Candolle, 1805 accepted as Calicium Persoon in Roemer & Usteri, 1794
- Genus Carlosia G. Sampaio, 1923 accepted as Thelomma A. Massalongo, 1860
- Genus Chrismofulvea B. Marbach, 2000
- Genus Ciposia Marbach, 2000
- Genus Crateridium Trevisan, 1862 accepted as Cyphelium Acharius, 1815
- Genus Cratiria Marbach, 2000
- Genus Cypheliomyces E.A. Thomas ex Ciferri & Tomaselli, 1953 accepted as Cyphelium Acharius, 1815
- Genus Cypheliopsis (Zahlbruckner) Vainio, 1927 accepted as Thelomma A. Massalongo, 1860
- Genus Cyphelium Acharius, 1815
- Genus Dermatiscum Nylander, 1867
- Genus Descematia Nieuwland, 1916 accepted as Calicium Persoon in Roemer & Usteri, 1794
- Genus Dimelaena Norman, 1853
- Genus Diploicia A. Massalongo, 1852
- Genus Diplotomma Flotow, 1849
- Genus Diplotomma A. Massalongo, 1852 accepted as Diploicia A. Massalongo, 1852
- Genus Dirinaria (Tuckerman) Clements, 1909
- Genus Dirinastromyces Ciferri & Tomaselli, 1953 accepted as Dirinastrum J. Müller Arg., 1893
- Genus Dirinastrum J. Müller Arg., 1893
- Genus Embolidium P.A. Saccardo, 1878 accepted as Calicium Persoon in Roemer & Usteri, 1794
- Genus Endohyalina B. Marbach, 2000
- Genus Fluctua B. Marbach, 2000
- Genus Gassicurtia Fée, 1824 accepted as Buellia G. De Notaris, 1846
- Genus Hafellia K. Kalb, H. Mayerhofer & C. Scheidegger in K. Kalb, 1986
- Genus Holocyphis Clements, 1909 accepted as Thelomma A. Massalongo, 1860
- Genus Hypoflavia B. Marbach, 2000
- Genus Kemmleria Körber, 1861 accepted as Buellia G. De Notaris, 1846
- Genus Lepropinacia Ventenat, 1799 accepted as Buellia G. De Notaris, 1846
- Genus Mannia Trevisan, 1857 accepted as Buellia G. De Notaris, 1846
- Genus Mattickiolichen Tomaselli & Ciferri, 1952 accepted as Buellia G. De Notaris, 1846
- Genus Mattickiomyces Ciferri & Tomaselli, 1953 accepted as Buellia G. De Notaris, 1846
- Genus Melanaspicilia Vainio, 1909 accepted as Buellia G. De Notaris, 1846
- Genus Monerolechia Trevisan, 1857 accepted as Buellia G. De Notaris, 1846
- Genus Mucor Linnaeus, 1753 accepted as Calicium Persoon in Roemer & Usteri, 1794
- Genus Mycacolium Reinke, 1895 accepted as Cyphelium Acharius, 1815
- Genus Phacotium (Acharius) Trevisan, 1821 accepted as Calicium Persoon in Roemer & Usteri, 1794
- Genus Phacotrum S.F. Gray, 1821 accepted as Calicium Persoon in Roemer & Usteri, 1794
- Genus Phragmopyxine Clements, 1909 accepted as Pyxine E.M. Fries, 1825
- Genus Podocratera Norman, 1861 accepted as Tholurna Norman, 1861
- Genus Pseudacoliomyces Ciferri & Tomaselli, 1953 accepted as Cyphelium Acharius, 1815
- Genus Pseudacolium Stizenberger ex F.E. Clements, 1909 accepted as Cyphelium Acharius, 1815
- Genus Pyxine E.M. Fries, 1825
- Genus Samboa Tomaselli & Ciferri, 1952 accepted as Buellia G. De Notaris, 1846
- Genus Samboamyces Ciferri & Tomaselli, 1953 accepted as Buellia G. De Notaris, 1846
- Genus Santessonia M.E. Hale & G. Vobis, 1978
- Genus Sculptolumina B. Marbach, 2000
- Genus Sphaerocephalum F.H. Wiggers, 1780 accepted as Calicium Persoon in Roemer & Usteri, 1794
- Genus Sphinctrinopsis Woronichin, 1927
- Genus Stenocybella Vainio, 1927 accepted as Calicium Persoon in Roemer & Usteri, 1794
- Genus Stigmatochroma B. Marbach, 2000
- Species Stigmatochroma epimarta (Nyl.) Marbach, 2000
- Species Stigmatochroma gerontoides (Stirt.) Marbach, 2000 accepted as Buellia gerontoides (Stirt.) Imshaug, 1955
- Genus Strongylium (Acharius) S.F. Gray, 1821 accepted as Calicium Persoon in Roemer & Usteri, 1794
- Genus Tetramelas Norman, 1853 accepted as Buellia G. De Notaris, 1846
- Genus Texosporium Nádvorník ex Tibell & Hofsten, 1968
- Genus Thelomma A. Massalongo, 1860
- Genus Tholurna Norman, 1861
- Genus Tholurnomyces Ciferri & Tomaselli, 1953 accepted as Tholurna Norman, 1861
- Genus Trachylia Tuckerman, 1848 accepted as Cyphelium Acharius, 1815
- Genus Tylophoropsis Sambo, 1938
- Genus Vainionia Räsänen, 1943 accepted as Calicium Persoon in Roemer & Usteri, 1794
- Family Letrouitiaceae
- Family Megalosporaceae
- Family Microcaliciaceae
- Family Physciaceae A. Zahlbruckner, 1898
- Family Psoraceae accepted as Physciaceae A. Zahlbruckner, 1898
- Family Ropalosporaceae
- Family Teloschistaceae A. Zahlbruckner, 1898
- Order Umbilicariales
- 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 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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