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
- Class Leotiomycetes
- Order Cyttariales
- Order Erysiphales
- Order Helotiales
- Family Amicodiscaceae A.H. Ekanayaka & K.D. Hyde in Ekanayaka, Hyde, Gentekaki, McKenzie, Zhao, Bulgakov & Camporesi, 2019
- Family Arachnopezizaceae T. Hosoya, J.G. Han & H.O. Baral in Baral, 2015
- Family Ascocorticiaceae
- Family Bryoglossaceae A.H. Ekanayaka & K.D. Hyde in Ekanayaka, Hyde, Gentekaki, McKenzie, Zhao, Bulgakov & Camporesi, 2019
- Family Chlorociboriaceae H.O. Baral & P.R. Johnston in Baral, 2015
- Family Chlorospleniaceae A.H. Ekanayaka & K.D. Hyde in Ekanayaka, Hyde, Gentekaki, McKenzie, Zhao, Bulgakov & Camporesi, 2019
- Family Dermateaceae
- Family Discinellaceae A.H. Ekanayaka & K.D. Hyde in Ekanayaka, Hyde, Gentekaki, McKenzie, Zhao, Bulgakov & Camporesi, 2019
- Family Excipulaceae accepted as Helotiales incertae sedis
- Family Hamatocanthoscyphaceae A.H. Ekanayaka & K.D. Hyde, 2019
- Family Helotiaceae
- Family Helotiales incertae sedis
- Family Hemiphacidiaceae
- Family Hyaloscyphaceae
- Genus Acleistia Bayl. Elliott, 1917
- Genus Aeruginoscyphus R. Dougoud, 2012
- Genus Albotricha Raitviir, 1970
- Genus Arachnopezizella Kirschstein, 1938 accepted as Arachnopeziza Fuckel, 1870
- Genus Arachnoscypha Boudier, 1885 accepted as Arachnopeziza Fuckel, 1870
- Genus Arboricolonus S. Bien & U. Damm, 2020
- Genus Arenaea Penzig & P.A. Saccardo, 1901 accepted as Lachnum Retzius, 1795
- Genus Asperopilum B.M. Spooner, 1987
- Genus Austropezia B.M. Spooner, 1987
- Genus Belonidium Durieu de Maisonneuve in Durieu de Maisonneuve & Montagne, 1848 accepted as Lachnum Retzius, 1795
- Genus Betulina Velenovský, 1947
- Genus Brefeldochium Verkley, 2005
- Genus Brunnipila H.-O. Baral in H.-O. Baral & Krieglsteiner, 1985 accepted as Lachnum Retzius, 1795
- Genus Calyptellopsis M. Svrček, 1986
- Genus Capitotricha (A.G. Raitviir) H.O. Baral in H.O. Baral & Krieglsteiner, 1985 accepted as Lachnum Retzius, 1795
- Genus Catinella W. Kirschstein, 1924 accepted as Unguicularia F. von Höhnel, 1905
- Genus Chaetoscypha H. Sydow, 1924 accepted as Lachnum Retzius, 1795
- Genus Cheiromycella F. von Höhnel, 1910
- Genus Chimaeroscypha Raitviir, 2004
- Genus Chrysothallus Velenovský, 1934
- Genus Chytrella Kirschstein, 1941 accepted as Unguicularia F. von Höhnel, 1905
- Genus Ciliosculum Kirschstein, 1941
- Genus Cistella Quélet, 1886
- Genus Clathrosphaerina A.L. van Beverwijk, 1951
- Genus Clavidisculum Kirschstein, 1938
- Genus Dasypezis F.E. Clements, 1909 accepted as Lachnum Retzius, 1795
- Genus Dasyscypha K.W.G.L. Fuckel, 1870
- Genus Dasyscyphella Tranzschel, 1898
- Genus Dasyscyphus Nees ex S.F. Gray, 1821
- Genus Debaryoscyphus W.-R. Arendholz & R. Sharma in R. Sharma et al., 1986 accepted as Hamatocanthoscypha M. Svrček, 1977
- Genus Dimorphotricha B.M. Spooner, 1987
- Genus Discocistella M. Svrček, 1962 accepted as Cistella Quélet, 1886
- Genus Dyslachnum F.E. Clements, 1909 accepted as Lachnum Retzius, 1795
- Genus Echinula W.D. Graddon, 1977
- Genus Erinella Quélet, 1886 accepted as Lachnum Retzius, 1795
- Genus Erinella Saccardo, 1889 accepted as Lachnum Retzius, 1795
- Genus Erinellina F.J. Seaver, 1951 accepted as Lachnum Retzius, 1795
- Genus Eriopezia (Saccardo) Rehm, 1892
- Genus Erioscypha Kirschstein, 1938 accepted as Lachnum Retzius, 1795
- Genus Erioscyphella Kirschstein, 1938 accepted as Lachnum Retzius, 1795
- Genus Eriosyphella Kirchstein, 1938 accepted as Lachnum Retzius, 1795
- Genus Eupezizella F. von Höhnel in Weese, 1926 accepted as Hyaloscypha Boudier, 1885
- Genus Farinodiscus M. Svrček, 1987 accepted as Proliferodiscus J.H. Haines & K.P. Dumont, 1983
- Genus Fuscoscypha M. Svrček, 1987
- Genus Gemmina Raitviir, 2004
- Genus Globulina Velenovský, 1934 accepted as Unguiculella F. von Höhnel, 1906
- Genus Graddonidiscus A. Raitviir & R. Galan in R. Galan & A. Raitviir, 1992
- Genus Hegermila Raitviir, 1995
- Genus Helolachnum Torrend, 1910 accepted as Lachnum Retzius, 1795
- Genus Helotiopsis F. von Höhnel, 1910 accepted as Pithyella Boudier, 1885
- Genus Hispidula P.R. Johnston, 2003
- Genus Hyalacrotes (Korf & L.M. Kohn) Raitviir, 1991
- Genus Hyaloscypha Boudier, 1885
- Species Hyaloscypha acuum (Alb. & Schwein.) Velen., 1934 accepted as Cistella acuum (Alb. & Schwein.) Svrček, 1959
- Species Hyaloscypha albohyalina (P. Karst.) Boud., 1907
- Species Hyaloscypha alniseda Velen., 1934 accepted as Hyaloscypha fuckelii Nannf., 1932
- Species Hyaloscypha asperipila Svrček, 1977 accepted as Calycellina asperipila (Svrček) Baral, 1989
- Species Hyaloscypha aureliella (Nyl.) Huhtinen, 1990
- Species Hyaloscypha barbata (Velen.) Svrček, 1985 accepted as Protounguicularia barbata (Velen.) Huhtinen, 1987
- Species Hyaloscypha britannica Huhtinen, 1990
- Species Hyaloscypha candidata (Cooke) Boud., 1907
- Species Hyaloscypha carpinacea Velen., 1934
- Species Hyaloscypha cejpii Velen. accepted as Scutellinia cejpii (Velen.) Svrček, 1971
- Species Hyaloscypha ciliifera (P. Karst.) Boud., 1907 accepted as Pezoloma ciliifera (P. Karst.) Korf, 1971
- Species Hyaloscypha cladii Nag Raj & W.B. Kendr., 1975 accepted as Phaeoscypha cladii (Nag Raj & W.B. Kendr.) Spooner, 1984
- Species Hyaloscypha clavuliformis (P. Karst.) Boud., 1907 accepted as Allophylaria clavuliformis (P. Karst.) P. Karst., 1870
- Species Hyaloscypha curvipila Grelet, 1951 accepted as Hamatocanthoscypha laricionis (Velen.) Svrček, 1977
- Species Hyaloscypha daedaleae Velen., 1934
- Species Hyaloscypha dematiicola (Berk. & Broome) Nannf., 1936 accepted as Dematioscypha dematiicola (Berk. & Broome) Svrček, 1977
- Species Hyaloscypha dentata (Pers.) Boud., 1907 accepted as Cistella dentata (Pers.) Quél., 1886
- Species Hyaloscypha deparcula (P. Karst.) Nannf. ex Dennis, 1949 accepted as Phialina ulmariae (Lasch) Dennis, 1960
- Species Hyaloscypha effugiens (Roberge ex Desm.) ined.
- Species Hyaloscypha epiporia Huhtinen, 1990
- Species Hyaloscypha eriophori (Quél.) Velen., 1934 accepted as Lachnum imbecille P. Karst., 1870
- Species Hyaloscypha farinacea (Cooke & Massee) Boud., 1907
- Species Hyaloscypha flaveola (Cooke) Nannf., 1939
- Species Hyaloscypha fuckelii Nannf., 1932
- Species Hyaloscypha glyceriae Velen., 1934 accepted as Discocistella glyceriae (Velen.) Svrček, 1985
- Species Hyaloscypha hamulata (Feltgen) Boud., 1907 accepted as Unguiculella hamulata (Feltgen) Höhn., 1906
- Species Hyaloscypha herbarum Velen., 1934
- Species Hyaloscypha hungarica (Rehm) Velen., 1934 accepted as Cistella hungarica (Rehm) Raitv., 1978
- Species Hyaloscypha hyalina (Pers.) Boud., 1907
- Species Hyaloscypha incerta (Allesch.) Boud., 1907 accepted as Pezizella incerta (P. Karst.) Rehm
- Species Hyaloscypha intacta Svrček, 1986
- Species Hyaloscypha iridina Velen., 1934
- Species Hyaloscypha lachnobrachya (Desm.) Nannf., 1932 accepted as Phialina lachnobrachya (Desm.) Raitv., 1970
- Species Hyaloscypha laricionis (Velen.) Nannf., 1958 accepted as Hamatocanthoscypha laricionis (Velen.) Svrček, 1977
- Species Hyaloscypha lectissima (P. Karst.) Raitv., 1970 accepted as Hyaloscypha albohyalina (P. Karst.) Boud., 1907
- Species Hyaloscypha leucella (P. Karst.) Boud., 1907 accepted as Calycellina leucella (P. Karst.) Dennis ex E. Müll., 1977
- Species Hyaloscypha leuconica (Cooke) Nannf., 1936
- Species Hyaloscypha lignicola Abdullah & J. Webster, 1983 accepted as Hyaloscypha albohyalina (P. Karst.) Boud., 1907
- Species Hyaloscypha microspis (P. Karst.) Velen., 1934 accepted as Calycellina microspis (P. Karst.) Dennis, 1989
- Species Hyaloscypha millepunctata (Lib.) Boud., 1907 accepted as Hyalopeziza millepunctata (Lib.) Raitv., 1970
- Species Hyaloscypha mirabilis Velen., 1934
- Species Hyaloscypha myriadea (Mouton) Boud., 1907 accepted as Pezizella myriadea Mouton
- Species Hyaloscypha nympharum Velen., 1934 accepted as Psilocistella nympharum (Velen.) Svrček, 1985
- Species Hyaloscypha olivacea Velen., 1934 accepted as Dematioscypha richonis (Boud.) Huhtinen, 1987
- Species Hyaloscypha paludosa Dennis, 1962
- Species Hyaloscypha parenchymatosa Velen., 1947 accepted as Pezizella myriadea Mouton
- Species Hyaloscypha pellucida Velen., 1934
- Species Hyaloscypha perpusilla Velen., 1934 accepted as Hyaloscypha fuckelii Nannf., 1932
- Species Hyaloscypha phyllophila (Desm.) Boud., 1907 accepted as Hymenoscyphus phyllophilus (Desm.) Kuntze, 1898
- Species Hyaloscypha priapi Velen., 1934
- Species Hyaloscypha pseudopuberula Graddon, 1972 accepted as Phialina pseudopuberula (Graddon) Raitv., 1977
- Species Hyaloscypha pteridina Velen., 1934 accepted as Micropodia pteridina (Nyl.) Boud., 1904
- Species Hyaloscypha puberula (Lasch) Nannf. ex Dennis, 1949 accepted as Calycellina punctata (Fr.) Lowen & Dumont, 1984
- Species Hyaloscypha puberulum (Lasch) Nannf., 1949 accepted as Calycellina punctata (Fr.) Lowen & Dumont, 1984
- Species Hyaloscypha punctiformis (Grev.) Boud., 1907 accepted as Calycellina punctata (Fr.) Lowen & Dumont, 1984
- Species Hyaloscypha punctoidea (P. Karst.) Boud., 1907 accepted as Pezizella punctoidea (P. Karst.) Rehm, 1896
- Species Hyaloscypha pygmaea (Mouton) Boud., 1907 accepted as Hyalopeziza pygmaea (Mouton) Huhtinen, 1987
- Species Hyaloscypha quercicola (Velen.) Huhtinen, 1990
- Species Hyaloscypha quercina Velen., 1934 accepted as Hyaloscypha quercicola (Velen.) Huhtinen, 1990
- Species Hyaloscypha radiostriata (Feltgen) Boud., 1907 accepted as Pezizellaster radiostriatus (Feltgen) Höhn., 1917
- Species Hyaloscypha repanda (W. Phillips) anon. ined. accepted as Hymenoscyphus repandus (W. Phillips) Dennis, 1964
- Species Hyaloscypha reticulata Vacek, 1948 accepted as Calyptellopsis reticulata (Vacek) Svrček, 1986
- Species Hyaloscypha richonis (Boud.) Dennis, 1949 accepted as Dematioscypha richonis (Boud.) Huhtinen, 1987
- Species Hyaloscypha salicina Velen., 1934 accepted as Hyaloscypha carpinacea Velen., 1934
- Species Hyaloscypha scintillans (Graddon) Dennis, 1978 accepted as Phaeoscypha cladii (Nag Raj & W.B. Kendr.) Spooner, 1984
- Species Hyaloscypha secalina Velen., 1934
- Species Hyaloscypha setosa (Velen.) Svrček, 1962 accepted as Hyaloscypha hyalina (Pers.) Boud., 1907
- Species Hyaloscypha stevensonii (Berk. & Broome) Nannf., 1936 accepted as Hyaloscypha aureliella (Nyl.) Huhtinen, 1990
- Species Hyaloscypha straminea (Berk. & Broome) Boud., 1907 accepted as Crocicreas stramineum (Berk. & Broome) S.E. Carp., 1980
- Species Hyaloscypha tigillaris (P. Karst.) Raitv., 1970 accepted as Hyaloscypha albohyalina (P. Karst.) Boud., 1907
- Species Hyaloscypha uncipila Le Gal, 1955 accepted as Hamatocanthoscypha uncipila (Le Gal) Huhtinen, 1990
- Species Hyaloscypha velenovskyi Graddon, 1972 accepted as Hyaloscypha aureliella (Nyl.) Huhtinen, 1990
- Species Hyaloscypha vitreola (P. Karst.) Boud., 1885
- Species Hyaloscypha zalewskii Descals & J. Webster, 1977
- Genus Hyphoscypha Bresadola, 1903 accepted as Lachnum Retzius, 1795
- Genus Hyposcypha Bresadola, 1903
- Genus Incrucipulum H.-O. Baral, 1985
- Genus Incrupila Raitviir, 1970
- Genus Lachnaster F. von Höhnel, 1917 accepted as Lachnum Retzius, 1795
- Genus Lachnella Boudier, 1885 accepted as Lachnum Retzius, 1795
- Genus Lachnellula P.A. Karsten, 1884
- Genus Lachnobelonium F. von Höhnel in Weese, 1926 accepted as Lachnum Retzius, 1795
- Genus Lachnum Retzius, 1795
- Genus Lacnellula
- Genus Lasiobelonium (P.A. Saccardo) P.A. Saccardo & P. Sydow, 1899 accepted as Lachnum Retzius, 1795
- Genus Lasiomollisia A. Raitviír & J. Vesterholt in Raitviír, 2006
- Genus Mycoarthris Marvanová & P.J. Fisher, 2002
- Genus Mycopandora Velenovský, 1947 accepted as Unguicularia F. von Höhnel, 1905
- Genus Neodasyscypha Suková & Spooner, 2005
- Genus Neodasyscypha Spooner, 1987 accepted as Neodasyscypha Suková & Spooner, 2005
- Genus Olla Velenovský, 1934
- Genus Otwaya G. Beaton in G. Beaton & G. Weste, 1978
- Genus Parachnopeziza R.P. Korf, 1978
- Genus Perrotia Boudier, 1901
- Genus Pezizellaster F. von Höhnel, 1917 accepted as Lachnum Retzius, 1795
- Genus Phalothrix F.E. Clements, 1909 accepted as Unguicularia F. von Höhnel, 1905
- Genus Phialina F. von Höhnel in Weese, 1926 accepted as Calycellina F. von Höhnel, 1918
- Genus Phialoscypha A. Raitviir, 1977 accepted as Calycellina F. von Höhnel, 1918
- Genus Pilatia Velenovský, 1934 accepted as Urceolella Boudier, 1885
- Genus Pithyella Boudier, 1885
- Genus Polaroscyphus S. Huhtinen in G.A. Laursen et al., 1987
- Genus Polydesmia Boudier, 1885
- Genus Proliferodiscus J.H. Haines & K.P. Dumont, 1983
- Genus Proprioscypha B.M. Spooner, 1987
- Genus Protounguicularia A.G. Raitviir & R. Galán, 1986
- Genus Pseudaegerita J.L. Crane & J.D. Schoknecht, 1981
- Genus Pseudoolla Velenovský, 1934 accepted as Olla Velenovský, 1934
- Genus Psilachnum F. von Höhnel in Weese, 1926
- Genus Psilocistella M. Svrček, 1977
- Genus Remleria Raitviir, 2004
- Genus Rodwayella B.M. Spooner in R.W.G. Dennis, 1986
- Genus Schweinitzia Massee, 1895 accepted as Velutaria Fuckel, 1870
- Genus Setoscypha Velenovský, 1934 accepted as Calycellina F. von Höhnel, 1918
- Genus Trichoscypha Boudier, 1885 accepted as Lachnellula P.A. Karsten, 1884
- Genus Trichoscyphella Nannfeldt, 1932 accepted as Lachnellula P.A. Karsten, 1884
- Genus Truncicola Velenovský, 1934 accepted as Hyaloscypha Boudier, 1885
- Genus Uncinia Velenovský, 1934 accepted as Hamatocanthoscypha M. Svrček, 1977
- Genus Unciniella K. Holm & L. Holm, 1977 accepted as Hamatocanthoscypha M. Svrček, 1977
- Genus Unguicularia F. von Höhnel, 1905
- Genus Unguiculariella K.S. Thind & R. Sharma, 1990
- Genus Unguiculella F. von Höhnel, 1906
- Genus Urceolella Boudier, 1885
- Genus Velutaria Fuckel, 1870
- Family Hydrocinaceae A.H. Ekanayaka & K.D. Hyde in Ekanayaka, Hyde, Gentekaki, McKenzie, Zhao, Bulgakov & Camporesi, 2019
- Family Hymenoscyphaceae accepted as Helotiaceae
- Family Loramycetaceae
- Family Mollisiaceae accepted as Helotiales incertae sedis
- Family Moniliaceae accepted as Sclerotiniaceae
- Family Neolauriomycetaceae P.W. Crous in Crous et al., 2018
- Family Patellariopsidaceae A. Karunarathna, E. Camporesi & K.D. Hyde in Karunarathna et al., 2020
- Family Pezizellaceae J. Velenovský, 1934
- Family Phacidiaceae
- Family Rhizothyriaceae accepted as Helotiaceae
- Family Rutstroemiaceae
- Family Sclerotiniaceae
- Family Solenopeziaceae A.H. Ekanayaka & K.D. Hyde in Ekanayaka, Hyde, Gentekaki, McKenzie, Zhao, Bulgakov & Camporesi, 2019
- Family Tympanidaceae H.O. Baral & L. Quijada in Baral, 2015
- Family Vandijckellaceae M. Sandoval-Denis in Crous et al., 2017
- Family Vibrisseaceae
- Order Leotiales
- Order Leotiomycetes incertae sedis
- Order Leotiomycetidae incertae sedis
- Order Lichinodiales
- Order Medeolariales
- Order Rhytismatales
- Order Thelebolales
- 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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