• Phoma E.M. Fries, 1821 accepted as Plagiostoma Fuckel, 1870 [Family: Gnomoniaceae]
• Phoma P.A. Saccardo, 1880 [Family: Pleosporales incertae sedis]
• Phoma abdita Sacc., 1880 accepted as Phomopsis abdita (Sacc.) Traverso, 1906
• Phoma abietina Hartig accepted as Phomopsis abietina (Hartig) Höhn., 1928
• Phoma acetosellae (A.L. Sm. & Ramsb.) Aa & Boerema, 2002
• Phoma achilleae Sacc., 1882 accepted as Diaporthe orthoceras (Fr.) Nitschke, 1870
• Phoma acicola (Moug. & Lév.) Sacc., 1881 accepted as Sydowia polyspora (Bref. & Tavel) E. Müll., 1953
• Phoma actaeae Boerema, Gruyter & Noordel., 1997
• Phoma aculeorum Sacc., 1878
• Phoma acuta (Hoffm.) Fuckel, 1869
• Phoma acuum Cooke & Ellis, 1878
• Phoma adianticola (E. Young) Boerema, 1983
• Phoma agnita Gonz. Frag., 1920
• Phoma ailanthi Sacc., 1884 accepted as Diaporthe ailanthi Sacc., 1873
• Phoma ajacis (Thüm.) Aa & Boerema, 1993
• Phoma albicans Roberge ex Desm. accepted as Pleospora herbarum (Pers.) Rabenh., 1854
• Phoma alchemillae Rostr., 1897
• Phoma aliena (Fr.) Aa & Boerema, 1998
• Phoma allostoma (Lév.) Sacc., 1884
• Phoma alternariaceum F.T. Brooks & Searle, 1921 accepted as Phoma glomerata (Corda) Wollenw. & Hochapfel, 1936
• Phoma amaryllidis Kotthoff & Friedrichs, 1929 accepted as Stagonosporopsis curtisii (Berk.) Boerema, 1981
• Phoma ambigua (Nitschke) Sacc., 1879 accepted as Diaporthe eres Nitschke, 1870
• Phoma ambigua Sacc., 1880 accepted as Diaporthe eres Nitschke, 1870
• Phoma americana Morgan-Jones & J.F. White, 1983
• Phoma ammophilae Durieu & Mont., 1849
• Phoma anceps Sacc., 1881 accepted as Diaporthe eres Nitschke, 1870
• Phoma andigena Turkenst., 1995
• Phoma andina Turkenst., 1978 accepted as Phoma andigena Turkenst., 1995
• Phoma anigozanthi Tassi
• Phoma annullata N. Pons, 1990 accepted as Leptosphaeria sacchari Breda de Haan, 1892
• Phoma anserina Marchal, 1891
• Phoma apiicola Kleb., 1910
• Phoma aposphaerioides Briard & Har., 1890 accepted as Phoma cava Schulzer, 1871
• Phoma aquilegiicola M. Petrov, 1933
• Phoma aquilina Sacc. & Penz., 1882
• Phoma arachidicola Marasas, Pauer & Boerema, 1974 accepted as Didymosphaeria arachidicola (Khokhr.) Alcorn, Punith. & MacCarthy, 1976
• Phoma araucariae Traverso, 1900
• Phoma arctii (Lasch) Sacc., 1881 accepted as Diaporthe arctii (Lasch) Nitschke, 1870
• Phoma argillacea (Bres.) Aa & Boerema, 2002 accepted as Didymella applanata (Niessl) Sacc., 1882
• Phoma armeriae-sibericae Allesch.
• Phoma arundinacea (Berk.) Sacc., 1884
• Phoma asparagi Sacc., 1878 accepted as Phomopsis asparagi (Sacc.) Grove, 1935
• Phoma asphodelina Thüm. accepted as Phomopsis asphodelina (Thüm.) Traverso & Spessa
• Phoma asteriscus Berk., 1850
• Phoma astragali Cooke & Harkn.
• Phoma atriplicina Westend., 1857 accepted as Stagonospora atriplicis (Westend.) Lind, 1913
• Phoma aubrietiae (Moesz) Boerema, 1970
• Phoma aurea Gruyter, Noordel. & Boerema, 1993
• Phoma australis Cooke, 1886 accepted as Idiocercus australis (Cooke) H.J. Swart, 1988
• Phoma bakeriana Sacc., 1914
• Phoma barbari Cooke
• Phoma bellidis Neerg., 1950
• Phoma berkeleyi Sacc., 1875 accepted as Phomatospora berkeleyi Sacc., 1939
• Phoma betae A.B. Frank, 1892 accepted as Pleospora betae Björl., 1915
• Phoma bismarckii Kidd & Beaumont, 1924
• Phoma boltshauseri (Sacc.) Boerema, R. Pieters & Hamers, 1993 accepted as Ascochyta boltshauseri Sacc., 1891
• Phoma brassicae Thüm., 1884 accepted as Leptosphaeria maculans (Desm.) Ces. & De Not., 1863
• Phoma cacti Berk., 1853 accepted as Phomopsis cacti (Berk.) Grove, 1917
• Phoma cajani (Rangel) Khune & J.N. Kapoor, 1981 accepted as Phyllosticta cajani P. Syd., 1915
• Phoma cajani Rangel, 1915
• Phoma calystegiae Cooke, 1885 accepted as Phomopsis calystegiae (Cooke) Petr. & Syd., 1932
• Phoma candollei (Berk. & Broome) Sacc., 1884 accepted as Dothiorella candollei (Berk. & Broome) Petr., 1923
• Phoma cannabis (L.A. Kirchn.) McPartl., 1995 accepted as Septoria cannabis (Lasch) Sacc., 1884
• Phoma capitulum Panwar, P.N. Mathur & Thirum., 1967
• Phoma capreae (DC.) Höhn. accepted as Linospora saligna (Ehrh. ex Pers.) Traverso, 1906
• Phoma capsici Magnaghi, 1902 accepted as Diaporthe capsici Punith., 1981
• Phoma caricae-papayae (Tarr) Punith., 1980
• Phoma caricicola Brunaud
• Phoma caricis (Fr.) Sacc., 1884 accepted as Phyllachora caricis (Fr.) Sacc., 1883
• Phoma casuarinae Tassi, 1897 accepted as Phomopsis casuarinae (Tassi) Died., 1912
• Phoma cava Schulzer, 1871
• Phoma chamaenerii Brunaud, 1886
• Phoma chenopodiicola Gruyter, Noordel. & Boerema, 1993
• Phoma chrysanthemi Voglino, 1902 accepted as Mycosphaerella chrysanthemi (Tassi) Tomilin, 1979
• Phoma chrysanthemicola Hollós, 1907
• Phoma cinerescens Sacc. accepted as Diaporthe cinerascens Sacc., 1882
• Phoma cirsii Syd., 1899
• Phoma citricarpa McAlpine, 1899 accepted as Guignardia citricarpa Kiely, 1948
• Phoma clematidina (Thüm.) Boerema, 1979
• Phoma cocoina Cooke, 1877 accepted as Phomopsis cocoës Petch, 1922
• Phoma collabens Cooke, 1885 accepted as Macrophoma collabens (Cooke) Berl. & Voglino, 1886
• Phoma complanata (Tode) Desm., 1881
• Phoma concentrica Desm., 1840 accepted as Coniothyrium concentricum (Desm.) Sacc., 1878
• Phoma concentrica Sacc., 1880
• Phoma coneglanensis Sacc., 1881 accepted as Diaporthe coneglanensis Sacc. & Speg., 1877
• Phoma confluens Welw. & Curr., 1867 accepted as Dothidella confluens (Welw. & Curr.) Sacc., 1891
• Phoma conigena P. Karst., 1885 accepted as Sirococcus conigenus (DC.) P.F. Cannon & Minter, 1983
• Phoma conorum Sacc., 1882 accepted as Diaporthe eres Nitschke, 1870
• Phoma consocia E. Bommer, M. Rousseau & Sacc., 1891 accepted as Diaporthe hippophaës E. Bommer, M. Rousseau & Sacc., 1891
• Phoma controversa (Desm.) Sacc. accepted as Diaporthe eres Nitschke, 1870
• Phoma coonsii Boerema & Loer., 1985
• Phoma corni-suecicae (Fr.) Sacc. accepted as Pseudomassaria corni (Sowerby) Arx, 1952
• Phoma corticis Fuckel, 1870 accepted as Phomopsis corticis (Fuckel) Grove, 1918
• Phoma costaricensis Echandi, 1957
• Phoma crataegi Sacc., 1878
• Phoma crateriformis (Durieu & Mont.) Sacc. accepted as Coleophoma crateriformis (Durieu & Mont.) Höhn., 1925
• Phoma crinicola (Siemaszko) Boerema, 1979
• Phoma cruris-hominis Punith., 1979
• Phoma crustosa Sacc., E. Bommer & M. Rousseau, 1887 accepted as Diaporthe crustosa Sacc. & Roum., 1881
• Phoma cryptica (Nitschke) Sacc. accepted as Diaporthe cryptica Nitschke, 1870