• Microthyrium Desmazières, 1841
• Microthyrium alpestre Sacc., 1880 accepted as Lichenopeltella alpestris (Sacc.) P.M. Kirk ined.
• Microthyrium ciliatum Gremmen & De Kam, 1969
• Microthyrium culmigenum Syd., 1921 accepted as Lichenopeltella alpestris (Sacc.) P.M. Kirk ined.
• Microthyrium cytisi Fuckel, 1869
• Microthyrium dryadis (Rehm) M.E. Barr, 1990 accepted as Stomiopeltis dryadis (Rehm) L. Holm, 1979
• Microthyrium fagi J.P. Ellis, 1977
• Microthyrium gramineum E. Bommer, M. Rousseau & Sacc., 1891
• Microthyrium graminum E. Bommer, M. Rousseau & Sacc., 1891
• Microthyrium ilicinum De Not., 1862
• Microthyrium inconspicuum J.P. Ellis, 1977
• Microthyrium juniperi (Desm.) Sacc. accepted as Seynesiella juniperi (Desm.) G. Arnaud, 1918
• Microthyrium lauri Höhn., 1919
• Microthyrium litigiosum (Desm.) Sacc., 1879 accepted as Leptopeltis litigiosa (Desm.) L. Holm & K. Holm, 1977
• Microthyrium macrosporum (Sacc.) Höhn., 1919
• Microthyrium microscopicum Desm., 1841
• Microthyrium nigroannulatum J. Webster, 1952 accepted as Lichenopeltella nigroannulata (J. Webster) P.M. Kirk ined.
• Microthyrium pinastri Fuckel, 1876 accepted as Stomiopeltis pinastri S. Ahmad, 1979
• Microthyrium pinophyllum (Höhn.) Petr., 1927
• Microthyrium rhododendri Grove, 1933 accepted as Lembosina aulographoides (E. Bommer, M. Rousseau & Sacc.) Theiss., 1913
• Microthyrium versicolor (Desm.) Höhn., 1910