• Gymnodinium Stein, 1878
• Gymnodinium abbreviatum Kofoid & Swezy, 1921
• Gymnodinium achromaticum Lebour, 1917
• Gymnodinium acidotum Nygaard, 1949 accepted as Gymnodinium aeruginosum F. Stein, 1883
• Gymnodinium acuminatum Christen, 1954
• Gymnodinium acutissimum Okolodkov, 1997
• Gymnodinium acutiusclum Okolodkov, 1997
• Gymnodinium adriaticum (Schmarda) Kofoid & Swezy, 1921
• Gymnodinium aequatoriale Hasle, 1960
• Gymnodinium aeruginosum F. Stein, 1883
• Gymnodinium aesculum Baumeister, 1943
• Gymnodinium agaricoides P.H. Campbell, 1973
• Gymnodinium agile Herdman, 1922 accepted as Herdmania litoralis Dodge, 1981
• Gymnodinium agile Kofoid & Swezy, 1921 accepted as Durinskia agilis (Kofoid & Swezy) Saburova, Chomérat & Hoppenrath, 2012
• Gymnodinium agiliforme Schiller, 1928
• Gymnodinium agiliformis Schiller
• Gymnodinium alaskense Bursa, 1963
• Gymnodinium alatum Litvienko, 1963 accepted as Peridiniopsis berolinense (Lemmermann) Bourrelly, 1968
• Gymnodinium albidum J.B. Lackey & E.W. Lackey, 1970
• Gymnodinium albulum Lindemann, 1928 accepted as Gymnodinium lantzschii Utermöhl, 1925
• Gymnodinium allophron J. Larsen, 1994
• Gymnodinium alsiophyllum Skuja, 1964 accepted as Gymnodinium latum Skuja, 1948
• Gymnodinium amphidinioides Geitler, 1924 accepted as Amphidinium amphidinioides (Geitler) Schiller, 1932
• Gymnodinium amphityphlum J. Larsen, 1994
• Gymnodinium amphora Kofoid & Swezy, 1921
• Gymnodinium amplinucleum P.H. Campbell, 1973
• Gymnodinium archimedes Pouchet accepted as Cochlodinium archimedes (Pouchet) Lemmermann, 1899
• Gymnodinium archimedis Pouchet, 1883 accepted as Cochlodinium archimedes (Pouchet) Lemmermann, 1899
• Gymnodinium arcticum Wulff, 1919
• Gymnodinium arcuatum Kofoid, 1931
• Gymnodinium arenicola Dragesco
• Gymnodinium arenicolum Dragesco, 1965
• Gymnodinium areuginosum Stein
• Gymnodinium asymmetricum Massart, 1900 accepted as Katodinium asymmetricum (Massart) Loeblich, 1965
• Gymnodinium atomatum J. Larsen, 1994
• Gymnodinium attenuatum Kofoid & Swezy, 1921
• Gymnodinium aurantium P.H. Campbell, 1973
• Gymnodinium auratum Kofoid & Swezy, 1921
• Gymnodinium aureolum (E.M. Hulburt) G. Hansen, 2000
• Gymnodinium aureum Kofoid & Swezy, 1921
• Gymnodinium australe Playfair
• Gymnodinium australense Ruiner, 1938
• Gymnodinium austriacum Schiller, 1933
• Gymnodinium autumnale Christen, 1959 accepted as Gymnodinium austriacum Schiller, 1933
• Gymnodinium baccatum Balech, 1965
• Gymnodinium béii H.J. Spero, 1987
• Gymnodinium bicaudatum Pavillard, 1905
• Gymnodinium biciliatum Bicudo & Skvorlzov, 1970
• Gymnodinium biconicum Schiller, 1928
• Gymnodinium bicorne Kofoid & Swezy, 1921
• Gymnodinium bifurcatum Kofoid & Swezy, 1921
• Gymnodinium bilobatum van Meel, 1969
• Gymnodinium birotundatum van Goor, 1925
• Gymnodinium bisaetosum Lindemann, 1928
• Gymnodinium blax Harris, 1939 accepted as Katodinium fungiforme (Anissimova) A.R. Loeblich III, 1965
• Gymnodinium bogoriense Klebs, 1912 accepted as Gymnodinium uberrimum (G.J. Allman) Kofoid & Swezy, 1921
• Gymnodinium boguense P.H. Campbell, 1973
• Gymnodinium bohemicum Fott, 1938 accepted as Katodinium bohemicum (Fott) Litvinenko, 1977
• Gymnodinium bonaerense Akselman, 1985
• Gymnodinium boreale Gaarder, 1953
• Gymnodinium breve C.C. Davis, 1948 accepted as Karenia brevis (C.C. Davis) G. Hansen & Ø. Moestrup, 2000
• Gymnodinium brevis Davis, 1948 accepted as Karenia brevis (C.C. Davis) G. Hansen & Ø. Moestrup, 2000
• Gymnodinium brevisulcatum F.H. Chang, 1999
• Gymnodinium campaniforme Popovsky, 1971 accepted as Gymnodinium aeruginosum F. Stein, 1883
• Gymnodinium canus Kofoid & Swezy, 1921
• Gymnodinium capitatum Conrad & Kufferath, 1954
• Gymnodinium caput Schiller, 1928
• Gymnodinium carinatum Schilling, 1891 accepted as Gymnodinium palustre A.J. Schilling, 1891
• Gymnodinium cassiei Norris, 1961
• Gymnodinium catenatum H.W. Graham, 1943
• Gymnodinium caudatum Prescott, 1944 accepted as Gymnodinium fuscum (Ehrenberg) F. Stein, 1878
• Gymnodinium cestocoetes R.H. Thompson, 1947 accepted as Woloszynskia cestocoedes (Thompson) Thompson, 1950
• Gymnodinium chiasmonetrium Norris, 1961
• Gymnodinium chiastosporum (T.M. Harris) Cridland, 1958
• Gymnodinium chlorophorum Elbrächter & Schnepf, 1996
• Gymnodinium chukwanii Ballantine, 1961
• Gymnodinium cinctum Kofoid & Swezy, 1921
• Gymnodinium cladochromum J. Larsen, 1996 accepted as Takayama cladochroma (Larsen) de Salas, Bolch & Hallegraeff, 2003
• Gymnodinium cnecoides T.M. Harris, 1940
• Gymnodinium cnodax Conrad & Kufferath, 1954
• Gymnodinium coeruleum Dogiel, 1906 accepted as Balechina coerulea (Dogiel) F.J.R. Taylor, 1976
• Gymnodinium colymbeticum T.M. Harris, 1940
• Gymnodinium conicum Kofoid & Swezy, 1921
• Gymnodinium constrictum Schütt accepted as Cochlodinium constrictum (Schütt) Lemmennann, 1899
• Gymnodinium contractum Kofoid & Swezy, 1921
• Gymnodinium corii Schiller, 1928
• Gymnodinium cornutum Schütt, 1895 accepted as Gyrodinium schuettii (Lemmermann) Kofoid & Swezy, 1921
• Gymnodinium corollarium A.M. Sundström, Kremp & Daugbjerg, 2009
• Gymnodinium coronatum Woloszynska, 1917 accepted as Woloszynskia coronata (Woloszynska) R.H. Thompson, 1951
• Gymnodinium costatum Kofoid & Swezy, 1921
• Gymnodinium crassum Pouchet, 1885 accepted as Gyrodinium crassum (Pouchet) Kofoid & Swezy, 1921
• Gymnodinium cruciatum J. Massart
• Gymnodinium cruciatum R.H. Thompson, 1950 accepted as Gymnodinium austriacum Schiller, 1933
• Gymnodinium cryophilum (G.J. Wedemayer, L.W. Wilcox & L.E. Graham) G. Hansen & Ø. Moestrup, 2000
• Gymnodinium cucumis Schütt, 1895
• Gymnodinium cyaneofungiforme Conrad & Kufferath, 1954
• Gymnodinium cyaneum Hu, Yu & Zhang, 1980 accepted as Gymnodinium eucyaneum H.J. Hu, 1983
• Gymnodinium danicans P.H. Campbell, 1973
• Gymnodinium dentatum J. Larsen, 1994
• Gymnodinium diamphidium Norris, 1961