• Cyclotella (Kützing) Brébisson, 1838
• Cyclotella actinocyclus (Ehrenberg) Kützing
• Cyclotella aegaea A. Economou-Amilli, 1987
• Cyclotella affinis Makarova & Genkal
• Cyclotella agassizensis Halkansson & Kling, 1994
• Cyclotella aliquantula Hohn & Hellermann, 1963
• Cyclotella alvarniensis (Wuthrich) Straub & Aboal, 1992
• Cyclotella ambigua Grunow, 1880
• Cyclotella americana Fricke
• Cyclotella andancensis Ehrlich
• Cyclotella andina E. Theriot, H.J. Carney & P.J. Richerson, 1985 accepted as Cyclostephanos andinus (E. Theriot, H.G. Carney & P.J. Richerson) P.M. Tapia, E.C. Theriot, S.C. Fritz, F. Cruces & P. Rivera, 2004
• Cyclotella antigua W. Sm., 1853
• Cyclotella antiqua W. Smith, 1853
• Cyclotella arentii Kolbe, 1948
• Cyclotella areolata Hustedt, 1935
• Cyclotella aspera
• Cyclotella asterocostata Lin, Xie & Cai
• Cyclotella astraea Kützing, 1849 accepted as Stephanodiscus astraea (Ehrenberg) Grunow, 1880
• Cyclotella atmosphaerica Ralfs
• Cyclotella atomus Hustedt, 1937
• Cyclotella austriaca (M. Peragallo, Handmann & Schiedler) Hustedt, 1948
• Cyclotella azigzensis R.J. Flower, F. Gasse & H. Håkansson, 1990
• Cyclotella baicalensis Skvortzov, 1927
• Cyclotella baikalensis Skvortzov & Meyer, 1928
• Cyclotella baltica (Grunow) H. Håkansson
• Cyclotella bastowii J.R. Carter, 1961
• Cyclotella bodanica Eulenstein, 1878
• Cyclotella bodanica-comta (Ehrenberg) Kützing
• Cyclotella bomba Serieyssol
• Cyclotella bornata (Skvortzov) Flower, 1993
• Cyclotella caspia Grunow, 1878 accepted as Cyclotella choctawhatcheeana Prasad, 1990
• Cyclotella catenata (J. Brun) Bachmann
• Cyclotella cavita (unaccepted > nomen nudum)
• Cyclotella chaetoceras Lemmermann
• Cyclotella choctawhatcheeana Prasad, 1990
• Cyclotella comata (Her.) Kützing
• Cyclotella comensis Grunow, 1882
• Cyclotella comta (Ehrenberg) Kützing, 1849 accepted as Cyclotella radiosa (Grunow) Lemmermann, 1900
• Cyclotella convexa (Ehrenberg) Kutzing
• Cyclotella cornuta Kutzing
• Cyclotella corona V.V. Mukhina
• Cyclotella coscinodiscus Kützing
• Cyclotella costei Druart & Straub
• Cyclotella crassa Tynni
• Cyclotella cretica J. John & A. Economou-Amilli
• Cyclotella cryptica Reimann, Lewin & Guillard
• Cyclotella cyclopuncta Håkansson & J.R. Carter, 1990
• Cyclotella dalasiana W. Smith
• Cyclotella dallasiana W. Smith, 1856 accepted as Cyclotella striata (Kützing) Grunow, 1880
• Cyclotella delicatissima J.R. Carter, J.R. Carter & Bailey-Watts, 1981
• Cyclotella delicatula Hustedt, 1952
• Cyclotella dendrochaera Ralfs
• Cyclotella denticulata Kützing
• Cyclotella desikacharyi A.K.S.K. Prasad, 2006
• Cyclotella distinguenda Hustedt, 1928
• Cyclotella dives (Ehrenberg) Kützing
• Cyclotella dubia Fricke, 1900 accepted as
• Cyclotella elentarii Alfinito & Tagliaventi accepted as Discostella elentarii (Alfinito & Tagliaventi) Houk & Klee
• Cyclotella elgeri Hustedt, 1952
• Cyclotella elymaea A. Economou-Amilli
• Cyclotella exigua H. Håkansson
• Cyclotella facetia Hohn & Hellerm.
• Cyclotella fottii Hustedt Hub.-Pest., 1942
• Cyclotella gamma Sovereign, 1963
• Cyclotella glabriuscula (Grunow) Håkansson, 1988
• Cyclotella glomerata H. Bachmann, 1911
• Cyclotella gordonensis Kling & Hakansson, 1988
• Cyclotella gracilis T.A. Nikiteeva & Y.V. Likhoshway
• Cyclotella graeca (Kützing) Ralfs
• Cyclotella hakanssoniae Wendker, 1991 accepted as Cyclotella choctawhatcheeana Prasad, 1990
• Cyclotella hellae T.P. Chang & C. Steinberg
• Cyclotella hispanica K.T. Kiss, E. Hegewald & Ács
• Cyclotella hubeiana Chen & Zhu, 1985
• Cyclotella iridioides Manguin ex Kociolek & Reviers
• Cyclotella iris Brun & Héribaud-Joseph
• Cyclotella jonesii R.B. McLaughlin
• Cyclotella kathmanduensis Hayashi, 2007 †
• Cyclotella kisselevii O. Korotkevich, 1959
• Cyclotella krammeri Håkansson, 1990
• Cyclotella kuetzingiana Thwaites, 1848 accepted as Cyclotella ocellata Pantocsek, 1901
• Cyclotella kuetzingina
• Cyclotella kurdica Håk., 1993
• Cyclotella kutzingiana
• Cyclotella kützingiana Thwaites
• Cyclotella lacunarum Hustedt
• Cyclotella lacus-karluki Manguin ex Kociolek & Reviers
• Cyclotella laevis (Ehrenberg) Kützing, 1849 accepted as Hyalodiscus laevis Ehrenberg, 1845
• Cyclotella lineata
• Cyclotella litoralis Lange & Syvertsen, 1989
• Cyclotella lucernensis Bachm., 1911
• Cyclotella mammilla Kützing
• Cyclotella mascarenica R. Klee, V. Houk & S. Bielsa
• Cyclotella maxima Kützing, 1844
• Cyclotella meduanae Germain, 1981
• Cyclotella melosiroides (Kirchner) Lemmermann
• Cyclotella meneghiniana Kützing, 1844
• Cyclotella michiganiana Skvortzov, 1937
• Cyclotella minima Barber & Carter, 1970
• Cyclotella minuta (Skvortzov) Antipova, 1956
• Cyclotella minutula Kützing, 1844