• Gloeocapsa Kützing, 1843
• Gloeocapsa acervata N.L.Gardner, 1927
• Gloeocapsa aeruginosa Kützing, 1843
• Gloeocapsa africana Cholnoky, 1952
• Gloeocapsa alpicola (Lyngbye) Bornet, 1903
• Gloeocapsa alpina Nägeli, 1865
• Gloeocapsa alpina var. mediterranea Hansgirg, 1891 (uncertain)
• Gloeocapsa alpina var. polyedrica Ercegovic, 1925 accepted as Gloeocapsopsis polyedrica (Ercegovic) Komárek & Anagnostidis, 1994
• Gloeocapsa ambigua Nägeli, 1849 accepted as Gloeocapsa alpina Nägeli, 1865
• Gloeocapsa ampla Kützing, 1843 accepted as Chlamydocapsa ampla (Kützing) Fott, 1972
• Gloeocapsa ampla Vorce, 1881 (uncertain)
• Gloeocapsa arenaria (Hassall) Rabenhorst, 1865
• Gloeocapsa atrata Kützing, 1843
• Gloeocapsa atrovirens (Corda) Dalla Torre & Sarnthein, 1901 (uncertain)
• Gloeocapsa attingens J.Schiller, 1954
• Gloeocapsa aurata Stizenberger, 1857
• Gloeocapsa bahamensis Collins, 1920
• Gloeocapsa biformis Ercegovic, 1925
• Gloeocapsa bituminosa (Bory) Kützing, 1849
• Gloeocapsa botryoides Kützing, 1843
• Gloeocapsa calcarea Tilden, 1898
• Gloeocapsa calcicola N.L.Gardner, 1927
• Gloeocapsa caldariorum Rabenhorst, 1865
• Gloeocapsa cartilaginea N.L.Gardner, 1927
• Gloeocapsa cartilaginea var. minor N.L.Gardner, 1927
• Gloeocapsa chroococcoides Novácek, 1934 accepted as Gloeocapsopsis chroococcoides (Novácek) Komárek, 1993
• Gloeocapsa chrysophtalma (Montagne) Montagne, 1856 (uncertain)
• Gloeocapsa cohaerens (Brébisson) Hollerbach, 1937 accepted as Chroococcus cohaerens (Brébisson) Nägeli, 1849
• Gloeocapsa compacta Kützing, 1847
• Gloeocapsa confluens Kützing, 1847 accepted as Coccomyxa confluens (Kützing) Fott, 1974
• Gloeocapsa conglomerata Kützing, 1846
• Gloeocapsa conspicua Reinsch, 1867
• Gloeocapsa coracina Kützing, 1843
• Gloeocapsa cordae Guiry, 2017
• Gloeocapsa crepidinum (Thuret) Thuret, 1876 accepted as Gloeocapsopsis crepidinum (Thuret) Geitler ex Komárek, 1993
• Gloeocapsa crepidinum var. ghazipurensis D.C.Pandey & A.K.Mitra, 1966
• Gloeocapsa cryptococcoides Kützing, 1846
• Gloeocapsa cyanea Krieger, 1944 accepted as Gloeocapsopsis cyanea (Krieger) Komárek & Anagnostidis, 1995
• Gloeocapsa decorticans (A.Braun) P.Richter, 1925
• Gloeocapsa dermochroa Nägeli ex Kützing, 1849 accepted as Chondrocystis dermochroa (Nägeli) Komárek & Anagnostidis, 1995
• Gloeocapsa deusta (Meneghini) Kützing, 1849 accepted as Entophysalis deusta (Meneghini) F.E.Drouet & W.A.Daily, 1948
• Gloeocapsa didyma (Kützing) Kützing, 1846
• Gloeocapsa dirumpens Beck-Mannagetta, 1929
• Gloeocapsa dubia Wartmann, 1861 accepted as Gloeothece dubia (Wartmann) Geitler, 1932
• Gloeocapsa endocodia Vouk, 1936
• Gloeocapsa fenestralis Kützing, 1843 accepted as Gloeocapsa granosa (Berkeley) Kützing, 1847
• Gloeocapsa fuscolutea Nägeli ex Kützing, 1849 accepted as Gloeothece fuscolutea (Nägeli ex Kützing) Nägeli, 1849
• Gloeocapsa gelatinosa Kützing, 1843
• Gloeocapsa geminata Kützing, 1849
• Gloeocapsa gigantea (West) Hollerbach, Kosinskaja & Poljanskij, 1953 accepted as Chroococcus giganteus West, 1892
• Gloeocapsa gigas West & G.S.West, 1894
• Gloeocapsa goeppertiana Hilse, 1863 accepted as Gloeothece goeppertiana (Hilse) Forti, 1907
• Gloeocapsa granosa (Berkeley) Kützing, 1847
• Gloeocapsa haematodes (Kützing) Kützing, 1849
• Gloeocapsa helvetica (Nägeli) Starmach, 1964 accepted as Chroococcus helveticus Nägeli, 1849
• Gloeocapsa holstii Hieronymus, 1895
• Gloeocapsa ianthina Nägeli ex Kützing, 1849
• Gloeocapsa incrustata H.-J.Chu, 1944
• Gloeocapsa incrustata var. major H.W.Liang, 1987
• Gloeocapsa itzigsohnii Bornet, 1882 accepted as Gloeocapsa sanguinea (C.Agardh) Kützing, 1843
• Gloeocapsa juliana (Meneghini) Kützing, 1849
• Gloeocapsa kuetzingiana Nägeli ex Kützing, 1849
• Gloeocapsa kuetzingiana var. maior Bongale, 1987
• Gloeocapsa lacustris Huber-Pestalozzi, 1925
• Gloeocapsa lignicola Rabenhorst, 1865 accepted as Gloeocapsa violacea Kützing, 1847
• Gloeocapsa limnetica (Lemmermann) Hollerbach, 1938 accepted as Limnococcus limneticus (Lemmermann) Komárková, Jezberová, O.Komárek & Zapomelová, 2010
• Gloeocapsa limnetica var. distans (G.M.Smith) Hollerbach, Kosinskaja & Poljanskij, 1953 accepted as Chroococcus distans (G.M.Smith) Komárková-Legnerová & Cronberg, 1994
• Gloeocapsa lithophila (Ercegovic) Hollerbach accepted as Chroococcus lithophilus Ercegovic, 1925
• Gloeocapsa livida (Carmichael) Kützing, 1847
• Gloeocapsa livida var. minor N.L.Gardner, 1927
• Gloeocapsa luteofusca Martens, 1871
• Gloeocapsa magma (Brébisson) Kützing, 1847 accepted as Gloeocapsopsis magma (Brébisson) Komárek & Anagnostidis ex Komárek, 1993
• Gloeocapsa magma f. itzigsohnii (Born.) Hollerbach (uncertain)
• Gloeocapsa magma f. opaca (Nagelli) Hollerbach (uncertain)
• Gloeocapsa mellea (Meneghini) Kützing, 1847
• Gloeocapsa membranina (Meneghini) F.E.Drouet & W.A.Daily, 1948
• Gloeocapsa microphthalma Kützing, 1847
• Gloeocapsa minima (Keissler) Hollerbach, 1938 accepted as Chroococcus minimus (Keissler) Lemmermann, 1904
• Gloeocapsa minima f. smithii Hollerbach, Kosinskaja & Poljanskij, 1953 accepted as Chroococcus minimus (Keissler) Lemmermann, 1904
• Gloeocapsa minor (Kutzing) Hollerbach, 1937 accepted as Chroococcus minor (Kützing) Nägeli, 1849
• Gloeocapsa minor f. dispersa (Keissler) Hollerbach, 1938 accepted as Chroococcus dispersus (Keissler) Lemmermann, 1904
• Gloeocapsa minuta (Kützing) Hollerbach, 1937 accepted as Chroococcus minutus (Kützing) Nägeli, 1849
• Gloeocapsa minutula N.L.Gardner, 1927
• Gloeocapsa monococca Kützing, 1843
• Gloeocapsa montana Kützing, 1843 accepted as Gloeocapsa atrata Kützing, 1843
• Gloeocapsa montana f. fenestralis (Kutzing) Hollerbach
• Gloeocapsa multispherica N.L.Gardner, 1927
• Gloeocapsa muralis Kützing, 1847
• Gloeocapsa myxophila Beck-Mannagetta, 1931
• Gloeocapsa nigra (Meneghini) Grunow, 1865
• Gloeocapsa nigrescens Nägeli, 1865
• Gloeocapsa nigrescens var. maxima Bongale, 1987
• Gloeocapsa ocellata Rabenhorst, 1863
• Gloeocapsa opaca Nägeli ex Kützing, 1849
• Gloeocapsa opaca var. pellucida Kützing, 1849
• Gloeocapsa ovalis N.L.Gardner, 1927
• Gloeocapsa palea Kützing, 1843 accepted as Gloeothece palea (Kützing) Nägeli, 1849
• Gloeocapsa paroliniana (Meneghini) Kützing, 1847
• Gloeocapsa peniocystis Kützing, 1847
• Gloeocapsa planctonica G.B.McGregor, 2007