Phylum Cyanobacteria Garcia-Pichel et al. (2020) see Phylum Cyanobacteriota Oren et al. 2022
   Class Cyanophyceae Hauck (1885) see Class Chroococcophyceae Hollerbach et al. 1953
     Order Oscillatoriales Schaffner (1922) see Order Oscillatoriales Schaffner 1922
       Family Microcoleaceae Komárek, J. Kaštovský, J. Mareš & J.R.Johans. (2014), nom. illeg. see Family Microcoleaceae (Hansgirg 1888) Strunecký et al. 2013
         01 Genus Affixfilum Strunecký, Ivanova & Mareš (2023), orth. inval. see Genus Affixifilum F.W. Lefler, D.E.Berthold & Laugh. (2020)
         02 ?Genus Ammatoidea W.West & G.S.West (1897) see Genus Ammatoidea West and West 1897
         03 Genus Ancylothrix Martins & Branco (2016) see Genus Ancylothrix Martins and Branco 2016
         04 Genus Arthrospira E. Stizenberger ex Gomont (1892) see Genus Arthrospira Stizenberger ex Gomont 1892
         05 ?Genus Blennothrix Kütz. ex Anagn. & Komárek (1988) see Genus Blennothrix Kützing ex Anagnostidis and Komárek 1988
         06 Genus Capilliphycus T.A. Caires, C.L. Sant'Anna & J.M.C. Nunes (2019) see Genus Capilliphycus Caires et al. 2019
         07 Genus Dapis Engene, Tronholm & V.J. Paul (2018) see Genus Dapis Engene et al. 2018
         08 ?Genus Dasygloea Thwaites ex Gomont (1892) see Genus Dasygloea Thwaites ex Gomont 1892
         09 ?Genus Homoeothrix (G. Thuret ex Bornet & Flahault) O. Kirchner (1898), nom. cons. see Genus Homoeothrix (Thuret ex Bornet and Flahault 1886) Kirchner 1898 nom. cons.
         10 ?Genus Hydrocoleum Kütz. ex Gomont (1892) see Genus Hydrocoleum Kützing ex Gomont 1892
         11 Genus Kamptonema O.Strunecký, Komárek & J.Šmarda (2014) see Genus Kamptonema Strunecký et al. 2014
         12 ?Genus Leibleinia (Gomont) L. Hoffmann (1985) see Genus Leibleinia (Gomont 1892) Hoffmann 1985
         13 ?Genus Leptochromothrix D.E.Berthold, F.W. Lefler & Laugh. (2021) see Genus Leptochromothrix Berthold et al. 2021
         14 Genus Limnoraphis Komárek, E.Zapomělová, J.Šmarda, J.Kopecký, E.Rejmánková, J.Woodhouse, B.A.Neilan & J.Komárková (2013) see Genus Limnoraphis Komárek et al. 2013
         15 Genus Limnospira Nowicka-Krawczyk, Mühlsteinová & Hauer (2019) see Genus Limnospira Nowicka-Krawczyk et al. 2019
         16 ?Genus Lyngbya C.Agardh ex Gomont (1892), nom. cons. see Genus Lyngbya C.A. Agardh ex Gomont 1892 nom. cons.
         17 ?Genus Lyngbyopsis N.L.Gardner (1927) see Genus Lyngbyopsis Gardner 1927
         18 Genus Microcoleus J.B.H.J. Desmazières ex Gomont (1892) see Genus Microcoleus Desmazières ex Gomont 1892
         19 Genus Neolyngbya Caires, Sant'Anna & Nunes (2018) see Genus Neolyngbya Caires et al. 2018
         20 Genus Okeania N.Engene, V.J.Paul, T.Byrum, W.H.Gerwick, A.Thor & M.H.Ellisman (2013) see Genus Okeania Engene et al. 2013
         21 ?Genus Ophiophycus D.E.Berthold, F.W. Lefler & Laugh. (2021) see Genus Ophiophycus Berthold et al. 2021
         22 ?Genus Phormidiochaete Komárek (2001) see Genus Phormidiochaete Komárek 2001
         23 Genus Planktothrix Anagn. & Komárek (1988) see Genus Planktothrix Anagnostidis and Komárek 1988
         24 ?Genus Plectonema Thuret ex Gomont (1892) see Genus Plectonema Thuret ex Gomont 1892
         25 ?Genus Polychlamydum W.West & G.S.West (1897) see Genus Polychlamydum West and West 1897
         26 ?Genus Porphyrosiphon Kütz. ex Gomont (1892) see Genus Porphyrosiphon Kützing ex Gomont 1892
         27 ?Genus Proterendothrix W.West & G.S.West (1897) see Genus Proterendothrix West and West 1897
         28 ?Genus Pseudoscytonema Elenkin (1949) see Genus Pseudoscytonema Elenkin 1949
         29 ?Genus Sirenicapillaria D.E.Berthold, Lefler & Laugh. (2022) see Genus Sirenicapillaria Berthold et al. 2022
         30 ?Genus Symplocastrum (Gomont) O. Kirchner (1898) see Genus Symplocastrum (Gomont 1892) Kirchner 1898
         31 Genus Tenebriella R. Hauerová, T. Hauer & J. Kaštovský (2021) see Genus Tenebriella Hauerová et al. 2021
         32 ?Genus Tigrinifium Strunecký, Ivanova & Mareš (2023), orth. inval. see Genus Tigrinifilum D.E.Berthold, F.W. Lefler & Laugh. (2022)
         33 Genus Trichodesmium Ehrenb. ex Gomont (1892), nom. cons. see Genus Trichodesmium Ehrenberg ex Gomont 1892 nom. cons.
         34 ?Genus Tychonema Anagn. & Komárek (1988) see Genus Tychonema Anagnostidis and Komárek 1988
         35 ?Genus Vermifilum D.E.Berthold, F.W. Lefler & Laugh. (2021) see Genus Vermifilum Berthold et al. 2021