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 Leptolyngbyales Strunecký & Mareš (2023) [paraphyletic] see Order Leptolyngbyales Strunecký and Mareš 2023
       Family Leptolyngbyaceae Komárek, J. Kaštovský, J. Mareš & J.R.Johans. (2014) [sister group to excluded taxa] see Family Leptolyngbyaceae (Anagnostidis and Komárek 1988) Komárek et al. 2014
         01 Genus Alkalinema Vaz, Genuário, Andreote, Malone, Sant'Anna, Barbiero & Fiore (2015) see Genus Alkalinema Vaz et al. 2015
         02 Genus Arthronema Komárek & Lukavský (1988) see Genus Arthronema Komárek and Lukavský 1988
         03 Genus Chamaethrix P. Dvořák, P. Hašler, P. Pitelková, P. Tabáková, D.A. Casamatta & A. Poulíčková (2017) see Genus Chamaethrix Dvořák et al. 2017
         04 Genus Chroakolemma Becerra-Absalón & Johansen (2018) see Genus Chroakolemma Becerra-Absalón and Johansen 2018
         05 ?Genus Heteroleibleinia (L. Geitler) L. Hoffmann (1985) see Genus Heteroleibleinia (Geitler 1932) Hoffmann 1985
         06 ?Genus Jaaginema Anagn. & Komárek (1988) see Genus Jaaginema Anagnostidis and Komárek 1988
         07 Genus Kovacikia Miscoe, Pietrasiak & Johansen (2016) see Genus Kovacikia Miscoe et al. 2016
         08 Genus Leptodesmis Raabová, Kováčik, Elster & Strunecký (2019), nom. inval. see Genus Leptodesmis Raabová et al. 2019 nom. inval.
         09 Genus Leptolyngbya Anagn. & Komárek (1988), nom. cons. see Genus Leptolyngbya Anagnostidis and Komárek 1988 nom. cons.
         10 Genus Limnolyngbya Li & Li (2016) see Genus Limnolyngbya Li and Li 2016
         11 Genus Myxacorys Pietrasiak & Johansen (2019) see Genus Myxacorys Pietrasiak and Johansen 2019
         12 Genus Onodrimia Jahodářová, Dvořák & Hašler (2017) see Genus Onodrimia Jahodářová et al. 2017
         13 Genus Pantanalinema Vaz, Genuário, Andreote, Malone, Sant'Anna, Barbiero & Fiore (2015) see Genus Pantanalinema Vaz et al. 2015
         14 Genus Phormidesmis Turicchia, Ventura, Komárková & Komárek (2009) see Genus Phormidesmis Turicchia et al. 2009
         15 ?Genus Planktolyngbya Anagn. & Komárek (1988) see Genus Planktolyngbya Anagnostidis and Komárek 1988
         16 Genus Plectolyngbya Taton, Wilmotte, Šmarda, Elster & Komárek (2011) see Genus Plectolyngbya Taton et al. 2011
         17 Genus Pseudophormidium (A. Forti) Anagn. & Komárek (1988) see Genus Pseudophormidium (Forti 1907) Anagnostidis and Komárek 1988
         18 Genus Scytolyngbya Song & Li (2015) see Genus Scytolyngbya Song and Li 2015
         19 ?Genus Sokolovia Elenkin (1926) see Genus Sokolovia Elenkin 1926
         20 Genus Stenomitos Miscoe & Johansen (2016) see Genus Stenomitos Miscoe and Johansen 2016
         21 ?Genus Tapinothrix Sauvageau (1893) see Genus Homoeothrix (Thuret ex Bornet and Flahault 1886) Kirchner 1898 nom. cons.