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 Prochlorotrichales Strunecký & Mareš (2023) [monotypic] see Order Prochlorotrichales Strunecký and Mareš 2023
       Family Prochlorotrichaceae Burger-Wiersma, Stal & Mur (1989) [monotypic] see Family Prochlorotrichaceae Burger-Wiersma et al. 1989
         1 Genus Prochlorothrix T. Burger-Wiersma, L.J. Stal & L.R. Mur (1989) see Genus Prochlorothrix Burger-Wiersma et al. 1989