Cylindrocystis brebissonii Meneghini var. brebisonii: Cell body cylindrical, large, 30-87 μm long, 14-35 μm wide, L/W= 2-4; zygospores rectangular (Illustrations of The Japanese Fresh-water Algae, 1977).
Cylindrocystis brebissonii var. jenneri (Ralfs) Hansgirg: Cell body cylindrical, large, 20-70 μm long, 11-23 μm wide; zygospores spherical (Illustrations of The Japanese Fresh-water Algae, 1977).
Cylindrocystis brebissonii var. minor W. et G.S. West: Cell body cylindrical, small, 20-30 μm long, 8-13 μm wide (Illustrations of The Japanese Fresh-water Algae, 1977).
Cylindrocystis crassa Debary: Cell body ellipsoidal, 20-60 μm long, 17-31 μm wide (Illustrations of The Japanese Fresh-water Algae, 1977).