| Gomphonema Ehrenb., 1832 |
| Gomphonema abbreviatum C. Agardh, 1831 |
| Gomphonema acuminatum Ehrenb., 1832 |
| Gomphonema acuminatum var. acuminatum Ehrenb., 1832 |
| Gomphonema acuminatum var. constrictum (Kütz.) Carruthers, 1864 |
| Gomphonema affine Kütz., 1844 |
| Gomphonema angustatum (Kütz.) Rabenh., 1864 |
| Gomphonema angustum C. Agardh, 1831 |
| Gomphonema brasiliense Grunow, 1878 |
| Gomphonema brasiliense var. brasiliense Grunow, 1878 |
| Gomphonema clavatum Ehrenb., 1832 |
| Gomphonema clevei Fricke, 1902 |
| Gomphonema clevei var. javanica Hust., 1937 |
| Gomphonema commutatum Grunow, 1880 |
| Gomphonema curvatum Kütz., 1833 |
| Gomphonema dichotomum Kütz., 1833 |
| Gomphonema dichotomum var. affine (Kütz.) Rabenh., 1864 |
| Gomphonema dichotomum var. dichotomun Kütz., 1833 |
| Gomphonema gracile Ehrenb., 1838 |
| Gomphonema grovei M. Schmidt, 1899 |