1. Species Gomphonema acuminatum Ehrenberg, 1832
2. Species Gomphonema micropus Kützing, 1844
3. Species Gomphonema parvulum (Kützing) Kützing, 1849
4. Species Gomphonema variabilis A.Jurilj, 1957
5. Species Gomphonema curvatum Kützing, 1833 accepted as Rhoicosphenia abbreviata (C.Agardh) Lange-Bertalot, 1980 (Synonym)
6. Species Gomphonema lingulatum Hustedt, 1927 accepted as Gomphonema grovei var. lingulatum (Hustedt) Lange-Bertalot, 1985 accepted as Gomphonema lingulatum var. lingulatum Hustedt, 1927 (Basionym)
7. Species Gomphonema pseudexiguum R.Simonsen accepted as Gomphonemopsis pseudexigua (Simonsen) Medlin in Medlin & Round, 1986 accepted as Gomphonema pseudoexiguum Simonsen, 1959 (basionym)
8. Species Gomphonema septentrionale Østrup, 1895 accepted as Pseudogomphonema septentrionale (Østrup) L.K.Medlin, 1986 accepted as Gomphonema septentrionale var. septentrionale Østrup, 1895 (synonym)
9. Species Gomphonema tenellum Kützing, 1844 accepted as Gomphonema pseudotenellum Lange-Bertalot, 1985
10. Species Gomphonema apiculatum Ehrenberg, 1843 (uncertain > unassessed)
11. Species Gomphonema instabilis Hohn & Hellermann, 1963 (uncertain > unassessed)
12. Species Gomphonema lanceolatum C.Agardh, 1831 (uncertain > unassessed)
13. Species Gomphonema margaritae J.Frenguelli & H.A.Orlando, 1958 (uncertain > unassessed)
14. Species Gomphonema marinum (Kützing) W.Smith, 1853 accepted as Gomphonema curvatum var. marinum Kützing, 1844 (uncertain > unassessed)
15. Species Gomphonema olivaceum (Hornemann) Brébisson, 1838 (uncertain > unassessed)
16. Species Gomphonema olivaceum (Hornemann) Ehrenberg, 1838 (uncertain > unassessed)
17. Species Gomphonema pala E.Reichardt, 2001 (uncertain > unassessed)
18. Species Gomphonema paradoxum Agardh, 1824 (uncertain > unassessed)
19. Species Gomphonema salinarum (Pantosek) Cleve, 1894 (uncertain > unassessed)
20. Species Gomphonema trigonocephalum Ehrenberg, 1854 (uncertain > unassessed)

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