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Type species: Agathodesmus steeli Silvestri, 1910, by original designation; of Atopogonus, A. baccatus (Carl, 1926), by monotypy.
Agathodesmus Silvestri 1910: 362; Attems 1914: 282; 1940: 487; Brölemann 1916: 547, 587; Jeekel 1971: 310; 1982: 11; 1983: 146; 1985: 50, 51; 1986: 46; Hoffman 1980: 184; Mesibov 2009: 92; 2013: 35.
Atopogonus Carl 1926: 386; Attems 1940: 477; Verhoeff 1941: 406. Jeekel 1971: 314; 1984: 88; 1986: 46; Hoffman 1980: 186; 1999: 480; Simonsen 1990: 57; Golovatch et al. 2001: 185; 2009: 2, 44; Mesibov 2009: 92 (synonymised).
Other assigned species:
A. adelphus Mesibov, 2013, A. aenigmaticus Mesibov, 2013, A. agnus Mesibov, 2013, A. anici Mesibov, 2013, A. bonang Mesibov, 2013, A. bucculentus (Jeekel, 1986), A. carorum Mesibov, 2013, A. chandleri Mesibov, 2013, A. gayundah Mesibov, 2013, A. hahnensis Mesibov, 2013, A. johnsi Mesibov, 2009, A. kerensis Mesibov, 2013, A. kirrama Mesibov, 2013, A. millaa Mesibov, 2013, A. morwellensis Mesibov, 2013, A. parapholeus Mesibov, 2013, A. quintanus Mesibov, 2013, A. sagma Mesibov, 2013, A. summus Mesibov, 2013, A. urbanus sp. nov. Romero-Rincon & Douch, A. yuccabinensis Mesibov, 2013.