• Endosphaera Engelmann, 1876 [Family: Endosphaeridae]
• Endosphaera Klebs, 1881 accepted as Chlorochytrium Cohn, 1872 [Family: Chlorochytriaceae]
• Eosphaera E.S. Barghoorn in Barghoorn & Tyler, 1965 † [Phylum: Algae incertae sedis]
• Eosphaera Fürsich, Heinze & Ayoub-Hannaa, 2019 † [Phylum: Mollusca]
• Eremosphaera De Bary, 1858
• Eriosphaera De Toni, 1888 accepted as Langermannia Rostkovius in Sturm, 1839 [Family: Agaricaceae]
• Eriosphaera F.G. Dietrich, 1817 (uncertain) [Family: Asteraceae]
• Eriosphaera Lessing, 1832 accepted as Galeomma S. Rauschert, 1982 [Family: Asteraceae]
• Ethmosphaera Haeckel, 1861 (uncertain)
• Eurosphaera Verhoeff, 1942 (uncertain)