He studied zoology in Vienna under Carl Claus (1835-1899), and in Leipzig with Rudolf Leuckart (1822-1898). He gained his doctorate at the University of Leipzig with a dissertation titled Beiträge zur Entwicklungsgeschichte der Lepidopteren. Hatschek was deeply influenced by the works of Ernst Haeckel (1834-1919).
In 1885 he was appointed professor of zoology at Charles University in Prague, and from 1896 was a professor and director of the second zoological institute at the University of Vienna. Hatschek suffered from severe depression, which greatly affected his work in the latter stages of his life.
In 1888 he split Frey and Leuckart's Coelenterata into three phyla: Spongiaria, Cnidaria and Ctenophora. From his research of amphioxus, the anatomical terms- "Hatschek's pit" and "Hatschek's nephridium" are derived.
- Studien über Entwicklungsgeschichte der Anneliden. Ein Beitrag zur Morphologie der Bilaterien, 1878
- Studien über entwicklung des Amphioxus, 1881
- Lehrbuch der Zoologie : eine morphologische Übersicht des Thierreiches zur Einführung in das Studium dieser Wissenschaft, 1888
- "The Amphioxus and its development", translated into English- 1893
- Das acromerit des Amphioxus, 1906
- Das neue Zoologische System, 1911.
- Austria-Lexicon (biography)
- Deutsche Biographie
- Biology Of Helminthes By D.R. Khanna
- Dictionary of Developmental Biology and Embryology by Frank J. Dye
- Gulf of Mexico Origin, Waters, and Biota: Biodiversity, Volume 1 by Darryl L. Felder, Sylvia A. Earle
- The demise of Coelenterata and Madreporaria by J. van der Land
- Biologists.org The Early Development of the Nephridia in Amphioxus: Introduction and Part I, Hatschek's Nephridium. by Edwin S. Goodrich, F.R.S
- WorldCat Identities (bibliography)