Metanephrocerus is an extinct genus of big-headed flies in the dipteran subfamily , for which it is one of only two genera. The genus contains four described species, Metanephrocerus belgardeae, M. collini, M. groehni, and M. hoffeinsorum. Metanephrocerus is known from a group of Middle Eocene fossils which were found in Europe and a single early Eocene fossil from North America.