Laevicaudatan branchiopods, also called ‘smooth clam shrimps’ or ’pea shrimps’, are rare crustaceans found exclusively in temporary, small freshwater bodies, which stay dry most of the year. Only 42 laevicaudatan species have been described so far, 90% of which belong to the genus Lynceus. The first multilocus phylogeny of the group is provided here, based on 15 Lynceus species from North and South America, Europe, Africa, Asia, Australia and New Caledonia and using nine molecular markers (two mitochondrial and seven nuclear genes, including newly designed primers). Genetic data suggest populations of Lynceus brachyurus from Europe and North America to represent a complex of cryptic species and sister group to all other laevicaudatans. Species from Thailand, Japan, Mongolia and China formed a distinct East Asian clade. A Southern Hemisphere (Gondwanaland) clade, composed of Chilean, Australian and New Caledonian taxa, was found weakly clustering with an African Lynceus species. Relaxed molecular clock analyses indicate a Pangean origin of Laevicaudata, with further diversification due to vicariance and the continued splitting of continents. Rostrum characters, which are particularly relevant for laevicaudatan systematics, were re-evaluated and provide morphological evidence supporting molecular clades. Our worldwide overview of Laevicaudata evolution highlights that recent sampling from Africa and South America is scarce, and that further DNA efforts should focus on Paralimnetis and Lynceiopsis species.