Approximately one-half of all species of amphibians occur in the New World tropics, which includes South America, Middle America, and the West Indies. Of those, 27% (801 species) belong to a large assemblage, the eleutherodactyline frogs, which breed out of water and lay eggs that undergo direct development on land. Their wide distribution and mode of reproduction offer potential for resolving questions in evolution, ecology, and conservation. However, progress in all of these fields has been hindered by a poor understanding of their evolutionary relationships. As a result, most of the species have been placed in a single genus, Eleutherodactylus, which is the largest among vertebrates. Our DNA sequence analysis of a major fraction of eleutherodactyline diversity revealed three large radiations of species with unexpected geo- amphibian ͉ anura ͉ biogeography ͉ Eleutherodactylus T he evolutionary tree of amphibians is now being revealed at a rapid pace, largely from DNA sequence analyses (1-5). However, the evolutionary history of a major assemblage of frogs is not well understood. These are the eleutherodactylines and the related genus Brachycephalus, which comprise 13% (812 sp.) of all known species of amphibians and 27% of those occurring in the New World tropics (6). Unlike most temperate species, these frogs reproduce on land and undergo direct development, bypassing the tadpole stage (7). Most are relatively small, typically 20-50 mm in length. A majority of the species has been placed in Eleutherodactylus and, together with several other genera, assigned to the tribe Eleutherodactylini of the neobatrachian family Leptodactylidae (8), superfamily Hyloidea (9). However, molecular phylogenies of small sets of representative species over the last two decades have suggested that both the family-level and genus-level classification is in need of revision (2,(10)(11)(12)(13)(14).Terrestrial breeding and direct development have allowed eleutherodactyline frogs to occupy a diversity of ecological niches and have facilitated their wide distribution (Fig. 1). Eleutherodactylines occur on almost every island in the Caribbean and display near total endemicity to single-island banks. Their elevational range also is broad, with some species occurring up to 4,400 m in the Andes of South America. Thus, they are a model group for studying Neotropical biogeography and evolution. With this in mind, we assembled samples and available sequences of 276 species of eleutherodactylines and Brachycephalus for several mitochondrial and nuclear genes. Our goal was to identify the major groups of species and their times of divergence, to better understand the historical biogeography of eleutherodactyline frogs and the region in general. Our results revealed several major and, for the most part, geographically isolated, clades of eleutherodactyline frogs and showed that the Middle American and West Indian eleutherodactylines owe their origin to Cenozoic over-water dispersal, not from land connections in the Mesozoic.