Abstract. Beginning with E. Mayr's study in 1954, tropical sea urchins have played an important role in studies of speciation in the sea, but what are the processes of cladogenesis and divergence that give rise to new species in this group? We attempt to answer this question in the genus Lytechinus. Unlike the majority of other tropical sea urchin genera, which have circumtropical distributions, Lytechinus is mostly confined to the tropics and subtropics of the New World. We sequenced a region of mitochondrial cytochrome oxidase I and the entire molecule of nuclear bindin (a sperm gamete recognition protein) of nearly all species in the genus, and we assayed isozymes of three partially sympatric closely related species and subspecies. We found that in both mitochondrial DNA (mtDNA) and in bindin the genus Lytechinus is paraphyletic, encompassing Sphaerechinus granularis as the sister species of L. euerces. The multifaceted question of how speciation proceeds requires many kinds of data to be addressed. Mitochondrial DNA (mtDNA) sequences combined with geographical information can provide clues on the order of splitting between clades and on the possible extrinsic barriers that caused the observed patterns. DNA sequences of nuclear loci involved in reproductive isolation can be used to examine the role that divergence in such loci has played in perfecting reproductive isolation. Data on reproductive compatibility can provide information on the degree of completion of the speciation process between putative species. When reproductive isolation is incomplete, independent molecular datasets can identify introgression and prevent incorrect conclusions about species relationships. We carried out a study that combines these types of information in the sea urchin genus Lytechinus.Unlike most genera of shallow water sea urchins that show very wide geographical distributions, Lytechinus is confined almost exclusively to the coasts of America, ranging from California to the Galapagos in the Pacific and from Bermuda to Brazil in the Atlantic (Mortensen 1943). Of the 11 species