Unlike populations of many terrestrial species, marine populations oft
en are not separated by obvious, permanent barriers to gene Bow. When
species have high dispersal potential and few barriers to gene flow, a
llopatric divergence is slow. Nevertheless, many marine species are of
recent origin, even in tars with high dispersal potential. Tn underst
and the relationship between genetic structure and recent species form
ation in high dispersal taxa, we examined population genetic structure
among four species of sea urchins in the tropical Indo-West Pacific t
hat have speciated within the past one to three million years. Despite
high potential for gene Bow, mtDNA sequence variation among 200 indiv
iduals of four species in the urchin genus Echinometra shows a signal
of strong geographic effects, These effects include (1) substantial po
pulation heterogeneity; (2) lower genetic variation in peripheral popu
lations; and (3) isolation by distance. These geographic patterns are
especially strong across scales of 5000-10,000 km, and are weaker over
scales of 2500-5000 km. As a result, strong geographic patterns would
not have been readily visible except over the wide expanse of the tro
pical Pacific. Surface currents in the Pacific do not explain patterns
of gene Bow any better than do patterns of simple spatial proximity.
Finally, populations of each species tend to group into large mtDNA re
gions with similar mtDNA haplotypes, but these regional boundaries are
not concordant in different species. These results show that all four
species have accumulated mtDNA differences over similar spatial and t
emporal scales but that the precise geographic pattern of genetic diff
erentiation varies for each species. These geographic patterns appear
much less deterministic than in other well-known coastal marine system
s and may be driven by chance and historical accident.