The world's river dolphins (Inia, Pontoporia, Lipotes and Platanista) are a
mong the least known and most endangered of all cetaceans. The four extant
genera inhabit geographically disjunct river systems and exhibit highly mod
ified morphologies, leading many cetologists to regard river dolphins as an
unnatural group. Numerous arrangements have been proposed for their phylog
enetic relationships to one another and to other odontocete cetaceans. Thes
e alternative views strongly affect the biogeographical and evolutionary im
plications raised by the important, although limited, fossil record of rive
r dolphins. We present a hypothesis of river dolphin relationships based on
phylogenetic analysis of three mitochondrial genes for 29 cetacean species
, concluding that the four genera represent three separate, ancient branche
s in odontocete evolution. Our molecular phylogeny corresponds well with th
e first fossil appearances of the primary lineages of modern odontocetes. I
ntegrating relevant events in Tertiary palaeoceanography, we develop a scen
ario far river dolphin evolution during the globally high sea levels of the
Middle Miocene. We suggest that ancestors of the four extant river dolphin
lineages colonized the shallow epicontinental seas that inundated the Amaz
on, Parana, Yangtze and Indo-Gangetic river basins, subsequently remaining
in these extensive waterways during their transition to freshwater with the
Late Neogene trend of sea-level lowering.