THE physical structure of the Pacific and Indian oceans is substantial
ly affected by the inter-ocean transport of excess fresh water from th
e North Pacific Ocean through the Indonesian seas(1,2). The efficiency
of this transport is an important regulator of the meridional overtur
ning of these oceans(1,2), and hence perhaps of the global thermohalin
e circulation(3); in addition the seepage of warm water out of the Pac
ific affects the volume of the western Pacific warm pool, and thus may
influence El Nino events(24). But the sources, pathways and physical
properties of the Indonesian throughflow are not well enough character
ized to allow its influence on ocean circulation and the climate syste
m to be quantified. Here we report salinity, temperature and chemical-
tracer data from the Indonesian seas which show that the throughflow i
s dominated by two components: one of low-salinity, well ventilated No
rth Pacific water through the upper thermocline of the Makassar Strait
, and the other of more saline South Pacific water through the lower t
hermocline of the eastern Indonesian seas. Seasonal (monosonal) variat
ions in the ratio of these components, perhaps modulated by El Nino co
nditions, imply the existence of potentially important variable feedba
cks to the ocean circulation and climate system.