Based on 30 year repeated expendable bathythermograph (XBT) deployments between Fremantle, Western Australia, and the Sunda Strait, Indonesia, from 1984 to 2013, interannual variability of geostrophic transport of the Indonesian Throughflow (ITF) and its relationships with El Niño Southern Oscillation (ENSO) and the Indian Ocean Dipole (IOD) are investigated. The IOD induced coastal Kelvin waves propagate along the Sumatra‐Java coast of Indonesia, and ENSO induced coastal Kelvin waves propagate along the northwest coast of Australia, both influencing interannual variations of the ITF transport. The ITF geostrophic transport is stronger during La Niña phase and weaker during El Niño phase, with the Niño3.4 index leading the ITF variability by 7 months. The Indian Ocean wind variability associated with the IOD to a certain extent offset the Pacific ENSO influences on the ITF geostrophic transport during the developing and mature phases of El Niño and La Niña, due to the covarying IOD variability with ENSO. The ITF geostrophic transport experiences a strengthening trend of about 1 Sv every 10 years over the study period, which is mostly due to a response to the strengthening of the trade winds in the Pacific during the climate change hiatus period. Decadal variations of the temperature‐salinity relationships need to be considered when estimating the geostrophic transport of the ITF using XBT data.

The Indonesian Throughflow (ITF) is an important component of the upper cell of the global overturning circulation that provides a low-latitude pathway for warm, fresh waters from the Pacific to enter the Indian Ocean. Variability and changes of the ITF have significant impacts on Indo-Pacific oceanography and global climate. In this paper, the observed features of the ITF and its interannual to decadal variability are reviewed, and processes that influence the centennial change of the ITF under the influence of the global warming are discussed. The ITF flows across a region that comprises the intersection of two ocean waveguides-those of the equatorial Pacific and equatorial Indian Ocean. The ITF geostrophic transport is stronger during La Niñas and weaker during El Niños due to the influences through the Pacific waveguide. The Indian Ocean wind variability associated with the Indian Ocean Dipole (IOD) in many years offsets the Pacific ENSO influences on the ITF geostrophic transport during the developing and mature phases of El Niño and La Niña through the Indian Ocean waveguide, due to the co-varying IOD variability with ENSO. Decadal and multi-decadal changes of the geostrophic ITF transport have been revealed: there was a weakening change from the mid-1970s climate regime shift followed by a strengthening trend of about 1Sv every 10 year during 1984-2013. These decadal changes are mostly due to the ITF responses to decadal variations of the trade winds in the Pacific. Thus, Godfrey's Island Rule, as well as other ITF proxies, appears to be able to quantify decadal variations of the ITF. Climate models project a weakening trend of the ITF under the global warming. Both climate models and downscaled ocean model show that this ITF weakening is not directly associated with the changes of the trade winds in the Pacific into the future, and the reduction of deep upwelling in the Pacific basin is mainly responsible for the ITF weakening. There is a need to amend the Island Rule to take into account the contributions from the overturning circulation which the current ITF proxies fail to capture. The implication of a weakened ITF on the Indo-Pacific Ocean circulation still needs to be assessed.

The Luzon Strait transport, as an index for the South China Sea throughflow, has attracted much attention recently. In this study the interannual variability of Luzon Strait transport is examined, using the Island Rule and results from ocean data assimilation. Transport variability obtained from these two approaches is consistent with each other. Assessment of contribution from each integral segment involved in the Island Rule indicates that wind stress in the western and central equatorial Pacific is the key factor regulating the interannual variability of the Luzon Strait transport, whereas the effect of local wind stress in the vicinity of the Luzon Strait is secondary. Analysis also shows that when the westerly (easterly) wind anomalies in the tropical Pacific break out, the Luzon Strait transport increases (decreases), associated with the variations in the North Equatorial Current during El Niño (La Niña) events.

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