The Coral Triangle is a large maritime region, nearly two-thirds the size of the United States, located in the western equatorial Pacific. It is widely known as the global center of marine biodiversity, and more than 75% of the worldÆs reef building coral species live there. Coral Triangle reefs are already being affected by rising sea temperature, causing coral bleaching events and widespread mortality of corals and other reef-associated organisms. Our project wanted to understand whether some regions within the Coral Triangle have experienced more heat stress than others, and if so, what causes those differences. Such information is important to ongoing marine conservation planning efforts, as it can highlight those coral reefs that are the most likely to survive coral bleaching events in the future. The oceanographic circulation patterns are complicated in the Coral Triangle, particularly since the passage of water from the Pacific Ocean to the Indian Ocean must flow through a dense network of islands, shallow shelves, and deep passages. Satellite-based observations of surface temperature have been invaluable in understanding temperature patterns in this region, but even the high-resolution satellite record here, which began in 1985, is subject to the regionÆs extreme cloudiness. We designed a Regional Oceanographic Model System for the Coral Triangle (CT-ROMS) with a spatial resolution of 5 km to study circulation, temperature, salinity and many other oceanographic features. CT-ROMS not only avoids the cloudiness issue, it also allows us to simulate oceanographic conditions over longer periods in the past as well as into the future. Our results show that over the period 1960-2007, mean sea surface temperature (SST) in the Coral Triangle increased an average of ~0.1ºC per decade. That increase, however, has been far from uniform. Some regions remained stable or even cooled slightly, while others warmed at a rate of nearly 0.5ºC/decade. Heat stress, which is defined as a 12-week accumulation of temperature in excess of a threshold value, significantly reflected these underlying temperature trends, although the most intense heat stress occurred with the additional temperature increases associated with climatic oscillations such as ENSO. While most of the worldÆs reef regions have experienced the greatest heat stress during El Niño years, in the Coral Triangle the greatest heat stress has occurred during La Niña years. Several regions, however, have experienced little to no heat stress. The spatial pattern of surface temperature in Coral Triangle waters largley reflects the complex bathymetry and oceanography of the region. These patterns did not change significantly between 1960-2007, and to investigate whether they would remain stable into the 21st Century, we forced CT-ROMS with output from a global climate model (the Community Climate System Model, version 4). Using the RCP8.5 scenario, the projected SSTs reflect both an intensification of warming (~0.25ºC per decade on average at the surface; ~0.2ºC per decade at 50 m depth) and an eastward and northward shift of the region of greatest warming. The latter reflects a warming of westward flowing north equatorial current and the advection of these waters southward into the Coral Triangle via the Indonesian Throughflow. Under this scenario, reefs everywhere in the Coral Triangle will experience heat stress into the future, but a few regions experience less stress than others. Reefs that extend into deeper waters will experience the least amount of warming, and should be further investigated as potential refugia in planning for marine protected areas (MPA). Data from the model simulations can be accessed through the website http://ctroms.ucar.edu. Through collaboration with The Nature Conservancy, subsets of the data are being converted to formats that can be used in planning for MPA networks and supports the efforts of the...