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In this study, we analyzed the influence of El Niño–Southern Oscillation (ENSO) on the spatio-temporal variability of droughts in Ecuador for a 48-year period (1965–2012). Droughts were quantified from 22 high-quality and homogenized time series of precipitation and air temperature by means of the Standardized Precipitation Evapotranspiration Index. In addition, the propagation of two different ENSO indices (El Niño 3.4 and El Niño 1 + 2 indices) and other atmospheric circulation processes (e.g., vertical velocity) on different time-scales of drought severity were investigated. The results showed a very complex influence of ENSO on drought behavior across Ecuador, with two regional patterns in the evolution of droughts: (1) the Andean chain with no changes in drought severity, and (2) the Western plains with less severe and frequent droughts. We also detected that drought variability in the Andes …