The stratospheric Brewer–Dobson circulation (BD-circulation) determines the transport and lifetime of key radiatively active trace gases and further impacts surface climate through downward coupling. Here, we quantify the variability in the lower stratospheric BD-circulation induced by the El Nino Southern Oscillation (ENSO), using satellite trace gas measurements and simulations with the Lagrangian chemistry transport model, CLaMS, driven by ERA-Interim and JRA-55 reanalyses. We show that despite discrepancies in the deseasonalised ozone (O 3 ) mixing ratios between CLaMS simulations and satellite observations, the patterns of changes in the lower stratospheric O 3 anomalies induced by ENSO agree remarkably well over the 2005–2016 period. Particularly during the most recent El Niño in 2015–2016, both satellite observations and CLaMS simulations show the largest negative tropical O 3 anomaly in the record. Regression analysis of different metrics of the BD-circulation strength, including mean age of air, vertical velocity, residual circulation and age spectrum, shows clear evidence for structural changes of the BD-circulation in the lower stratosphere induced by El Niño, consistent with observed O 3 anomalies. These structural changes during El Niño include a weakening of the transition branch of the BD-circulation between about 370–420 K (∼ 100–70 hPa) and equatorward of about 60° and, a strengthening of the shallow branch at the same latitudes and between about 420–500 K (∼ 70–30 hPa). The strengthening of the shallow branch induces negative tropical O 3 anomalies due to enhanced tropical upwelling, while the weakening of the transition branch combined with enhanced downwelling due to the strengthening shallow branch leads to positive O 3 anomalies in the extratropical upper troposphere-lower stratosphere (UTLS). Our results suggest that a shift of the ENSO basic state toward more frequent El Niño-like conditions in a warming future climate will substantially alter UTLS trace gas distributions due to these changes in the vertical structure of the stratospheric circulation.