Inorganic carbon and temperature are 2 important factors that regulate the growth of submerged macrophytes. However, experimental evidence regarding the eco-physiological changes that occur in submerged macrophytes in response to elevated CO 2 and temperature is still limited. To investigate how the submerged macrophyte Vallisneria natans (Hydrocharitaceae), a common species in the waters of the middle and lower reaches of the Yangtze River, responds to these factors, we conducted a mesocosm experiment using simulated CO 2 elevation (by bubbling CO 2 into experimental water) and ambient temperature warming systems. During the 60 d experiment, CO 2 elevation significantly increased the inorganic carbon concentration in the water column. The warming systems elevated average water temperature by approximately 3°C. The elevation of CO 2 levels significantly enhanced the photosynthetic performance, growth and clonal propagation of V. natans. When combined with an increase in CO 2 , elevated temperatures also promoted photosynthesis and growth. The individual ramet biomass of V. natans decreased with increasing temperature, but only significantly under ambient CO 2 levels. CO 2 elevation increased both stolon elongation and bud number. At elevated CO 2 concentration, more biomass was allocated to the stolons, roots and buds, while less biomass was allocated to the leaves. These results indicate that the eco-physiological responses of V. natans should increase its stress tolerance in aquatic plant communities under future spatial and temporal variation in CO 2 levels, however, further research is required.