SummaryIsoprene, a volatile organic compound produced by some plant species, enhances abiotic stress tolerance under current atmospheric CO 2 concentrations, but its biosynthesis is negatively correlated with CO 2 concentrations. We hypothesized that losing the capacity to produce isoprene would require stronger up-regulation of other stress tolerance mechanisms at low CO 2 than at higher CO 2 concentrations.We compared metabolite profiles and physiological performance in poplars (Populus 9 canescens) with either wild-type or RNAi-suppressed isoprene emission capacity grown at pre-industrial low, current atmospheric, and future high CO 2 concentrations (190, 390 and 590 ppm CO 2 , respectively).Suppression of isoprene biosynthesis led to significant rearrangement of the leaf metabolome, increasing stress tolerance responses such as xanthophyll cycle pigment de-epoxidation and antioxidant levels, as well as altering lipid, carbon and nitrogen metabolism. Metabolic and physiological differences between isoprene-emitting and suppressed lines diminished as growth CO 2 concentrations rose.The CO 2 dependence of our results indicates that the effects of isoprene biosynthesis are strongest at pre-industrial CO 2 concentrations. Rising CO 2 may reduce the beneficial effects of biogenic isoprene emission, with implications for species competition. This has potential consequences for future climate warming, as isoprene emitted from vegetation has strong effects on global atmospheric chemistry.