More volatile organic carbon is lost from plants as isoprene than any other molecule. This flux of carbon to the atmosphere affects atmospheric chemistry and can serve as a substrate for ozone production in polluted air. Isoprene synthesis may help leaves cope with heatflecks and active oxygen species. Isoprene synthase, an enzyme related to monoterpene synthases, converts dimethylallyl diphosphate derived from the methylerythritol 4-phosphate pathway to isoprene. We used dideuterated deoxyxylulose (DOX-d 2 ) to study the regulation of the isoprene biosynthetic pathway. Exogenous DOX-d 2 displaced endogenous sources of carbon for isoprene synthesis without increasing the overall rate of isoprene synthesis. However, at higher concentrations, DOX-d 2 completely suppressed isoprene synthesis from endogenous sources and increased the overall rate of isoprene synthesis. We interpret these results to indicate strong feedback control of deoxyxylulose-5-phosphate synthase. We related the emission of labeled isoprene to the concentration of labeled dimethylallyl diphosphate in order to estimate the in situ K m of isoprene synthase. The results confirm that isoprene synthase has a K m 10-to 100-fold higher for its allylic diphosphate substrate than related monoterpene synthases for geranyl diphosphate.Isoprene is emitted from many plants, including mosses, ferns, gymnosperms, and angiosperms (Kesselmeier and Staudt, 1999;). Isoprene emission from plants is one of the most important sources of volatile organic compounds released to the atmosphere (Fehsenfeld et al., 1992;Guenther et al., 1995Guenther et al., , 2000Fuentes et al., 2000). Isoprene emission has been hypothesized to provide leaves protection from heat damage (Sharkey and Singsaas, 1995), especially during short heatflecks , and to protect against ozone and other active oxygen species (Loreto and Velikova, 2001;Affek and Yakir, 2002). Isoprene is made in chloroplasts from dimethylallyl diphosphate (DMAPP) by isoprene synthase Fall, 1991, 1995;Schnitzler et al., 1996), an enzyme related to monoterpene synthases (Miller et al., 2001). Monoterpene synthases have a high affinity for their substrate, geranyl diphosphate (K m in the micromolar range), but isoprene synthases examined to date have a much lower affinity (K m s in the millimolar range; Wildermuth and Fall, 1996;Lehning et al., 1999).Isoprene is made mostly from carbon previously fixed by photosynthesis (Delwiche and Sharkey, 1993;Karl et al., 2002;Affek and Yakir, 2003). A low but significant amount (10%-30%) of the carbon in isoprene is not rapidly labeled when 13 CO 2 is fed to leaves, about the same proportion of carbon in phosphoglyceric acid that is not quickly labeled (Atkins and Canvin, 1971). Current hypotheses are that this slowly labeling pool is pyruvate imported into the chloroplast to be joined with glyceraldehyde 3-phosphate (GAP) in the first step of the methyl erythritol 4-phosphate (MEP) pathway, which supplies carbon for isoprene synthesis (Kreuzwieser et al., 2002;Rosenstiel et al., ...