Abstract. Diel and seasonal fluctuations in seawater carbonate chemistry are common in coastal waters, while in the open-ocean carbonate chemistry is much less variable. In both of these environments, ongoing ocean acidification is being superimposed on the natural dynamics of the carbonate buffer system to influence the physiology of phytoplankton. Here, we show that a coastal Thalassiosira weissflogii isolate and an oceanic diatom, Thalassiosira oceanica, respond differentially to diurnal fluctuating carbonate chemistry in current and ocean acidification (OA) scenarios. A fluctuating carbonate chemistry regime showed positive or negligible effects on physiological performance of the coastal species. In contrast, the oceanic species was significantly negatively affected. The fluctuating regime reduced photosynthetic oxygen evolution rates and enhanced dark respiration rates of T. oceanica under ambient CO 2 concentration, while in the OA scenario the fluctuating regime depressed its growth rate, chlorophyll a content, and elemental production rates. These contrasting physiological performances of coastal and oceanic diatoms indicate that they differ in the ability to cope with dynamic pCO 2 . We propose that, in addition to the ability to cope with light, nutrient, and predation pressure, the ability to acclimate to dynamic carbonate chemistry may act as one determinant of the spatial distribution of diatom species. Habitat-relevant diurnal changes in seawater carbonate chemistry can interact with OA to differentially affect diatoms in coastal and pelagic waters.