Alkalies are important agricultural contaminants complexly affecting plant metabolism. In this study, rice seedlings were subjected to alkaline stress (NaHCO3:Na2CO3 = 9:1; pH 8.9) for 30 days. The results showed that stress mightily reduced net photosynthetic rate (PN), but slightly decreased transpiration rate and stomatal conductance. This indicated that decline of PN might be a result of nonstomatal factors. Alkaline stress caused a large accumulation of Na+ in leaves up to toxic concentration, which possibly affected chloroplast ultrastructure and photosynthesis. We found that alkaline stress reduced chlorophyll fluorescence parameters, such as ratios of Fv′/Fm′, Fv/Fm, photosystem (PS) II efficiency, and electron transport rates in rice plants, i.e. it influenced the efficiencies of photon capture and electron transport by PSII. This might be a main reason for the decrease of PN under such conditions. Deficiency of minerals could be another reason for the decline of PN. Alkaline stress lowered contents of N, K, Cu, Zn, P, and Fe in rice plants. In addition, the stress strongly affected metabolism of amino acids. This might be caused by imbalance in carbon metabolism as a result of photosynthesis reduction., Z.-H. Wu, C.-W. Yang, M.-Y. Yang., and Obsahuje bibliografii