The growth-inhibiting effects of Gemini1231 surfactant on Prorocentrum donghaiense, Alexandrium tamarense, Gymnodinium sp., Heterosigma akashiwo, Skeletonema costatum , Platymonas helgolanidica and Platymonas subcordiforus were investigated. The results demonstrate that the growth of P. donghaiense, A. tamarense and H. akashiwo was strongly inhibited in medium containing Gemini1231 from 0.2 to 0.5 mg x L(-1), and the S. costatum was also inhibited at concentrations above 0.5 mg x L(-1). However, the effects of this surfactant on the growth of Gymnodinium sp. and two beneficial green microalgae tested were negligible under the same treatment, indicating the potential for the selective control of red tide organisms. In addition, the analysis of the correlation between the inhibitory effect of the Gemini1231 on the algae tested and fatty acid composition of the algae implied that the differences in the fatty acid composition, especially the proportion of PUFAs, were responsible for the species-specific responses to biquaternary ammonium salt.