The objectives of this study were to investigate the difference and interaction of mercury (Hg) and selenium (Se) among fish species and tissues. In addition, by comparing with the detected concentrations in other regions, it would be possible to evaluate the pollution status. In the meanwhile, this study analyzed the edibility of the fish, the interaction between Hg and Se as well as their impacts on fish growth. Ten species of fish, including tenpounder (Elops machnata), fourlined terapon (Pelates quadrilineatus), whipfin silverbiddy (Gerres filamentosus), common ponyfish (Leiognathus equulus), Hamilton's thryssa (Thryssa hamiltonii), tilapia (Orechromis niloticus), western Pacific gizzard shad (Nematalosa come), large-scaled mullet (Liza macrolepis), flathead mullet (Mugil cephalus) and milkfish (Chanos chanos), and 20 sediment samples were collected from September to October of 2003 at the reservoir adjacent to a chlor-alkali plant, which had been abandoned for 22 years in Tainan City. Total mercury (THg) and organic mercury (OHg) concentrations were determined in fish muscles, livers, kidneys, gonads, gills and sediment samples. Besides, Se concentrations were also analyzed in fish muscles and livers. Concentrations (mg/kg dry wt.) of THg and OHg in sediment were 43.2¡Ó23.4(mean¡Ósd) and 0.013¡Ó0.008, respectively. THg, OHg and Se concentrations (mg/kg wet wt.) in fish muscles were 0.432¡Ó0.360, 0.305¡Ó0.206 and 0.126¡Ó0.030, similar to the concentrations in other chlor-alkali polluted regions. With the diet habit of Taiwanese, the Hg concentrations of muscles in the seven fish species exceeded the limit of Hg which was allowed to be consumed by humans. THg and OHg concentrations in the fish muscles showed significant species difference. Obviously, the concentrations in carnivorous fishes were higher than those in omnivorous and herbivorous fishes. The OHg concentrations of fish livers and kidneys were highest in carnivorous fishes, but the THg concentrations were higher in omnivorous fishes than in that of carnivorous and herbivorous fishes. Besides, Se concentrations in fish muscles and livers also showed significant species difference, but did not show relation with the feeding habit of fishes. The Hg levels among fish tissues were highest in livers or kidneys, followed by gonads and muscles, lowest in gills. Generally speaking, Se levels were higher in livers than in muscles. The liver THg concentrations of tilapia reached 10 mg/kg wet wt. Their muscle THg concentrations decreased suddenly and maintained at a level about 0.4 mg/kg wet wt. Meanwhile, the liver inorganic Hg and Se concentrations increased with fish weight, while the liver OHg concentrations did not show such a trend but stay at a low level. High Hg concentrations in the fish tissues resulted in adverse effects on fish health. High Hg concentrations in muscles and livers caused heptasomatic index to decrease in western Pacific gizzard shad and milkfish, and condition factor declined in tilipia. Moreover, gonasomatic index remained low while the Hg concentrations of muscles, livers and gonads reached a threshold, which suggested that the growth of those fishes was likely inhibited in Hg polluted environment.