3,3¢-Dipropyl-2,2¢-thiadicarbocyanine iodide [DiS-C 3 (5)], often used as a tracer dye to assess the mitochondrial membrane potential, was investigated in detail regarding its effects on the structure and function of isolated mitochondria. As reported previously, DiS-C 3 (5) had an inhibitory effect on NADH-driven mitochondrial electron transfer. On the contrary, in the presence of inorganic phosphate, DiS-C 3 (5) showed dose-dependent biphasic effects on mitochondria energized by succinate. At higher concentrations, such as 50 lM, DiS-C 3 (5) accelerated mitochondrial oxygen consumption. Measurements of the permeability of DiS-C 3 (5)-treated mitochondrial membranes to poly(ethylene glycol) and analysis of mitochondrial configuration by transmission electron microscopy revealed that the accelerating effect of DiS-C 3 (5) on mitochondrial oxygen consumption reflects the induction of the mitochondrial permeability transition (PT). When the mitochondrial PT was induced by DiS-C 3 (5), release of mitochondrial cytochrome c was observed, as in the case of the PT induced by Ca
2+. On the contrary, at a low concentration such as 5 lM, DiS-C 3 (5) showed an inhibitory effect on the latent oxygen consumption by mitochondria. This effect was shown to reflect inhibition of the PT induced by a low concentration of Ca
2+. Furthermore, in the absence of inorganic phosphate, DiS-C 3 (5) caused mitochondrial swelling. Under this condition, DiS-C 3 (5) caused changes in the membrane status of the mitochondria, but did not induce a release of mitochondrial cytochrome c.Keywords: cyanine dye; cytochrome c; DiS-C 3 (5); mitochondria; permeability transition.The mitochondrial inner membrane is highly impermeable even to small solutes and ions. However, under certain conditions, such as in the presence of Ca 2+ and inorganic phosphate (P i ), the inner mitochondrial membrane becomes permeable to solutes and ions up to 1500 Da. This phenomenon is referred to as the mitochondrial permeability transition (PT), and PT is believed to reflect the opening of a proteinaceous pore [1][2][3].In the field of biochemistry, cyanine dyes are often employed as an indicator dye to assess the mitochondrial membrane potential [4,5]. In our previous studies, we characterized the effects of cyanine dyes such as 2,2¢-{3-[2-(3-butyl-4-methyl-2-thiazolin-2-ylidene)ethylidene]propenylene}-bis(3-butyl-4-methyl thiazolinium iodide) [TriS-C 4 (5)] and 2,2¢-{3-[2-(3-heptyl-4-methyl-2-thiazolin-2-ylidene) ethylidene] propenylene}-bis(3-heptyl-4-methyl thiazolinium iodide) [TriS-C 7 (5)], both of which have three heterocylic groups, on mitochondrial structure and function. These cyanine dyes accelerated mitochondrial oxygen consumption only in the presence of P i in the incubation medium [6][7][8]. Furthermore, the accelerating effects of these cyanine dyes on the mitochondrial oxygen consumption were attributable mainly to the induction of the mitochondrial PT [9]. However, different from the classical PT induced by Ca , that induced by these cyanine dyes was o...