Immunocytochemical localization studies of S100A1 in muscle cells have so far yielded variable and conflicting results mainly due to different sample preparation techniques for immunoelectron microscopy. To minimize denaturation by fixation and embedding, cryofixation and cryosectioning followed by immunolabelling were used in the present study. Rat hearts were gently prefixed in a mixture of paraformaldehyde and glutaraldehyde. Samples from left and right ventricles and left and right atria were cryoprotected by sucrose and shock-frozen in liquid nitrogen. Ultrathin cryosections were labelled with rabbit polyclonal antiserum against S100A1. The sections were then incubated with secondary antibody conjugated to FITC (for fluorescence microscopy) or with protein A conjugated to 5 nm gold particles (for electron microscopy). The most prominent sites immunolabelled for S100A1 were mitochondria. In the fluorescence microscope the labelling of mitochondria was intense, suppressing the labelling in other compartments. In accordance with previous studies labelling of sarcoplasmic reticulum, Z-lines, actin and myosin filaments could also be detected in the electron microscope.