The study was undertaken to address the question whether there are differences in the molecular features of mitochondrial DNA (mtDNA) extracted from peripheral blood lymphocytes between the individuals possibly exposed to radiation around Semipalatinsk Nuclear Testing Site and those who lived in noncontaminated areas in Kazakhstan. Subjects were residents from three villages considered to be highly contaminated with radioactive fallout. Control individuals were from one settlement in Kazakhstan and a Japanese noncontaminated area. Two parameters, the relative mtDNA content and abundance of large-scale deletions in mtDNA were estimated by real-time PCR and fluorescence-mediated PCR, respectively. The number of large-scale deletions generally decreased with the increase of mtDNA content both in Kazakhstan and in the control Kazakhstan and Japanese individuals. The character of relationship between the number of large-scale deletions and the mtDNA content was similar in any group tested irrespective of the radiation history of a blood donor, and this tendency was preserved between different age groups. We conclude that examination of large-scale mtDNA deletions in nonstimulated peripheral blood lymphocytes is unlikely to be informative as a bioindicator of radiation exposure.