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The role of cosmic ionizing radiation, including heavy ions (HZE-particles) in the induction of mutations at the molecule-, chromosome-, genome- and cell-level is discussed on the basis of different DNA organization in a pro- and eukaryotically compartmented plant system (Arabidopsis thaliana (L.) Heynh.). Data recently obtained on the biological effects of ionizing radiation make it timely to discuss comparatively the evolutionary potentials of space radiation effects in the pro- and eukaryotic genomes (plasmon, plastidom, chondriom, and nucleom) during long duration exposure on space flights.