Mechanism for Radical Cation Transport in Duplex DNA Oligonucleotides

Abstract

We investigated the photoinduced one-electron oxidation of a series of DNA oligomers having a covalently linked anthraquinone group (AQ) and containing [(A)_nGG]_m or [(T)_nGG]_m segments. These oligomers have m GG steps, where m = 4 or 6, separated by (A)_n or (T)_n segments, where n = 1−7 for the (A)_n set and 1−5 for the (T)_n set. Irradiation with UV light that is absorbed by the AQ causes injection of a radical cation into the DNA. The radical cation migrates through the DNA, causing chemical reaction, primarily at GG steps, that leads to strand cleavage after piperidine treatment. The uniform, systematic structure of the DNA oligonucleotides investigated permits the numerical solution of a kinetic scheme that models these reactions. This analysis yields two rate constants, k_hop, for hopping of the radical cation from one site to adjacent sites, and k_trap, for irreversible reaction of the radical cation with H₂O or O₂. Analysis of these findings indicates that radical cation hopping in these duplex DNA oligomers is a process that occurs on a microsecond time scale. The value of k_hop depends on the number of base pairs in the (A)_n and (T)_n segments in a systematic way. We interpret these results in terms of a thermally activated adiabatic mechanism for radical cation hopping that we identify as phonon-assisted polaron hopping.