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Accelerated Photobleaching of a Cyanine Dye in the Presence of a Ternary Target DNA, PNA Probe, Dye Catalytic Complex: A Molecular Diagnostic

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journal contribution
posted on 15.03.2009, 00:00 by M. Wang, R. Holmes-Davis, Z. Rafinski, B. Jedrzejewska, K. Y. Choi, M. Zwick, C. Bupp, A. Izmailov, J. Paczkowski, B. Warner, H. Koshinsky
In many settings, molecular testing is needed but unavailable due to complexity and cost. Simple, rapid, and specific DNA detection technologies would provide important alternatives to existing detection methods. Here we report a novel, rapid nucleic acid detection method based on the accelerated photobleaching of the light-sensitive cyanine dye, 3,3′-diethylthiacarbocyanine iodide (DiSC2(3) I), in the presence of a target genomic DNA and a complementary peptide nucleic acid (PNA) probe. On the basis of the UV−vis, circular dichroism, and fluorescence spectra of DiSC2(3) with PNA−DNA oligomer duplexes and on characterization of a product of photolysis of DiSC2(3) I, a possible reaction mechanism is proposed. We propose that (1) a novel complex forms between dye, PNA, and DNA, (2) this complex functions as a photosensitizer producing 1O2, and (3) the 1O2 produced promotes photobleaching of dye molecules in the mixture. Similar cyanine dyes (DiSC3(3), DiSC4(3), DiSC5(3), and DiSCpy(3)) interact with preformed PNA−DNA oligomer duplexes but do not demonstrate an equivalent accelerated photobleaching effect in the presence of PNA and target genomic DNA. The feasibility of developing molecular diagnostic assays based on the accelerated photobleaching (the smartDNA assay) that results from the novel complex formed between DiSC2(3) and PNA−DNA is under way.