Applicability of cyanine aggregates for detection of nucleic acids
Keywords:
nucleic acids, groove binding, J-aggregates, cyanine dyes, fluorescent probes
Abstract
The peculiarities of aggregation of cyanine dye 3,3'-dimethyl-9-(2-thienyl)-thiacarbocyanine iodide (Cyan-βTh) in binary solution DMFA:TRIS-HCl buffer (pH 8) in the presence of nucleic acids (DNA and RNA) have been examined by means of optical spectroscopy. It was found that dye aggregates interact with DNA by binding to acid groove, the process which is characterized by complicated structure of aggregates' absorbance and fluorescence. Block model of Cyan-βTh aggregation on nucleic acids where the main block is dye aggregates has been proposed. Fluorescent decay curves of dye monomers and aggregates corroborating the proposed model have been obtained. The absorbance and fluorescence bands of Cyan-βTh aggregates in the presence of DNA differ from those observed in the presence of RNA. This fact allowed attributing the examined dye to a specific one for nucleic acid detection.
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Valyukh V, Kovalska VB, Slominskii YL, Yarmoluk SM, J. Fluoresc. 2002;12(1):105-7.
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Kovalska VB, Volkova KD, Losytskyy MYu, Tolmachev OI, Balanda AO, Yarmoluk SM. Spectrochim. Acta A: Mol. Biomol. Spectrosc. 2006;65(2):271-7.
Kovalska VB, Tokar VP, Losytskyy MYu, Deligeorgiev T, Vassilev A, Gadjev N, et al. J. Biochem. Biophys. Method. 2006;68(3):155-65.
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Lerman LS, J. Mol. Biol. 1961;3:18-30.
Rye HS, Yue S, Wemmer DE, Quesada MA, Haughland RP, Mathies RA, et al. Nucleic Acids Res. 1992;20(11):2803-12.
Larsson A, Carisson C, Jonsson M, Albinsson B. J. Am. Chem. Soc. 1994;116:8459-65.
Wemmer DE, Dervan HD. Curr. Opin. Struct. Biol. 1997;7:355-61.
Norden B. Biophys. Chem. 1977;6:31-45.
Seifert JL, Connor RE, Kushon SA, Wang M, Armitage BA. J. Am. Chem. Soc. 1999;121: 2987-95.
Wang M, Silva GL, Armitage B. J. Am. Chem Soc. 2000;122(41):9977-85.
Wemmer DE. Annu. Rev. Biophys. Biomol. Struct. 2000;29:439-61.
McRae EG, Kasha M, Mason R, Rosenberg B, editors. Physical processes in radiation biology. New York: Academic Press; 1964. p. 337-63.
Czikkely V, Forsterling HD, Kuhn H. Chem. Phys. Lett. 1970;6(3):207-10.
Ogul’chansky TYu, Losytkyy MYu, Kovalska VB, Lukashov SS, Yashchuk VM, Yarmolulk SM. Spectrochim Acta A: Mol. Biomol. Spectrosc. 2001;57(13):2705-15.
Losytskyy MYu, Yashchuk VM, Lukashov SS, Yarmoluk SM. J. Fluoresc. 2002;12(1):109-12.
Chowdhury A, Wachsmann-Hogiu S, Bangal PR, Raheem I, Petean LA. J. Phys. Chem. B. 22001;105(48):12196-201.
Mobius D. Adv. Matter. 1995;7(5):437-44.
Kobayashi T, editor. J-Aggregates, World Scientific Publishing Co. Pte. Ltd, Singapore, New Jersey, London, Hong Kong. 1996.
Salvioli S, Ardizzoni A, Franceschi C, Cossarizza A. FEBS Lett. 1997;411:77-82.
Maeda Y, Nunomura K, Ohtsubo E. J. Mol. Biol. 1990;215:321-9.
Biver T, Secco F, Tine MR, Venturini M. Arch. Biochem. Biophys. 2003;418:63-70.
Bakalis LD, Knoester J. J. Lumin. 2000;87-89:66-70.
Lampoura SS, Spitz C, Dähne S, Knoester J, Duppen K. J. Phys. Chem. B. 2002;106:3103-17.
Davydov AS. Teoriia molekuliarnykh eksitonov. Moskva:Nauka; 1968. (in Russian)
Shapiro BI. Uspekhi khimii. 2006;75(5):484-509. (in Russian)
Ushiroda S, Ruzycki N, Lu Y, Spitler MT, Parkinson BA. J. Am. Chem. Soc. 2005;127:5158-68.
Basko DM, Lobanov AN, Pimenov AV, Vitukhnovsky AG. Chemical Physics Letters. 2003;369:192-7.
Birkan B, Gullen D, Ozcelik S. J. Phys. Chem. B. 2006;110:10805-13.
Ishchenko AA. Stroenie i spektralno-liuminestcentnye svoistva polimetinovykh krasitelei. Kiev:Naukova dumka; 1994. (in Russian)
Lakovich Dzh. Osnovy fluorestcentnoi spektroskopii. Moskva:Mir; 1986. (in Russian)
Published
2007-06-05
Cited
How to Cite
Guralchuk, G. Y., Grinev, R. S., Katrunov, I. K., Sorokin, A. V., Efimova, S. L., Malyukin, Y. V., & Yarmolyuk, S. M. (2007). Applicability of cyanine aggregates for detection of nucleic acids. Biophysical Bulletin, 1(18), 102-107. Retrieved from https://periodicals.karazin.ua/biophysvisnyk/article/view/12630
Section
Methods of biophysical investigations
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