Spectroscopic study of protonation of oligonucleotides containing adenine and cytosine

Chemical Papers

Volumn 63, Issue 6, 2009, Pages 731-737

  Vojtylová, Terézia ^a   Dospivová, Dana ^a   Třísková, Olga ^a   Pilařová, Iveta ^a   Lubal, Přemysl ^a   Farková, Marta ^a   Trnková, Libuše ^a   Táborský, Petr ^a  

^a MASARYK UNIVERSITY   (Czech Republic)

Author keywords

Adenine; Chemometrics; Cytosine; Oligonucleotides; Protonation; Thermodynamics

Indexed keywords

EID: 70350365249     PISSN: 03666352     EISSN: 13369075     Source Type: Journal    
DOI: 10.2478/s11696-009-0077-8     Document Type: Article

References (27)

1. Burger, K. (Ed.) (1990). Biocoordination chemistry: Coordination equilibria in biologically active systems. Chichester: Ellis Horwood.
2. Cantor, C. R., Warshaw, M. M., & Shapiro, H. (1970). Oligonucleotide interactions. III. Circular dichroism studies of the conformation of deoxyoligonucleolides. Biopolymers, 9, 1059-1103. DOI: 10.1002/bip.1970.360090909.
3. + and Cu(II) ions with poly(adenylic acid): Study by factor analysis. Macromolecules, 27, 1729-1737. DOI: 10.1021/ma00085a010.
4. Casassas, E., Gargallo, R., Izquierdo-Ridorsa, A., & Tauler, R. (1995). Application of a multivariate curve resolution procedure for the study of the acid-base and copper(II) complexation equilibria of polycytidylic acid. Reactive and Functional Polymers, 27, 1-14. DOI: 10.1016/1381-5148(95)00025-B.
5. Gampp, H., Maeder, M., Meyer, C. J., & Zuberbühler, A. D. (1985). Calculation of equilibrium constants from multiwavelength spectroscopic data - II. SPECFIT: Two user-friendly programs in BASIC and standard FORTRAN 77. Talanta, 32, 251-264. DOI: 10.1016/0039-9140(85)80077-1.
6. Gargallo, R., Cuesta-Sánchez, F., Izquierdo-Ridorsa, A., & Massart, D. L. (1996a). Application of Eigenstructure tracking analysis and SIMPLISMA to the study of the protonation equilibria of cCMP and several polynucleotides. Analytical Chemistry, 68, 2241-2247. DOI: 10.1021/ac950596m.
7. Gargallo, R., Tauler, R., & Izquierdo-Ridorsa, A. (1996b). Influence of selectivity and polyelectrolyte effects on the performance of soft-modelling and hard-modelling approaches applied to the study of acid-base equilibria of polyelectrolytes by spectrometric titrations. Analytica Chimica Acta, 331, 195-205. DOI: 10.1016/0003-2670(96)00205-X.
8. Gargallo, R., Tauler, R., & Izquierdo-Ridorsa, A. (1997a). Application of a multivariate curve resolution procedure to the analysis of second-order melting data of synthetic and natural polynucleotides. Analytical Chemistry, 69, 1785-1792. DOI: 10.1021/ac960809n.
9. Gargallo, R., Trauler, R., & Izquierdo-Ridorsa, A. (1997b). Acid-base and copper(II) complexation equilibria of poly(inosinic)-poly(cytidylic) acid. Biopolymers, 42, 271-283. DOI: 10.1002/(SICI)1097-0282(199709)42:3<271::AID-BIP1>3.0.CO;2-J.
10. a prediction for nucleic acids components. Journal of Computer-Aided Molecular Design, 13, 611-623. DOI: 10.1023/A:1008005522776.
11. Izquierdo-Ridorsa, A., Casassas, E., Gargallo, R., Marqués, I., & Tauler, R. (1996). A comparative study of polyelectrolyte effects and conformation changes in several purine and pyrimidine homopolyribonucleotiedes. Reactive and Functional Polymers, 28, 127-137. DOI: 10.1016/1381-5148(95)00049-6.
12. Jaumot, J., Vives, M., & Gargallo, R. (2004). Application of multivariate resolution methods to the study of biochemical and biophysical processes. Analytical Biochemistry, 327, 1-13. DOI: 10.1016/j.ab.2003.12.028.
13. de Juan, A., Izquierdo-Ridorsa A., Gargallo, R., Tauler, R., Fonrondona, G., & Casassas, E. (1997). Three-way curve resolution applied to the study of solvent effects on the thermodynamic and conformational transitions related to the protonation of polycytidylic acid. Analytical Biochemistry, 249, 174-183. DOI: 10.1006/abio.1997.2175.
14. de Juan, A., Casassas, E., & Tauler, R. (2000). Soft modeling of analytical data. In R. A. Meyers (Ed.), Encyclopedia of analytical chemistry: Applications, theory and instrumentation (Vol. 11, pp. 9800-9837). New York: Wiley.
15. Kývala, M., Lubal, P., & Lukeš, I. (1998). Determination of equilibrium constants with the OPIUM computer program. In IX Spanish - Italian and Mediterranean Congress on Thermodynamics of Metal Complexes SIMEC'98, 2-5 June, 1998. Girona, Spain. http://www.natur.cuni.cz/~kyvala/opium. html.
16. Lubal, P., & Havel, J. (1997a). Spectrophotometric and potentiometric study of uranyl hydrolysis in perchlorate medium. Is derivative spectrophotometry suitable for search of the chemical model? Chemical Papers, 51, 213-220.
17. Lubal, P., & Havel, J. (1997b). The study of complex equilibria of uranium(VI) with selenate. Talanta, 44, 457-466. DOI: 10.1016/S0039-9140(96)02103-0.
18. Martell, A. E., Smith, R. M., & Motekaitis, R. (2004). NIST Critically selected stability constants of metal complexes database, Version 8.0. Ghaitersburg, MD, USA: NIST.
19. Mikelová, R., Trnková, L., Jelen, F., Adam, V., & Kizek, R. (2007). Resolution of overlapped reduction signals in short hetero-oligonucleotides by elimination voltametry. Electroanalysis, 19, 348-355. DOI: 10.1002/elan.200603739.
20. Saenger, W. (1984). Principles of nucleic acid structure. New York: Springer Verlag.
21. Sigel, H., & Griesser, R. (2005). Nucleside 5′-triphosphates: self-association, acid-base, and metal-ion binding properties in solution. Chemical Society Reviews, 34, 875-900. DOI: 10.1039/b505986k.
22. 9. Electroanalysis, 15, 1529-1535. DOI: 10.1002/elan.200302719.
23. Trnková, L., Jelen, F., & Postbieglová, I. (2006). Application of elimination voltametry to the resolution of adenine and cytosine signals in oligonucleotides. II. Heterooligodeoxynucleotides with different sequences of adenine and cytosine nucleotides. Electroanalysis, 18, 662-669. DOI: 10.1002/elan.200503447.
24. Trnková, L., Mach, S., Mikelová, R., & Farková, M. (2009). Unpublished results.
25. Vorlíčková, M., Kypr, J., & Sklenář, V. (2005). Nucleic acids: Spectroscopic methods. In P. J. Worsfold, A. Townshend, and C. S. Poole (Eds.), Encyclopedia of analytical science (2nd Ed., Vol. 6, pp. 391-399). Oxford: Elsevier.
26. Warshaw, M. M., & Tinoco, I., Jr. (1966). Optical properties of sixteen dinucleoside phosphates. Journal of Molecular Biology, 20, 29-38. DOI: 10.1016/0022-2836(66)90115-X.
27. n trinucleotide repeats. International Journal of Biological Macromolecules, 36, 23-32. DOI: 10.1016/j.ijbiomac.2005.03.005.