Effects of sodium ions on DNA duplex oligomers: improved predictions of melting temperatures.
作者： Richard Owczarzy , Yong You , Bernardo G. Moreira , Jeffrey A. Manthey , Lingyan Huang
DOI: 10.1021/BI034621R
关键词:
摘要: Melting temperatures, Tm, were systematically studied for a set of 92 DNA duplex oligomers in variety sodium ion concentrations ranging from 69 mM to 1.02 M. The relationship between Tm and ln [Na+] was nonlinear over this range concentrations, the observed melting temperatures poorly predicted by existing algorithms. A new empirical derived UV data that employs quadratic function, which better models as concentration is varied. Statistical analysis shows improved salt correction significantly more accurate than previously suggested algorithms predicts salt-corrected with an average error only 1.6 °C when tested against independent validation measurements obtained literature. Differential scanning calorimetry studies demonstrate insensitive concentration. function ...
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sci-hub.se 参考文章(68)
Kenneth J. Breslauer, Extracting Thermodynamic Data From Equilibrium Melting Curves for Oligonucleotide Order-Disorder Transitions Methods in Enzymology. ,vol. 259, pp. 221- 242 ,(1995) , 10.1016/0076-6879(95)59046-3
R.B. Inman, D.O. Jordan, Deoxypentose nucleic acids Biochimica et Biophysica Acta. ,vol. 42, pp. 427- 434 ,(1960) , 10.1016/0006-3002(60)90820-9
Ken Rose, John O. Mason, Richard Lathe, Hybridization parameters revisited: solutions containing SDS. BioTechniques. ,vol. 33, pp. 54- 58 ,(2002) , 10.2144/02331ST01
P.D. Lawley, Interaction studies with DNA: III. The effect of changes in sodium ion concentration, pH and temperature on the ultra-violet absorption spectrum of sodium thymonucleate Biochimica et Biophysica Acta. ,vol. 21, pp. 481- 488 ,(1956) , 10.1016/0006-3002(56)90185-8
Elliot L. Elson, Immo E. Scheffler, Robert L. Baldwin, Helix formation by d(TA) oligomers Journal of Molecular Biology. ,vol. 54, pp. 401- 415 ,(1970) , 10.1016/0022-2836(70)90118-X
M. Thomas Record, Wentao Zhang, Charles F. Anderson, Analysis of effects of salts and uncharged solutes on protein and nucleic acid equilibria and processes: a practical guide to recognizing and interpreting polyelectrolyte effects, Hofmeister effects, and osmotic effects of salts. Advances in Protein Chemistry. ,vol. 51, pp. 281- 353 ,(1998) , 10.1016/S0065-3233(08)60655-5
John Petruska, Norman Arnheim, Myron F Goodman, Gene Targeting in Rat Embryo Fibroblasts Promoted by the Polyomavirus Large T Antigen Associated With Neurological Diseases Nucleic Acids Research. ,vol. 24, pp. 1992- 1998 ,(1996) , 10.1093/NAR/24.11.1992
Jens Völker, Horst H Klump, Gerald S Manning, Kenneth J Breslauer, Counterion association with native and denatured nucleic acids: an experimental approach Journal of Molecular Biology. ,vol. 310, pp. 1011- 1025 ,(2001) , 10.1006/JMBI.2001.4841
Tigran V. Chalikian, Jens V�lker, A. R. Srinivasan, Wilma K. Olson, Kenneth J. Breslauer, The hydration of nucleic acid duplexes as assessed by a combination of volumetric and structural techniques. Biopolymers. ,vol. 50, pp. 459- 471 ,(1999) , 10.1002/(SICI)1097-0282(19991015)50:5<459::AID-BIP1>3.0.CO;2-B
J.P. Bond, C.F. Anderson, M.T. Record, Conformational transitions of duplex and triplex nucleic acid helices: thermodynamic analysis of effects of salt concentration on stability using preferential interaction coefficients Biophysical Journal. ,vol. 67, pp. 825- 836 ,(1994) , 10.1016/S0006-3495(94)80542-9