Cyclic denaturation and renaturation of double-stranded DNA by redox-state switching of DNA intercalators

Journal of the American Chemical Society

Volumn 135, Issue 14, 2013, Pages 5399-5407

  Syed, Shahida N ^a   Schulze, Holger ^a   MacDonald, Daniel ^a   Crain, Jason ^a,b   Mount, Andrew R ^a   Bachmann, Till T ^a  

^a UNIVERSITY OF EDINBURGH   (United Kingdom)

^b National Physics Laboratory   (United Kingdom)

Author keywords

[No Author keywords available]

Indexed keywords

BIOANALYTICAL METHODS; DNA OLIGONUCLEOTIDES; ELECTROCHEMICAL CONTROL; ELEVATED TEMPERATURE; MELTING CURVE ANALYSIS; MOLECULAR DIAGNOSTICS; NEXT-GENERATION SEQUENCING; OPERATIONAL PRINCIPLES;

BIOSENSORS; DENATURATION; DNA; OLIGONUCLEOTIDES; SPECTROELECTROCHEMISTRY;

GENE ENCODING;

DAUNORUBICIN; DOUBLE STRANDED DNA;

ARTICLE; CIRCULAR DICHROISM; DNA BINDING; DNA DENATURATION; DNA HYBRIDIZATION; GENE SWITCHING; MELTING POINT; NUCLEIC ACID RENATURATION; OXIDATION REDUCTION STATE; ULTRAVIOLET SPECTROPHOTOMETRY;

DAUNORUBICIN; DNA; MOLECULAR STRUCTURE; NUCLEIC ACID AMPLIFICATION TECHNIQUES; NUCLEIC ACID DENATURATION; OXIDATION-REDUCTION; TEMPERATURE;

EID: 84876044756     PISSN: 00027863     EISSN: 15205126     Source Type: Journal    
DOI: 10.1021/ja311873t     Document Type: Article

References (61)

1. Yakovchuk, P.; Protozanov, E.; Frank-Kamenetskii, M. D. Nucleic Acids Res. 2006, 34, 564
2. Kool, E. T. Annu. Rev. Biophys. Biomol. Struct. 2001, 30, 1
3. Mergny, J.-L.; Lacroix, L. Oligonucleotides 2003, 13, 515
4. Owczarzy, R.; You, Y.; Moreira, B. G.; Manthey, J. A.; Huang, L.; Behlke, M. A.; Walder, J. A. Biochemistry 2004, 43, 3537
5. Ageno, M.; Dore, E.; Frontali, C. Biophys. J. 1969, 9, 1281
6. Wang, Y.-C.; Lin, C.-B.; Su, J.-J.; Ru, Y.-M.; Wu, Q.; Chen, Z.-B.; Mao, B.-W.; Tian, Z.-W. Anal. Chem. 2011, 83, 4930
7. Hutton, J. R. Nucleic Acids Res. 1977, 4, 3537
8. Drummond, T. G.; Hill, M. G.; Barton, J. K. Nat. Biotechnol. 2003, 21, 1192
9. Gebala, M.; Stoica, L.; Neugebauer, S.; Schuhmann, W. Electroanal. 2009, 21, 325
10. Bier, F. F.; von Nickisch-Rosenegk, M.; Ehrentreich-Förster, E.; Reiss, E.; Henkel, J.; Strehlow, R.; Andresen, D. Adv. Biochem. Eng./Biotechnol. 2008, 109, 433
11. Leinberger, D. M.; Grimm, V.; Rubtsova, M.; Weile, J.; Schröppel, K.; Thomas, A.; Wichelhaus, T. A.; Knabbe, C.; Schmid, R. D.; Bachmann, T. T. J. Clin. Microbiol. 2010, 48, 460
12. Saiki, R. K.; Gelfand, D. H.; Stoffel, S.; Scharf, S. L.; Higuchi, R.; Horn, G. T.; Mullis, K. B.; Erlich, H. A. Science 1988, 239, 487
13. Craw, P.; Balachandran, W. Lab Chip 2012, 12, 2469
14. Wiedman, M.; Wilson, W.; Czajka, J.; Luo, J.; Barany, F.; Batt, A. PCR Methods Appl. 1994, 3, S51
15. Metzker, M. L. Nature Rev. Genet. 2010, 11, 31
16. Resendiz, M. J. E.; Schön, A.; Freire, E.; Greenberg, M. M. J. Am. Chem. Soc. 2012, 134, 12478
17. Dohno, C.; Uno, S.-N.; Nakatani, K. J. Am. Chem. Soc. 2007, 129, 11898
18. Lee, S. J.; Lee, S. Y. Appl. Microbiol. Biotechnol. 2004, 64, 289
19. Asiello, P. J.; Baeumner, A. J. Lab Chip 2011, 11, 1420
20. Weigl, B.; Domingo, G.; LaBarre, P.; Gerlach, J. Lab Chip 2008, 8, 1999
21. Holland, C. A.; Kiechle, F. L. Curr. Opin. Microbiol. 2005, 8, 504
22. Yager, P.; Edwards, T.; Helton, K.; Nelson, K.; Tam, M. R.; Weigl, B. H. Nature 2006, 442, 412
23. Zhang, C.; Xing, D. Nucleic Acids Res. 2007, 35, 4223
24. Luo, X.; Hsing, I.-M. Analyst 2009, 134, 1957
25. Wang, J. Biosens. Bioelectron. 2006, 21, 1887
26. Asanuma, H.; Liang, X.; Yoshida, T.; Komiyama, M. ChemBioChem 2001, 2, 39
27. Hamad-Schifferli, K.; Schwartz, J. J.; Santos, A. T.; Zhang, S.; Jacobson, J. M. Nature 2002, 415, 152
28. Ihmels, H.; Otto, D. Top. Curr. Chem. 2005, 258, 161
29. Erdem, A.; Kerman, K.; Meric, B.; Ozsoz, M. Electroanal. 2001, 13, 219
30. Deféver, T.; Druent, M.; Evrard, D.; Marchal, D.; Limoges, B. Anal. Chem. 2011, 83, 1815
31. Marazza, G.; Chiti, G.; Mascini, M.; Anichini, M. Clin. Chem. 2000, 46, 31
32. Quigley, G. J.; Wang, A. H.-J.; Ughetto, G.; van der Marel, G.; van Boom, J. H.; Rich, A. Proc. Natl. Acad. Sci. U.S.A. 1980, 77, 7204
33. Guin, P. S.; Das, S.; Mandal, P. C. Int. J. Electrochem. 2011, 2011, 1
34. Chaires, J. B.; Dattagupta, N.; Crothers, D. M. Biochemistry 1982, 21, 3933
35. Lin, P.-H.; Kao, Y.-H.; Chang, Y.; Cheng, Y.-C.; Chien, C.-C.; Chen, W.-Y. Biotechnol. J. 2010, 5, 1
36. Chu, X.; Shen, G.-I.; Jiang, J.-H.; Kang, T.-F.; Xiong, B.; Yu, R.-Q. Anal. Chim. Acta 1998, 373, 29
37. Wilhelm, M.; Mukherjee, A.; Bouvier, B.; Zakrzewska, K.; Hynes, J. T.; Lavery, R. J. Am. Chem. Soc. 2012, 134, 8588
38. Puglisi, J. D.; Tinoco, I. J. Methods Enzymol. 1989, 180, 304
39. Breslaur, K. J.; Sturtevant, J. M.; Tinoco, I. J. J. Mol. Biol. 1975, 99, 549
40. IDT Biophysics. http://biophysics.idtdna.com (accessed Nov 23, 2012).
41. Belozerova, I.; Levicky, R. J. Am. Chem. Soc. 2012, 134, 18667
42. Ibrahim, M. S. Anal. Chim. Acta 2001, 443, 63
43. Neudeck, A.; Marken, F.; Compton, R. G. Electroanalytical Methods: Guide to Experiments and Applications, 2 nd ed.; Scholz, F., Ed.; Springer Verlag: Berlin-Heidelberg, 2010; p 188.
44. Houée-Levin, C.; Gardés-Albert, M.; Ferradini, C. J. Free Radic. Biol. Med. 1986, 2, 89
45. Kleyer, D. L.; Koch, T. H. J. Am. Chem. Soc. 1984, 106, 2380
46. Abdella, R. J.; Fisher, J. Environ. Health Perspect. 1985, 64, 3
47. Bouma, J.; Beijnen, J. H.; Bult, A.; Underberg, W. J. M. Pharm. Weekblad, Sci. Ed. 1986, 8, 109
48. Shi, Y.; Slaterbeck, A. F.; Sleiskar, C. J.; Heineman, W. R. Anal. Chem. 1997, 69, 3679
49. Nowicka, A. M.; Zabost, E.; Donten, M.; Mazerska, Z.; Stojek, Z. Bioelectrochemistry 2007, 40, 440
50. Fojta, M. Electroanal. 2002, 14, 1449
51. Cheng, G.; Qu, H.; Zhang, D.; Zhang, J.; He, P.; Fang, Y. J. Pharma. Biomed. Anal. 2002, 29, 361
52. Record, M. T., Jr.; Anderson, C. F.; Lohman, T. M. Q. Rev. Biophys. 1978, 2, 103
53. Manning, G. S. Biophys. Chem. 2002, 101-102, 461
54. Bishop, G. R.; Chaires, J. B. Curr. Protoc. Nucleic Acid Chem. 2002, 11:7.11.1-7.11.8
55. Baase, W. A.; Johnson, W. C., Jr. Nucleic Acids Res. 1979, 6, 797
56. Dalgleish, D. G.; Fey, G.; Kersten, W. Biopolymers 1974, 13, 1757
57. Garbett, N. C.; Ragazzon, P. A.; Chaires, J. B. Nat. Protoc. 2007, 2, 3166
58. Kano, K.; Konse, T.; Kubota, T. Bull. Chem. Soc. Jpn. 1985, 58, 424
59. Jones, R. L.; Wilson, D. Biopolymers 1981, 20, 141
60. Cline, J.; Braman, J. C.; Hogrefe, H. H. Nucleic Acids Res. 1996, 24, 3546
61. You, Y.; Tataurov, A. V.; Owczarzy, R. Biopolymers 2011, 95, 472