Mercury/homocysteine ligation-induced ON/OFF-switching of a T-T mismatch-based oligonucleotide molecular beacon

Analytical Chemistry

Volumn 84, Issue 11, 2012, Pages 4970-4978

  Stobiecka, Magdalena ^a,b   Molinero, Anthony A ^a   Chałupa, Agata ^a   Hepel, Maria ^a  

^a STATE UNIVERSITY OF NEW YORK AT POTSDAM   (United States)

^b WARSAW UNIVERSITY OF LIFE SCIENCES   (Poland)

Author keywords

[No Author keywords available]

Indexed keywords

ANALYTICAL DETERMINATION; BRIDGE FORMATION; CARDIO-VASCULAR DISEASE; CONDITIONAL STABILITY; DNA STRUCTURE; EXPERIMENTAL DATA; FLUOROPHORE-QUENCHER PAIRS; HOMOCYSTEINES; INTERMEDIATE TEMPERATURES; LIMIT OF DETECTION; LOW CONCENTRATIONS; MODEL FITTING; MOLECULAR BEACON; STEM-LOOP;

BINDING ENERGY; MERCURY COMPOUNDS; OLIGONUCLEOTIDES;

IONS;

FLUORESCENT DYE; HOMOCYSTEINE; MERCURY; OLIGONUCLEOTIDE; THYMINE;

ARTICLE; BASE PAIRING; CHEMISTRY; CONFORMATION; INVERTED REPEAT; KINETICS; LIMIT OF DETECTION; MOLECULAR PROBE; NUCLEAR MAGNETIC RESONANCE SPECTROSCOPY; NUCLEIC ACID HYBRIDIZATION; TEMPERATURE; THERMODYNAMICS;

BASE PAIRING; FLUORESCENT DYES; HOMOCYSTEINE; INVERTED REPEAT SEQUENCES; KINETICS; LIMIT OF DETECTION; MAGNETIC RESONANCE SPECTROSCOPY; MERCURY; MOLECULAR PROBES; NUCLEIC ACID CONFORMATION; NUCLEIC ACID HYBRIDIZATION; OLIGONUCLEOTIDES; TEMPERATURE; THERMODYNAMICS; THYMINE;

EID: 84861919440     PISSN: 00032700     EISSN: None     Source Type: Journal    
DOI: 10.1021/ac300632u     Document Type: Article

References (55)

1. Mirkin, C. A.; Letzinger, R. L.; Mucic, R. C.; Storhoff, J. J. Nature 1996, 382, 607-609
2. Nutiu, R.; Li, Y. Methods 2005, 37, 16-25
3. Lee, J.-S.; Ulmann, P. A.; Han, M. S.; Mirkin, C. A. Nano Lett. 2008, 8, 529-533
4. Xu, H.; Hepel, M. Anal. Chem. 2011, 83, 813-819
5. Hepel, M.; Stobiecka, M.; Nowicka, A. In Biosensors and the Environment Health; Hunter, R. J.; Preedy, V. R., Eds.; CRC Press: London, 2012, (in press); ISBN 978-1-57808-735-8.
6. Obraztsov, I.; Noworyta, K.; Kutner, W.; Gadde, S.; D'Souza, F. Phys. Status Solidi B 2007, 244, 3861-3867
7. Galandova, J.; Ovadekova, R.; Ferancova, A.; Labuda, J. Anal. Bioanal. Chem. 2009, 394, 855-861
8. Zhang, J.; Lao, R.; Song, S.; Yan, Z.; Fan, C. Anal. Chem. 2008, 80, 9029-9033
9. Lubin, A. A.; Lai, R. Y.; Baker, B. R.; Heeger, A. J.; Plaxco, K. W. Anal. Chem. 2006, 78, 5671-5677
10. Wei, F.; Wang, J.; Liao, W.; Zimmermann, B. O.; Wong, D. T.; Ho, C. M. Nucleic Acids Res. 2008, 36, e65 1-7
11. Herr, E. A.; Hatch, A. V.; Throckmorton, D. J.; Tran, H. M.; Brennan, J. S.; Giannobile, W. V.; Singh, A. K. Proc. Natl. Acad. Sci. U.S.A. 2007, 104, 5268-5273
12. Miyake, Y.; Togashi, H.; Tashiro, M.; Yamaguchi, H.; Oda, S.; Kudo, M.; Tanaka, Y.; Kondo, Y.; Sawa, R.; Fujimoto, T.; Machinami, T.; Ono, A. J. Am. Chem. Soc. 2006, 128, 2172-2173
13. Torigoe, H.; Ono, A.; Kozasa, T. Chem.-Eur. J. 2010, 16, 13218-13225
14. Urata, H.; Yamaguchi, E.; Funai, T.; Matsumura, Y.; Wada, S. Angew. Chem. 2010, 122, 6666-6669
15. Tan, W.; Fang, X.; Li, J.; Liu, X. Chem.-Eur. J. 2000, 6, 1107-1111
16. Li, J. J.; Fang, X.; Schuster, S. M.; Tan, W. Angew. Chem. 2000, 112, 1091-1094
17. Tan, W.; Wang, K.; Drake, T. J. Curr. Opin. Chem. Biol. 2004, 8, 547-553
18. Goel, G.; Kumar, A.; Puniya, A. K.; Chen, W.; Singh, K. J. Appl. Microbiol. 2005, 99, 435-442
19. Li, Y.; Zhou, X.; Ye, D. Biochem. Biophys. Res. Commun. 2008, 373, 457-461
20. Wang, K.; Tang, Z.; Yang, C. J.; Kim, Y.; Fang, X.; Li, W.; Wu, Y.; Medley, C. D.; Cao, Z.; Li, J.; Colon, P.; Lin, H.; Tan, W. Angew. Chem., Int. Ed. 2008, 47, 2-17
21. Gormally, E.; Vineis, P.; Matullo, G.; Veglia, F.; Carboux, E.; LeRoux, E.; Peluso, M.; Garte, S.; Guarrera, S.; Munnia, A. Cancer Res. 2006, 66, 6871-6876
22. Xue, Y.; An, R.; Zhang, D.; Zhao, J.; Wang, X.; Yang, L.; He, D. Eur. J. Obstet. Gynecol. Reprod. Biol. 2011, 159, 204-208
23. Culha, M.; Stokes, D. L.; Griffin, G. D.; Vo-Dinh, T. Biosens. Bioelectron. 2004, 19, 1007-1012
24. McKillen, J.; Hjertner, B.; Millar, A.; McNeilly, F.; Belak, S. r.; Adair, B.; Allan, G. J. Virol. Methods 2007, 140, 155-165
25. Takacs, T.; Jeney, C.; Kovacs, L.; Mozes, J.; Benczik, M.; Sebe, A. J. Virol. Methods 2008, 149, 153-162
26. Piatek, A. S.; Tyagi, S.; Pol, A. C.; Telenti, A.; Miller, L. P.; Kramer, F. R.; Alland, D. Nat. Biotechnol. 1998, 16, 359-363
27. Wu, J.; Huang, C.; Cheng, G.; Zhang, F.; He, P.; Fang, Y. Electrochem. Commun. 2009, 11, 177-180
28. Kihara, T.; Yoshida, N.; Kitagawa, T.; Nakamura, C.; Nakamura, N.; Miyake, J. Biosens. Bioelectron. 2010, 26, 1449-1454
29. Bratu, D. P.; Cha, B.; Mhlanga, M. M.; Kramer, F. R.; Tyagi, S. Proc. Natl. Acad. Sci. U.S.A. 2003, 100, 13308-13313
30. Tang, Y.; He, F.; Yu, M.; Feng, F.; An, L.; Sun, H.; Wang, S.; Li, Y.; Zhu, D. Macromol. Rapid Commun. 2006, 27, 389-392
31. Knecht, M. R.; Sethi, M. Anal. Bioanal. Chem. 2009, 394, 33-46
32. Torabia, S.-F.; Lu, Y. Faraday Discuss. 2011, 149, 125-135
33. Kiy, M. M.; Jacobi, Z. E.; Liu, J. Chem.-Eur. J. 2012, 18, 1202-1208
34. Ono, A.; Togashi, H. Angew. Chem., Int. Ed. 2004, 43, 4300-4302
35. Chiang, C.-K.; Huang, C.-C.; Liu, C.-W.; Chang, H.-T. Anal. Chem. 2008, 80, 3716-3721
36. Lee, J.-S.; Han., M. S.; Mirkin, C. A. Angew. Chem., Int. Ed. 2007, 46, 4093-4096
37. Stricks, W.; Kolthoff, I. M. J. Am. Chem. Soc. 1953, 75, 5673-5681
38. Cardiano, P.; Falcone, G.; Foti, C.; Sammartano, S. J. Chem. Eng. Data 2011, 56, 4741-4750
39. Liu, X.; Sun, C.; Wu, H.; Zhang, Y.; Jiang, J.; Shen, G.; Yu, R. Electroanalysis 2010, 22, 2110-2116
40. Carasquilla, C.; Li, Y.; Brennan, J. D. Anal. Chem. 2011, 83, 957-965
41. Xiao, Y.; Lubin, A. A.; Baker, B. R.; Plaxco, K. W.; Heeger, A. J. Proc. Natl. Acad. Sci. U.S.A. 2006, 103, 16677-16680
42. Nowicka, A. M.; Kowalczyk, A.; Stojek, Z.; Hepel, M. Biophys. Chem. 2010, 146, 42-53
43. Papadakis, G.; Tsortos, A.; Bender, F.; Ferapontova, E. E.; Gizeli, E. Anal. Chem. 2012, 84, 1854-1861
44. Skládal, P. J. Braz. Chem. Soc. 2003, 14, 491-502
45. Hepel, M. In Interfacial Electrochemistry. Theory, Experiment and Applications; Wieckowski, A., Ed.; Marcel Dekker, Inc.: New York, 1999, pp 599-630.
46. Stobiecka, M.; Hepel, M. Biomaterials 2011, 32, 3312-3321
47. Nygard, O.; Vollset, S. E.; Refsum, H.; Brattstrom, L.; Ueland, P. M. J. Intern. Med. 1999, 246, 425-454
48. Medina, M. A.; Urdiales, J. L.; Amores-Sanchez, M. I. Eur. J. Biochem. 2001, 268, 3871-3882
49. Lao, J. I.; Beyer, K.; Ariza, A. Drug Dev. Res. 2004, 62, 221-230
50. Chamberlain, K. L. J. Am. Acad. Nurse Prac. 2005, 17, 90-95
51. Stobiecka, M.; Deeb, J.; Hepel, M. Biophys. Chem. 2010, 146, 98-107
52. Zalups, R. K.; Barfuss, D. W. J. Am. Soc. Nephrol. 1998, 9, 551-61
53. Zalups, R. K.; Ahmad, S. J. Am. Soc. Nephrol. 2004, 15, 2023-2031
54. Broude, N. E. Trends Biotechnol. 2002, 20, 249-256
55. Kan, L. S.; Li, N. C. J. Am. Chem. Soc. 1970, 92, 4823-4827