Mass spectrometry and ion mobility spectrometry of G-quadruplexes. A study of solvent effects on dimer formation and structural transitions in the telomeric DNA sequence d(TAGGGTTAGGGT)

Methods

Volumn 57, Issue 1, 2012, Pages 56-63

  Ferreira, Rubén ^a   Marchand, Adrien ^b   Gabelica, Valérie ^b  

^a INSTITUTE FOR RESEARCH IN BIOMEDICINE   (Spain)

^b UNIVERSITY OF LIÈGE   (Belgium)

Author keywords

DNA; Folding; G quadruplex; Ion mobility spectrometry; Mass spectrometry; Solvent

Indexed keywords

2 PROPANOL; ACETONITRILE; ALCOHOL; AMMONIA; DIMER; DNA; GUANINE QUADRUPLEX; METHANOL; SOLVENT;

ARTICLE; CHEMICAL STRUCTURE; CIRCULAR DICHROISM; DILUTION; DIMERIZATION; DNA SEQUENCE; ELECTROSPRAY; ELECTROSPRAY MASS SPECTROMETRY; GAS; ION MOBILITY SPECTROMETRY; MASS SPECTROMETRY; PHASE TRANSITION; PRIORITY JOURNAL; STOICHIOMETRY; TELOMERE;

BASE SEQUENCE; CIRCULAR DICHROISM; DNA; G-QUADRUPLEXES; NUCLEIC ACID CONFORMATION; SOLVENTS; SPECTROMETRY, MASS, ELECTROSPRAY IONIZATION; TELOMERE;

EID: 84865068471     PISSN: 10462023     EISSN: 10959130     Source Type: Journal    
DOI: 10.1016/j.ymeth.2012.03.021     Document Type: Article

References (50)

1. Loo J.A. Mass Spectrom. Rev. 1997, 16:1-23.
2. Smith R.D., Bruce J.E., Wu Q., Lei Q.P. Chem. Soc. Rev. 1997, 26:191-202.
3. Heck A.J.R., Van Den Heuvel R.H.H. Mass Spectrom. Rev. 2004, 23:368-389.
4. Breuker K., McLafferty F.W. Proc. Natl. Acad. Sci. USA 2008, 105:18145-18152.
5. Rueda M., Luque F.J., Orozco M. J. Am. Chem. Soc. 2006, 128:3608-3619.
6. Sponer J., Spackova N. Methods 2007, 43:278-290.
7. Fadrna E., Spackova N., Stefl R., Koca J., Cheatham T.E., Sponer J. Biophys. J. 2004, 87:227-242.
8. Yuan G., Zhang Q., Zhou J., Li H. Mass Spectrom. Rev. 2011, 30:1121-1142.
9. Brodbelt J.S. Annu. Rev. Anal. Chem. 2010, 3:67-87.
10. Rosu F., De Pauw E., Gabelica V. Biochimie 2008, 90:1074-1087.
11. Phan A.-T., Patel D.J. J. Am. Chem. Soc. 2003, 125:15021-15027.
12. Parkinson G.N., Lee M.P.H., Neidle S. Nature 2002, 417:876-880.
13. Collie G.W., Parkinson G.N., Neidle S., Rosu F., De Pauw E., Gabelica V. J. Am. Chem. Soc. 2010, 132:9328-9334.
14. Baker E.S., Bernstein S.L., Gabelica V., De Pauw E., Bowers M.T. Int. J. Mass Spectrom. 2006, 253:225-237.
15. Miyoshi D., Karimata H., Sugimoto N. Angew. Chem. Int. Ed. 2005, 44:3740-3744.
16. Xue Y., Kan Z.Y., Wang Q., Yao Y., Liu J., Hao Y.H., Tan Z. J. Am. Chem. Soc. 2007, 129:11185-11191.
17. Miyoshi D., Nakamura K., Tateishi-Karimata H., Ohmichi T., Sugimoto N. J. Am. Chem. Soc. 2009, 131:3522-3531.
18. Miyoshi D., Karimata H., Sugimoto N. J. Am. Chem. Soc. 2006, 128:7957-7963.
19. Vorlickova M., Bednarova K., Kypr J. Biopolymers 2006, 82:253-260.
20. Heddi B., Phan A.T. J. Am. Chem. Soc. 2011, 133:9824-9833.
21. Miller M.C., Buscaglia R., Chaires J.B., Lane A.N., Trent J.O. Hydration is a major determinant of the G-quadruplex stability and conformation of the human telomere 3' sequence of d(AG(3)(TTAG(3))(3)). J. Am. Chem. Soc. 2010, 132:17105-17107.
22. Rosu F., Gabelica V., Joly L., Gregoire G., De Pauw E. Phys. Chem. Chem. Phys. 2010, 12:13448-13454.
23. Gabelica V., De Pauw E., Rosu F. J. Mass Spectrom. 1999, 34:1328-1337.
24. Turner K.B., Monti S.A., Fabris D. J. Am. Chem. Soc. 2008, 130:13353-13363.
25. Evans S.E., Mendez M.A., Turner K.B., Keating L.R., Grimes R.T., Melchoir S., Szalai V.A. J. Biol. Inorg. Chem. 2007, 12:1235-1249.
26. David W.M., Brodbelt J., Kerwin S.M., Thomas P.W. Anal. Chem. 2002, 74:2029-2033.
27. Liu Y., Zheng B., Xu X., Yuan G. Rapid Commun. Mass Spectrom. 2010, 24:3072-3075.
28. Li H., Yuan G., Du D. J. Am. Soc. Mass Spectrom. 2008, 19:550-559.
29. Vairamani M., Gross M.L. J. Am. Chem. Soc. 2003, 125:42-43.
30. Pierce S.E., Sherman C.L., Jayawickramarajah J., Lawrence C.M., Sessler J.L., Brodbelt J.S. Anal. Chim. Acta 2008, 627:129-135.
31. Bai L.P., Hagihara M., Jiang Z.H., Nakatani K. Chem. Bio. Chem. 2008, 9:2583-2587.
32. Datta B., Bier M.E., Roy S., Armitage B. J. Am. Chem. Soc. 2005, 127:4199-4207.
33. Gidden J., Baker E.S., Ferzoco A., Bowers M.T. Int. J. Mass Spectrom. 2004, 240:183-193.
34. Krishnan-Ghosh Y., Liu D.S., Balasubramanian S. J. Am. Chem. Soc. 2004, 126:11009-11016.
35. Gornall K.C., Samosorn S., Tanwirat B., Suksamrarn A., Bremner J.B., Kelso M.J., Beck J.L. Chem. Commun. 2010, 46:6602-6604.
36. Li W., Zhang M., Zhang J.L., Li H.Q., Zhang X.C., Sun Q., Qiu C.M. FEBS Lett. 2006, 580:4905-4910.
37. Porter K.C., Beck J.L. Int. J. Mass Spectrom. 2011, 304:195-203.
38. Gabelica V. Methods Mol. Biol. 2010, 613:89-101.
39. Rosu F., Gabelica V., Poncelet H., De Pauw E. Nucleic Acids Res. 2010, 38:5217-5225.
40. Cech N.B., Enke C.G. Mass Spectrom. Rev. 2001, 20:362-387.
41. Gabelica V., Galic N., Rosu F., Houssier C., De Pauw E. J. Mass Spectrom. 2003, 38:491-501.
42. Kuprowski M.C., Konermann L. Anal. Chem. 2007, 79:2499-2506.
43. Mathur S., Badertscher M., Scott M., Zenobi R. Phys. Chem. Chem. Phys. 2007, 9:6187-6198.
44. Wilcox J.M., Rempel D.L., Gross M.L. Anal. Chem. 2008, 80:2365-2371.
45. Jecklin M.C., Touboul D., Bovet C., Wortmann A., Zenobi R. J. Am. Soc. Mass Spectrom. 2008, 19:332-343.
46. Gabelica V., Rosu F., De Pauw E. Anal. Chem. 2009, 81:6708-6715.
47. Masiero S., Trotta R., Pieraccini S., De T.S., Perone R., Randazzo A., Spada G.P. Org. Biomol. Chem. 2010, 8:2683-2692.
48. Vékey K. J. Mass Spectrom. 1996, 31:445-463.
49. McLuckey S.A. J. Am. Soc. Mass Spectrom. 1991, 3:599-614.
50. Gabelica V., De Pauw E. Mass Spectrom. Rev. 2005, 24:566-587.