A bis-alkylating triplex forming oligonucleotide inhibits intracellular reporter gene expression and prevents triplex unwinding due to helicase activity

Biochemistry

Volumn 42, Issue 17, 2003, Pages 5013-5024

  Ziemba, Amy J ^a   Reed, Michael W ^b   Raney, Kevin D ^c   Byrd, Alicia B ^c   Ebbinghaus, Scot W ^a  

^a UNIVERSITY OF ARIZONA   (United States)

^b Nanogen Inc USA   (United States)

^c UNIVERSITY OF ARKANSAS FOR MEDICAL SCIENCES   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ALKYLATION; ASSAYS; CELLS; DNA SEQUENCES; TUMORS;

OLIGONUCLEOTIDES;

GENETIC ENGINEERING;

CHLORMETHINE; GUANINE; HELICASE; OLIGONUCLEOTIDE; PHENYLACETATE MUSTARD; PHENYLACETIC ACID DERIVATIVE; UNCLASSIFIED DRUG;

ALKYLATION; ARTICLE; CONJUGATION; ENZYME ACTIVITY; ENZYME ASSAY; ENZYME DEGRADATION; ENZYME INHIBITION; GENE EXPRESSION REGULATION; HUMAN; HUMAN CELL; NONHUMAN; ONCOGENE NEU; PLASMID; PRIORITY JOURNAL; PROMOTER REGION; REPORTER GENE; TRANSCRIPTION INITIATION; TRIPLE HELIX;

ALKYLATION; DNA; DNA HELICASES; GENE EXPRESSION REGULATION; GENES, REPORTER; KINETICS; NUCLEIC ACID CONFORMATION; NUCLEIC ACID DENATURATION; OLIGODEOXYRIBONUCLEOTIDES; PLASMIDS; PROMOTER REGIONS (GENETICS); TRANSFECTION;

EID: 0037995432     PISSN: 00062960     EISSN: None     Source Type: Journal    
DOI: 10.1021/bi0273112     Document Type: Article

References (72)

1. Le Doan, T., Perrouault, L., Praseuth, D., Habhoub, N., Decout, J. L., Thuong, N. T., Lhomme, J., and Helene, C. (1987) Nucleic Acids Res. 15, 7749-7760.
2. Moser, H. E., and Dervan, P. B. (1987) Science 238, 645-650.
3. Praseuth, D., Guieysse, A. L., and Helene, C. (1999) Biochim. Biophys. Acta 1489, 181-206.
4. Vasquez, K. M., Narayanan, L., and Glazer, P. M. (2000) Science 290, 530-533.
5. Cooney, M., Czernuszewicz, G., Postel, E. H., Flint, S. J., and Hogan, M. E. (1988) Science 241, 456-459.
6. Durland, R. H., Kessler, D. J., Gunnell, S., Duvic, M., Pettitt, B. M., and Hogan, M. E. (1991) Biochemistry 30, 9246-9255.
7. Mouscadet, J. F., Carteau, S., Goulaouic, H., Subra, F., and Auclair, C. (1994) J. Biol. Chem. 269, 21635-21638.
8. Ebbinghaus, S. W., Fortinberry, H., and Gamper, H. B., Jr. (1999) Biochemistry 38, 619-628.
9. Ebbinghaus, S. W., Gee, J. E., Rodu, B., Mayfield, C. A., Sanders, G., and Miller, D. M. (1993) J. Clin. Invest. 92, 2433-2439.
10. Jardines, L., Weiss, M., Fowble, B., and Greene, M. (1993) Pathobiology 61, 268-282.
11. Kern, J. A., Schwartz, D. A., Nordberg, J. E., Weiner, D. B., Greene, M. I., Torney, L., and Robinson, R. A. (1990) Cancer Res. 50, 5184-5187.
12. Yu, D., Wang, S. S., Dulski, K. M., Tsai, C. M., Nicolson, G. L., and Hung, M. C. (1994) Cancer Res. 54, 3260-3266.
13. Agus, D. B., Bunn, P. A., Jr., Franklin, W., Garcia, M., and Ozols, R. F. (2000) Semin. Oncol. 27, 53-63.
14. Meric, F., Hung, M. C., Hortobagyi, G. N., and Hunt, K. K. (2002) J Am. Coll. Surg. 194, 488-501.
15. Noonberg, S. B., Scott, G. K., Hunt, C. A., Hogan, M. E., and Benz, C. C. (1994) Gene 149, 123-126.
16. Barre, F. X., Ait-Si-Ali, S., Giovannangeli, C., Luis, R., Robin, P., Pritchard, L. L., Helene, C., and Harel-Bellan, A. (2000) Proc. Natl. Acad. Sci. U.S.A. 97, 3084-3088.
17. Wang, G., Seidman, M. M., and Glazer, P. M. (1996) Science 271, 802-805.
18. Guieysse, A. L., Praseuth, D., Grigoriev, M., Harel-Bellan, A., and Helene, C. (1996) Nucleic Acids Res. 24, 4210-4216.
19. Grigoriev, M., Praseuth, D., Guieysse, A. L., Robin, P., Thuong, N. T., Helene, C., and Harel-Bellan, A. (1993) Proc Natl. Acad. Sci. U.S.A. 90, 3501-3505.
20. Ing, N. H., Beekman, J. M., Kessler, D. J., Murphy, M., Jayaraman, K., Zendegui, J. G., Hogan, M. E., O'Malley, B. W., and Tsai, M. J. (1993) Nucleic Acids Res. 21, 2789-2796.
21. Giovannangeli, C., Diviacco, S., Labrousse, V., Gryaznov, S., Charneau, P., and Helene, C. (1997) Proc. Natl. Acad. Sci. U.S.A. 94, 79-84.
22. Besch, R., Giovannangeli, C., Kammerbauer, C., and Degitz, K. (2002) J. Biol. Chem. 277, 32473-32479.
23. Guieysse, A. L., Praseuth, D., Giovannangeli, C., Asseline, U., and Helene, C. (2000) J. Mol. Biol. 296, 373-383.
24. Diviacco, S., Rapozzi, V., Xodo, L., Helene, C., Quadrifoglio, F., and Giovannangeli, C. (2001) FASEB J. 15, 2660-2668.
25. Kutyavin, I. V., Gamper, H. B., Gall, A. A., and Meyer, R. B. (1993) J. Am. Chem. Soc. 115, 9303-9304.
26. Reed, M. W., Lukhtanov, E. A., Gorn, V. V., Kutyavin, I. V., Gall, A. A., Wald, A., and Meyer, R. B. (1998) Bioconjug. Chem. 9, 64-71.
27. Vlassov, V. V., Gaidamakov, S. A., Zarytova, V. F., Knorre, D. G., Levina, A. S., Nikonova, A. A., Podust, L. M., and Fedorova, O. S. (1988) Gene 72, 313-322.
28. Brossalina, E. B., Demchenko, E. N., Vlassov, V. V., and Mamaev, S. V. (1991) Antisense Res. Dev. 1, 229-242.
29. Lampe, J. N., Kutyavin, I. V., Rhinehart, R., Reed, M. W., Meyer, R. B., and Gamper, H. B., Jr. (1997) Nucleic Acids Res. 25, 4123-4131.
30. Struck, R. F., Davis, R. L., Jr., Berardini, M. D., and Loechler, E. L. (2000) Cancer Chemother. Pharmacol. 45, 59-62.
31. Millard, J. T., Luedtke, N. W., and Spencer, R. J. (1996) Anticancer Drug Des. 11, 485-492.
32. Bauer, G. B., and Povirk, L. F. (1997) Nucleic Acids Res. 25, 1211-1218.
33. Povirk, L. F., and Shuker, D. E. (1994) Mutat. Res. 318, 205-226.
34. Reed, M. W., Wald, A., and Meyer, R. B. (1998) J. Am. Chem. Soc. 120, 9729-9734.
35. Ziemba, A., Derosier, L. C., Methvin, R., Song, C. Y., Clary, E., Kahn, W., Milesi, D., Gorn, V., Reed, M., and Ebbinghaus, S. (2001) Nucleic Acids Res. 29, 4257-4263.
36. Sandor, Z., and Bredberg, A. (1995) FEBS Lett. 374, 287-291.
37. Vasquez, K. M., Christensen, J., Li, L., Finch, R. A., and Glazer, P. M. (2002) Proc. Natl Acad. Sci. U.S.A. 99, 5848-5853.
38. Salmelin, C., Hovinen, J., and Vilpo, J. (2000) Mutat. Res. 467, 129-138.
39. McHugh, P. J., Gill, R. D., Waters, R., and Hartley, J. A. (1999) Nucleic Acids Res. 27, 3259-3266.
40. Brooks, N., McHugh, P. J., Lee, M., and Hartley, J. A. (1999) Anticancer Drug Des. 14, 11-18.
41. Masta, A., Gray, P. J., and Phillips, D. R. (1994) Nucleic Acids Res. 22, 3880-3886.
42. Eder, P. S., DeVine, R. J., Dagle, J. M., and Walder, J. A. (1991) Antisense Res. Dev. 1, 141-151.
43. Fisher, T. L., Terhorst, T., Cao, X., and Wagner, R. W. (1993) Nucleic Acids Res. 21, 3857-3865.
44. Basye, J., Trent, J. O., Gao, D., and Ebbinghaus, S. W. (2001) Nucleic Acids Res. 29, 4873-4880.
45. Sambrook, J. and Russell, D. W. (2001) in Molecular Cloning, A Laboratory Manual, Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY.
46. Maine, I. P., and Kodadek, T. (1994) Biochem. Biophys. Res. Commun. 204, 1119-1124.
47. Raney, K. D., and Benkovic, S. J. (1995) J. Biol. Chem. 270, 22236-22242.
48. Hacker, K. J., and Alberts, B. M. (1992) J. Biol. Chem. 267, 20674-20681.
49. Wood, R. D., Robins, P., and Lindahl, T. (1988) Cell 53, 97-106.
50. Schneider, P. M., Hung, M. C., Chiocca, S. M., Manning, J., Zhao, X. Y., Fang, K., and Roth, J. A. (1989) Cancer Res. 49, 4968-4971.
51. Tackett, A. J., Morris, P. D., Dennis, R., Goodwin, T. E., and Raney, K. D. (2001) Biochemistry 40, 543-548.
52. Kopel, V., Pozner, A., Baran, N., and Manor, H. (1996) Nucleic Acids Res. 24, 330-335.
53. Brosh, R. M., Jr., Majumdar, A., Desai, S., Hickson, I. D., Bohr, V. A., and Seidman, M. M. (2001) J. Biol. Chem. 276, 3024-3030.
54. Kamath-Loeb, A. S., Loeb, L. A., Johansson, E., Burgers, P. M., and Fry, M. (2001) J. Biol. Chem. 276, 16439-16446.
55. Peleg, M., Kopel, V., Borowiec, J. A., and Manor, H. (1995) Nucleic Acids Res. 23, 1292-1299.
56. Taneja, P., Gu, J., Peng, R., Carrick, R., Uchiumi, F., Ott, R. D., Gustafson, E., Podust, V. N., and Fanning, E. (2002) J. Biol. Chem. 277, 40853-40861.
57. Morris, P. D., Tackett, A. J., and Raney, K. D. (2001) Methods 23, 149-159.
58. Lebedeva, I., and Stein, C. A. (2001) Annu. Rev. Pharmacol. Toxicol. 41, 403-419.
59. Puvvada, M. S., Forrow, S. A., Hartley, J. A., Stephenson, P., Gibson, I., Jenkins, T. C., and Thurston, D. E. (1997) Biochemistry 36, 2478-2484.
60. Lukhtanov, E. A., Mills, A. G., Kutyavin, I. V., Gorn, V. V., Reed, M. W., and Meyer, R. B. (1997) Nucleic Acids Res. 25, 5077-5084.
61. Hurley, L. H. (1994) IARC Sci. Publ. 295-312.
62. Morris, P. D., and Raney, K. D. (1999) Biochemistry 38, 5164-5171.
63. Morris, P. D., Byrd, A. K., Tackett, A. J., Cameron, C. E., Tanega, P., Ott, R., Fanning, E., and Raney, K. D. (2002) Biochemistry 41, 2372-2378.
64. Maine, I. P., Sun, D., Hurley, L. H., and Kodadek, T. (1992) Biochemistry 31, 3968-3975.
65. Scott, G. K., Daniel, J. C., Xiong, X., Maki, R. A., Kabat, D., and Benz, C. C. (1994) J Biol. Chem. 269, 19848-19858.
66. Mizuguchi, G., Kanei-Ishii, C., Sawazaki, T., Horikoshi, M., Roeder, R. G., Yamamoto, T., and Ishii, S. (1994) FEBS Lett. 348, 80-88.
67. Kumar, R., Shepard, H. M., and Mendelsohn, J. (1991) Mol. Cell Biol. 11, 979-986.
68. Sliwkowski, M. X., Lofgren, J. A., Lewis, G. D., Hotaling, T. E., Fendly, B. M., and Fox, J. A. (1999) Semin. Oncol. 26, 60-70.
69. Sedelnikova, O. A., Luu, A. N., Karamychev, V. N., Panyutin, I. G., and Neumann, R. D. (2001) Int. J. Radiat. Oncol. Biol. Phys. 49, 391-396.
70. Macris, M. A., and Glazer, P. M. (2003) J. Biol. Chem. 278, 3357-3362.
71. Sedelnikova, O. A., Panyutin, I. G., Luu, A. N., Reed, M. W., Licht, T., Gottesman, M. M., and Neumann, R. D. (2000) Antisense Nucleic Acid Drug Dev. 10, 443-452.
72. Ebbinghaus, S. W., Vigneswaran, N., Mayfield, C. A., Curiel, D. T., and Miller, D. M. (1999) in Triple Helix Forming Oligonucleotides (Malvy, C., Harel-Bellan, A., and Pritchard, L. L., Eds.) pp 117-127, Kluwer Academic Publishers, Boston.