Self-catalyzed site-specific depurination of G residues mediated by cruciform extrusion in closed circular DNA plasmids

Journal of Biological Chemistry

Volumn 286, Issue 42, 2011, Pages 36322-36330

  Amosova, Olga ^a   Kumar, Veena ^a   Deutsch, Aaron ^a   Fresco, Jacques R ^a  

^a PRINCETON UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

APURINIC ENDONUCLEASE; BASE PAIRS; CATALYTIC INTERMEDIATES; DEPURINATION; DNA PLASMIDS; DOUBLE STRANDED DNA; ENDONUCLEASES; HIGHER FREQUENCIES; HOT SPOT; IN-VITRO; IN-VIVO; MUNGBEANS; PCR AMPLIFICATION; PLASMID DNA; PRIMER EXTENSION; RESTRICTION DIGESTION; SELF-CATALYZED; SINGLE-STRANDED DNA; SITE-SPECIFIC; STEM-LOOP; STEM-LOOP STRUCTURES; STRAND BREAKS; SUPERCOILED;

BIOMOLECULES; CATALYSIS; DNA SEQUENCES; EXTRUSION; GENES; POLYMERASE CHAIN REACTION;

DNA;

CIRCULAR DNA; DOUBLE STRANDED DNA; ENDONUCLEASE; ENDONUCLEASE IV; PLASMID DNA; SINGLE STRAND SPECIFIC MUNG BEAN ENDONUCLEASE; SINGLE STRANDED DNA; UNCLASSIFIED DRUG;

ARTICLE; CONTROLLED STUDY; CRUCIFORM EXTRUSION; DNA DAMAGE; DNA SUPERCOILING; IN VITRO STUDY; POLYACRYLAMIDE GEL ELECTROPHORESIS; POLYMERASE CHAIN REACTION; PRIORITY JOURNAL; SELF CATALYZED SITE SPECIFIC DEPURINATION; SINGLE STRANDED DNA BREAK;

CATALYSIS; DNA, CIRCULAR; DNA, CRUCIFORM; GUANINE; NUCLEIC ACID CONFORMATION; PLASMIDS;

VIGNA RADIATA VAR. RADIATA;

EID: 80054686412     PISSN: 00219258     EISSN: 1083351X     Source Type: Journal    
DOI: 10.1074/jbc.M111.272112     Document Type: Article

References (43)

1. De Bont, R., and van Larebeke, N. (2004) Mutagenesis 19, 169-185
2. Lindahl, T., and Nyberg, B. (1972) Biochemistry 11, 3610-3618
3. Loeb, L. A., and Preston, B. D. (1986) Annu. Rev. Genet. 20, 201-230
4. Chakravarti, D., Mailander, P. C., Cavalieri, E. L., and Rogan, E. G. (2000) Mutat. Res. 456, 17-32
5. Guillet, M., and Boiteux, S. (2002) EMBO J. 21, 2833-2841
6. Simonelli, V., Narciso, L., Dogliotti, E., and Fortini, P. (2005) Nucleic Acids Res. 33, 4404-4411
7. Tornaletti, S., Maeda, L. S., and Hanawalt, P. C. (2006) Chem. Res. Toxicol. 19, 1215-1220
8. Boiteux, S., and Guillet, M. (2004) DNA Repair 3, 1-12
9. Amosova, O., Coulter, R., and Fresco, J. R. (2006) Proc. Natl. Acad. Sci. U.S.A. 103, 4392-4397
10. Amosova, O., Smith, A., and Fresco, J. (2011) J. Biol. Chem. 286, 36316-36321
11. Minton, A. P. (2001) J. Biol. Chem. 276, 10577-10580
12. Zheng, K. W., Chen, Z., Hao, Y. H., and Tan, Z. (2010) Nucleic Acids Res. 38, 327-338
13. Dai, X., Greizerstein, M. B., Nadas-Chinni, K., and Rothman-Denes, L. B. (1997) Proc. Natl. Acad. Sci. U.S.A. 94, 2174-2179
14. Dai, X., Kloster, M., and Rothman-Denes, L. B. (1998) J. Mol. Biol. 283, 43-58
15. Kurahashi, H., Inagaki, H., Yamada, K., Ohye, T., Taniguchi, M., Emanuel, B. S., and Toda, T. (2004) J. Biol. Chem. 279, 35377-35383
16. Dayn, A., Malkhosyan, S., Duzhy, D., Lyamichev, V., Panchenko, Y., and Mirkin, S. (1991) J. Bacteriol. 173, 2658-2664
17. Cunningham, L. A., Coté, A. G., Cam-Ozdemir, C., and Lewis, S. M. (2003) Mol. Cell. Biol. 23, 8740-8750
18. Pearson, C. E., Ruiz, M. T., Price, G. B., and Zannis-Hadjopoulos, M. (1994) Biochemistry 33, 14185-14196
19. Alvarez, D., Novac, O., Callejo, M., Ruiz, M. T., Price, G. B., and Zannis-Hadjopoulos, M. (2002) J. Cell. Biochem. 87, 194-207
20. Shlyakhtenko, L. S., Hsieh, P., Grigoriev, M., Potaman, V. N., Sinden, R. R., and Lyubchenko, Y. L. (2000) J. Mol. Biol. 296, 1169-1173
21. Potaman, V. N., Shlyakhtenko, L. S., Oussatcheva, E. A., Lyubchenko, Y. L., and Soldatenkov, V. A. (2005) J. Mol. Biol. 348, 609-615
22. Wright, B. E., Reimers, J. M., Schmidt, K. H., and Reschke, D. K. (2002) Cancer Res. 62, 5641-5644
23. Wright, B. E., Reschke, D. K., Schmidt, K. H., Reimers, J. M., and Knight, W. (2003) Mol. Microbiol. 48, 429-441
24. Havas, K., Flaus, A., Phelan, M., Kingston, R., Wade, P. A., Lilley, D. M., and Owen-Hughes, T. (2000) Cell 103, 1133-1142
25. Chen, Z., and Ruffner, D. E. (1996) BioTechniques 21, 820-822
26. Panyutin, I., Lyamichev, V., and Mirkin, S. (1985) J. Biomol. Struct. Dyn. 2, 1221-1234
27. Sambrook, J., and Maniatis, T. (1989) Molecular Cloning: A Laboratory Manual, Vol. 2, 1-84, Cold Spring Harbor Laboratory, Cold Spring Harbor, NY
28. Sheflin, L. G., and Kowalski, D. (1985) Nucleic Acids Res. 13, 6137-6154
29. Asakura, Y., Kikuchi, Y., and Yanagida, M. (1985) J. Biochem. 98, 41-47
30. Viswanathan, V. K., Krcmarik, K., and Cianciotto, N. P. (1999) BioTechniques 27, 508-511
31. Svoboda, P. (2009) Cold Spring Harb. Protoc. 2009, pdb.ip64
32. Gyllensten, U. B., and Erlich, H. A. (1988) Proc. Natl. Acad. Sci. U.S.A. 85, 7652-7656
33. Pierce, K. E., Sanchez, J. A., Rice, J. E., and Wangh, L. J. (2005) Proc. Natl. Acad. Sci. U.S.A. 102, 8609-8614
34. Inagaki, H., Ohye, T., Kogo, H., Yamada, K., Kowa, H., Shaikh, T. H., Emanuel, B. S., and Kurahashi, H. (2005) Hum. Mutat. 26, 332-342
35. Inagaki, H., Ohye, T., Kogo, H., Kato, T., Bolor, H., Taniguchi, M., Shaikh, T. H., Emanuel, B. S., and Kurahashi, H. (2009) Genome Res. 19, 191-198
36. Kato, T., Inagaki, H., Yamada, K., Kogo, H., Ohye, T., Kowa, H., Nagaoka, K., Taniguchi, M., Emanuel, B. S., and Kurahashi, H. (2006) Science 311, 971
37. Krasilnikov, A. S., Podtelezhnikov, A., Vologodskii, A., and Mirkin, S. M. (1999) J. Mol. Biol. 292, 1149-1160
38. Wright, B. E., Schmidt, K. H., Minnick, M. F., and Davis, N. (2008) Mol. Immunol. 45, 3589-3599
39. Wright, B. E., Schmidt, K., Hunt, A., Lodmell, J. S., Minnick, M. F., and Reschke, D. (2011) Carcinogenesis, in press
40. Kolb, J., Chuzhanova, N. A., Högel, J., Vasquez, K. M., Cooper, D. N., Bacolla, A., and Kehrer-Sawatzki, H. (2009) Chromosome Res. 17, 469-483
41. Zhao, J., Bacolla, A., Wang, G., and Vasquez, K. M. (2010) Cell Mol. Life Sci. 67, 43-62
42. Kokoska, R. J., McCulloch, S. D., and Kunkel, T. A. (2003) J. Biol. Chem. 278, 50537-50545
43. Fresco, J., Amosova, O., Wei, P., Alvarez-Dominguez, J., Glumcher, D., and Torres, R. (2011) in Evolutionary Biology: Concepts, Biodiversity, Macroevolution and Genome Evolution (Pontarotti, P., ed) pp. 3-19, Springer-Verlag, Berlin