The influence of single base changes on UV mutational activity at two translocated hotspots

Journal of Molecular Biology

Volumn 255, Issue 3, 1996, Pages 435-445

  Levy, Dan D ^a   Magee, Ashalla D ^a   Namiki, Chihiro ^a   Seidman, Michael M ^b  

^a NATIONAL CANCER INSTITUTE   (United States)

^b Oncor Inc   (United States)

Author keywords

Mutation hotspots; Sequence context

Indexed keywords

DNA; TRANSFER RNA;

ARTICLE; CONTROLLED STUDY; DNA SEQUENCE; HUMAN; HUMAN CELL; MARKER GENE; NONHUMAN; NUCLEIC ACID BASE SUBSTITUTION; PRIORITY JOURNAL; RADIATION MUTAGENESIS; RNA GENE; ULTRAVIOLET RADIATION;

EID: 0029928201     PISSN: 00222836     EISSN: None     Source Type: Journal    
DOI: 10.1006/jmbi.1996.0036     Document Type: Article

References (51)

1. Abbotts, J., Bebenek, K., Kunkel, T. A. & Wilson, S. H. (1993). Mechanism of HIV-1 reverse transcriptase: termination of processive synthesis on a natural DNA template is influenced by the sequence of the primer template stem. J. Biol. Chem. 268, 10312-10323.
2. Allen, D. J., Darke, P. L. & Benkovic, S. J. (1989). Fluorescent oligonucleotides and deoxy nucleotide triphosphates: preparation and their interaction with the large Klenow fragment of E. coli DNA polymerase. Biochemistry, 28, 4601-4607.
3. Belguise-Valladier, P. & Fuchs, R. P. P. (1995). N-2 aminofluorene and N-2 acetylaminofluorene adducts: the local sequence context of an adduct and its chemical structure determine its replication properties. J. Mol. Biol. 249, 903-913.
4. Benzer, S. (1961). On the topography of the genetic fine structure. Proc. Natl Acad. Sci. USA, 47, 403-416.
5. Brash, D. E. (1988). Quantitating DNA lesions at the DNA sequence level. In DNA Repair Methods: A Laboratory Manual of Research Procedures (Friedberg, E. C. & Hanawalt, P. C., eds), vol. 3, pp. 327-345, Marcel Dekker, Inc., NY, US.
6. Brash, D. E. & Haseltine, W. A. (1982). UV mutation hotspots occur at DNA damage hotspots. Nature, 298, 189-192.
7. Brash, D. E., Seetharam, S. S., Kraemer, K. H., Seidman, M. M. & Bredberg, A. (1987). Photoproduct frequency is not the major determinant of UV base substitution hotspots or coldspots in human cells. Proc. Natl Acad. Sci. USA, 84, 3782-3786.
8. Bredberg, A., Kraemer, K. H. & Seidman, M. M. (1986). Restricted mutational spectrum in an UV treated shuttle vector propagated in Xeroderma pigmentosum cells. Proc. Natl Acad. Sci. USA, 83, 8273-8277.
9. Burnouf, D., Koehl, P. & Fuchs, P. P. (1989). Single adduct mutagenesis: strong effect of the position of a single acetylaminofluorene adduct within a mutation hotspot. Proc. Natl Acad. Sci. USA, 86, 4147-4151.
10. Cariello, N. F. & Skopek, T. R. (1993). Analysis of mutations occurring at the human hprt locus. J. Mol. Biol. 231, 41-57.
11. Coulondre, C. & Miller, J. H. (1977). Genetic studies of the lac repressor. IV. Mutagenic specificity in the lad gene of E. coli. J. Mol. Biol. 117, 577-606.
12. Evans, J. M., Maccabee, M., Hatahet, Z., Courcelle, J., Bockrath, R., Ide, H. & Wallace, S. (1993a). Thymine ring saturation and fragmentation products: lesion bypass, misinsertion and implications for mutagenesis. Mutat. Res. 299, 147-156.
13. Evans, M. K., Taffe, B. G., Harris, C. C. & Bohr, V. A. (1993b). DNA strand bias in the repair of the p53 gene in normal human and Xeroderma pigmentosum group C fibroblasts. Cancer Res. 53, 5377-5381.
14. Fuchs, R. P. P. (1984). DNA binding spectrum of the carcinogen N-acetoxy acetyl amino fluorene significantly differs from the mutation spectrum. J. Mol. Biol. 177, 173-180.
15. Gentil, A., Cabral-Neto, J. B., Mariage-Samson, R., Margot, A., Imbach, J. L., Rayner, B. & Sarasin, A. (1992). Mutagenicity of a unique apurinic/apyrimidinic site in mammalian cells. J. Mol. Biol. 227, 981-984.
16. Hanawalt, P. C. (1991). Heterogeneity of repair at the gene level. Mutat. Res. 247, 203-211.
17. Hauser, J., Seidman, M. M., Sidur, K. & Dixon, K. (1986). Sequence specificity of point mutations induced during passage of a UV radiated shuttle vector plasmid in monkey cells. Mol. Cell. Biol. 6, 277-285.
18. Horsfall, M. J. & Lawrence, C. W. (1994). Accuracy of replication past the T-c (6-4) adduct. J. Mol. Biol. 235, 465-471.
19. Joyce, C. M. & Steitz, T. A. (1994). Function and structure relationships in DNA polymerases. Annu. Rev. Biochem. 63, 777-822.
20. Kleina, L. G., Masson, J. M., Normanly J., Abelson, J. & Miller, J. (1990). Constructions of Escherichia coli amber suppressor tRNA genes. J. Mol. Biol. 213, 705-717.
21. Koch, K. E. (1971). The influence of neighboring base-pairs upon base-pair substitution mutation rates. Proc. Natl Acad. Sci. USA, 68, 773-776.
22. Kraeme, K. H. & Seidman, M. M. (1989). Use of supF, an E. coli suppressor tRNA gene, as a mutagenic target in shuttle vector plasmids. Mutat. Res. 220, 61-72.
23. Kunala, S. & Brash, D. E. (1992). Excision repair at individual bases of the Escherichia coli lacI gene: relation to mutation hotspots and transcription coupling activity. Proc. Natl. Acad. Sci. USA, 89, 11031-11035.
24. Kunkel, T. A. (1992). Biological asymmetries and the fidelity of eukaryotic DNA replication. Bioessays, 14, 303-308.
25. Kunkel, T. A. & Soni, A. (1988). Mutagenesis by transient alignment. J. Biol. Chem. 263, 14784-14789.
26. Kunz, B. A., Pierce, M. K., Mis, J. R. A. & Giroux, C. N. (1987). DNA sequence analysis of mutational specificity of UV light in the SUP 4-0 gene of yeast. Mutagenesis, 2, 445-453.
27. 6 is dependent on both the chirality of the lesion and the local sequence context. J. Biol. Chem. 268, 23427-23434.
28. Lee, C. P., Dyson, M. R., Mandel, N., Varshney U., Bahramian, B. & RajBhandary U. (1992). Striking effects of coupling mutations in the acceptor stem on recognition of tRNAs by Escherichia coli. Met-tRNA synthetase and the Met tRNA transformylase. Proc. Natl Acad. Sci. USA, 89, 9262-9266.
29. 6 methyl guanine built into a unique site in a viral genome. Proc. Natl Acad Sci. USA, 81, 6271-6275.
30. Maccabee, M., Evans, J. S., Glackin, M. P., Hatahet, Z. & Wallace, S. S. (1994). Pyrimidine ring fragmentation products. Effects of lesion structure and sequence context on mutagenesis. J. Mol. Biol. 236, 514-530.
31. Phe. J. Mol. Biol. 202, 697-709.
32. McGregor, W. G., Chen, R. H., Lukash, L., Maher, V. M. & McCormick, J. J. (1991). Cell cycle dependent strand bias for UV induced mutations in the transcribed strand of excision repair proficient human fibroblasts but not in repair deficient cells. Mol. Cell. Biol. 11, 1927-1934.
33. Mitchell, D. L., Jen, J. & Cleaver, J. E. (1992). Sequence specificity of cyclobutane pyrimidine dimers in DNA treated with solar (ultraviolet B) radiation. Nucl. Acids Res. 20, 225-229.
34. Papanicolaou, C. & Ripley L. S. (1991). An in vitro approach to identifying sequence determinants of mutagenesis mediated by DNA misalignments. J. Mol. Biol. 221, 805-821.
35. Park, C. H. & Sancar, A. (1994). Formation of a ternary complex by human XPA, ERCC1, and ERCC(XPF) DNA repair proteins. Proc. Natl Acad. Sci. USA, 91, 5017-5021.
36. Parris, C. N. & Seidman, M. M. (1992). A signature element distinguishes sibling and independent mutations in a shuttle vector plasmid. Gene, 117, 1-5.
37. Parris, C. N., Levy D. D., Jessee, J. & Seidman, M. M. (1994). Proximal and distal effects of sequence context of ultraviolet mutational hotspots in a shuttle vector replicated in Xeroderma cells. J. Mol. Biol. 236, 491-502.
38. Pelletier, H., Sawya, M. R., Kumar, A., Wilson, S. H. & Kraut, J. (1994). Structures of ternary complexes of rat DNA polymerase beta, a DNA template-primer, and ddCTP. Science, 264, 1891-1903.
39. Sage, E. (1993). Distribution and repair of photolesions in DNA: genetic consequences and the role of sequence context. Photochem. Photobiol. 57, 163-174.
40. Seidman, M. M., Dixon, K., Razzaque, A., Zagursky R. J. & Berman, M. L. (1985). A shuttle vector plasmid for studying carcinogen induced point mutations in mammalian cells. Gene, 38, 233-237.
41. Shibutani, S. & Grollman, A. P. (1993). On the mechanism of frameshift (deletion) mutagenesis in vitro. J. Biol. Chem. 268, 11703-11710.
42. Streisinger, G., Okada, Y., Emrich, J., Newton, J., Tsugita, A., Terzaghi, E. & Inouye, M. (1966). Frameshift mutations and the genetic code. Cold Spring Harbor Symp. Quant. Biol. 31, 77-84.
43. Sugino, A. & Drake, J. W. (1984). Modulation of mutation rates in bacteriophage T4 by a base-pair change a dozen nucleotides removed. J. Mol. Biol. 176, 239-249.
44. Svärd, S. G. & Kirsebom, L. A. (1992). Several regions of a tRNA precursor determine the Escherichia coli RNAse P cleavage site. J. Mol. Biol. 227, 1019-1031.
45. Tarone, R. (1989). Testing for non-randomness of events in sparse data situations. Ann. Hum. Genet. 53, 381-387.
46. Tornaletti, S. & Pfeifer, G. P. (1994). Slow repair of pyrimidine dimers at p53 mutation hotspots in skin cancer. Science, 263, 1436-1438.
47. Trinh, T. Q. & Sinden, R. R. (1991). Preferential DNA secondary structure mutagenesis in the lagging strand of replication in E. coli. Nature, 352, 544-547.
48. Wang, C. I. & Taylor, J.-S. (1992). In vitro evidence that UV induced frameshift and substitution mutations at T tracts are the result of misalignment mediated replication past a specific thymine dimer. Biochemistry, 31, 3671-3681.
49. Wang, F. J. & Ripley L. S. (1994). DNA sequence effects on single base deletions arising during DNA polymerization in vitro by E. coli klenow fragment polymerase. Genetics, 136, 709-719.
50. Wang, G., Levy, L. L., Seidman, M. M. & Glazer, P. (1995). Targeted mutagenesis mediated by triple helix formation. Mol. Cell. Biol. 15, 1759-1768.
51. Wei, D., Maher, V. M. & McCormick, J. J. (1995). Site specific rates of excision repair of benzo[a]pyrene diol epoxide adducts in the hypoxanthine phosphoribosyltransferase gene of human fibroblasts: correlation with mutation spectra. Proc. Natl Acad. Sci. USA, 92, 2204-2208.