Alu-mediated detection of DNA damage in the human genome

Mutation Research - DNA Repair

Volumn 385, Issue 1, 1997, Pages 31-39

  Englander, Ella W ^a   Howard, Bruce H ^a  

^a EUNICE KENNEDY SHRIVER NATIONAL INSTITUTE OF CHILD HEALTH AND HUMAN DEVELOPMENT   (United States)

Author keywords

Alu repeat; DNA damage; Genomic integrity; PCR; UV photoproduct

Indexed keywords

DNA POLYMERASE; PLASMID DNA;

DNA DAMAGE; DNA REPAIR; DNA SYNTHESIS; FIBROBLAST CULTURE; GENOME; HUMAN; HUMAN CELL; PLASMID; POLYMERASE CHAIN REACTION; PRIORITY JOURNAL; SHORT SURVEY; ULTRAVIOLET IRRADIATION;

EID: 0030723214     PISSN: 09218777     EISSN: None     Source Type: Journal    
DOI: 10.1016/S0921-8777(97)00036-0     Document Type: Review

References (32)

1. E.C. Friedberg, G.C. Walker, W. Siede, DNA Repair and Mutagenesis, ASM Press, Washington DC, 1995.
2. G.P. Pfeifer (Ed.), Technologies for Detection of DNA Damage and Mutations, Plenum Press, New York, 1996.
3. Mitchel D.L., Jen J., Cleaver J.E. Sequence specificity of cyclobutane pyrimidine dimers in DNA treated with solar (ultraviolet B) radiation. Nucleic Acids Res. 20:1992;225-229.
4. Fisher G.J., Datta S.C., Talwar H.S., Wang Z., Voorhees J.J. Molecular basis of sun-induced premature skin ageing and retinoid antagonism. Nature. 379:1996;335-339.
5. Zhen W., Evans K.M., Haggerty M.C., Bohr A.V. Deficient gene specific repair of cisplatin-induced lesions in xeroderma pigmentosum and Fanconi's anemia cell lines. Carcinogenesis. 14:1993;919-924.
6. P. Deininger, SINEs: short interspersed repeated DNA elements in higher eucaryotes, in: D.E. Berg, M.M. Howe (Eds.), Mobile DNA, American Society for Microbiology, Washington, DC, 1989, pp. 619-636.
7. Schmid C., Maraia R. Transcriptional regulation and transpositional selection of active SINE sequences. Curr. Opin. Genet. Devel. 2:1992;874-882.
8. Schmid C.W. Alu: structure, origin, significance and function of one-tenth of human DNA. Progr. Nucleic Acid Res. Mol. Biol. 95:1996;283-319.
9. Englander E.W., Wolffe A.P., Howard B.H. Nucleosome interactions with a human Alu element transcriptional repression and effects of template methylation. J. Biol. Chem. 268:1993;19565-19573.
10. Englander E.W., Howard B.H. A naturally occurring T14A11 tract blocks nucleosome formation over the human neurofibromatosis type 1 (NF1)-Alu element. J. Biol. Chem. 271:1996;5819-5893.
11. Englander E.W., Howard B.H. Nucleosome positioning by human Alu elements in chromatin. J. Biol. Chem. 270:1995;10091-10096.
12. Humphrey G.W., Englander E.W., Howard B.H. Specific binding sites for a pol III transcriptional repressor and pol II transcription factor YY1 within the internucleosomal spacer region in primate Alu repetitive elements. Gene Expr. 6:1996;151-168.
13. Axelrod J.D., Majors J. An improved method for photofootprinting yeast genes in vivo using Taq polymerase. Nucleic Acids Res. 17:1989;171-183.
14. Govan L.H. III, Yadria V.-A., Braun J. Fine-mapping of DNA damage and repair in specific genomic segments. Nucleic Acids Res. 18:1990;3823-3830.
15. Kalinowski D.P., Illenye S., Houten B.V. Analysis of DNA damage and repair in murine leukemia L1210 cells using quantitative polymerase chain reaction assay. Nucleic Acids Res. 20:1992;3485-3494.
16. Chandrasekhar D., Houten B.V. High resolution mapping of UV-induced photoproducts in the E. coli lacI gene. J. Mol. Biol. 238:1994;319-332.
17. Wellinger R.-E., Thoma F. Taq DNA polymerase blockage at pyrimidine dimers. Nucleic Acids Res. 24:1996;1578-1579.
18. Evans M.K., Robbins J.H., Ganges M.B., Tarone R.E., Nairn R.S., Bohr V.A. Gene-specific DNA repair in xeroderma pigmentosum complementation groups A, C, D and F. J. Biol. Chem. 268:1993;4839-4847.
19. Larminat F., Beecham E.J., Link C.J., May A., Bohr V.A. DNA repair in the endogenous and episomal amplified c-myc oncogene loci in human tumor cells. Oncogene. 10:1995;1639-1645.
20. Goldstein S., Fordis C.M., Howard B.H. Enhanced transfection efficiency and improved cell survival after electroporation of G2/M synchronized cells and treatment with sodium butyrate. Nucleic Acids Res. 17:1989;3959-3971.
21. Kariya Y., Kato K., Hayashizaki Y., Himeno S., Tarui S., Matsubara K. Revision of consensus sequence of human Alu repeats - a review. Gene. 53:1987;1-10.
22. Prince M.A., Friedman B., Gruskin E.A., Scherock I.R.D., Lloyd R.S. J. Biol. Chem. 266:1991;10686-10693.
23. Pehrson R.J. Thymine dimer formation as a probe of the path of DNA in and between nucleosomes in intact chromatin. Proc. Natl. Acad. Sci. USA. 86:1989;9149-9153.
24. Gale M.J., Nissen A.K., Smerdon J.S. UV-induced formation of pyrimidine dimers in nucleosome core DNA is strongly modulated with a period of 10.3 bases. Proc. Natl. Acad. Sci. USA. 84:1987;6644-6648.
25. Suquet C., Mitchel D.L., Smerdon M. Repair of UV-induced (6-4) photoproducts in nucleosome core DNA. J. Biol. Chem. 270:1995;16507-16509.
26. Schieferstein U., Thoma F. Modulation of cyclobutane pyrimidine dimer formation in a positioned nucleosome containing poly(dAdT) tracts. Biochemistry. 35:1996;7705-7714.
27. Kruk P.A., Rampino N.J., Bohr V.A. DNA damage and repair in telomeres: Relation to aging. Proc. Natl. Acad. Sci. USA. 92:1995;258-262.
28. M.F. Yakes, Y. Chen, B.V. Houten, PCR-based assays for the detection and quantitation of DNA damage and repair, in: G.P. Pfeifer (Ed.), Technologies for Detection of DNA Damage and Mutations, Plenum Press, New York, 1996, pp. 171-184.
29. McCarthy M.J., Rosenblatt J.I., Lloyd R.S. A modified quantitative polymerase chain reaction assay for measuring gene-specific repair of UV photoproducts in human cells. Mutat. Res. 363:1996;57-66.
30. Jennerwein M.M., Eastman A. A polymerase chain reaction-based method to detect cisplatin adducts in specific genes. Nucleic Acids Res. 19:1991;6209-6214.
31. Rampino N.J., Bohr V.A. Rapid gene-specific repair of cisplatin lesions at the human DUG/DHFR locus comprising the divergent upstream gene and dihydrofolate reductase gene during early G1 phase of the cell cycle assayed by using the exonucleolytyic activity of T4 DNA polymerase. Proc. Natl. Acad. Sci. USA. 91:1994;10977-10981.
32. Chu G. Cellular responses to cisplatin. J. Biol. Chem. 269:1994;787-790.