Measuring gene-specific nucleotide excision repair in human cells using quantitative amplification of long targets from nanogram quantities of DNA

Mutation Research - DNA Repair

Volumn 460, Issue 2, 2000, Pages 81-94

  Van Houten, Bennett ^a   Cheng, Suzanne ^b   Chen, Yiming ^a  

^a UNIVERSITY OF TEXAS MEDICAL BRANCH   (United States)

^b ROCHE MOLECULAR SYSTEMS   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

BETA GLOBIN; CISPLATIN; HYPOXANTHINE PHOSPHORIBOSYLTRANSFERASE;

ARTICLE; DNA DAMAGE; DNA REPAIR; EXCISION REPAIR; FIBROBLAST; GENE AMPLIFICATION; GENE CLUSTER; HUMAN; HUMAN CELL; LYMPHOBLASTOID CELL LINE; POLYMERASE CHAIN REACTION; PRIORITY JOURNAL; ULTRAVIOLET RADIATION;

CELL LINE; CISPLATIN; CROSS-LINKING REAGENTS; DNA; DNA ADDUCTS; DNA DAMAGE; DNA REPAIR; DNA, MITOCHONDRIAL; DOSE-RESPONSE RELATIONSHIP, RADIATION; FIBROBLASTS; GLOBINS; HUMANS; HYPOXANTHINE PHOSPHORIBOSYLTRANSFERASE; KINETICS; OLIGODEOXYRIBONUCLEOTIDES; POLYMERASE CHAIN REACTION; SAMPLE SIZE; SENSITIVITY AND SPECIFICITY; SIMIAN VIRUS 40; ULTRAVIOLET RAYS;

EID: 0034713926     PISSN: 09218777     EISSN: None     Source Type: Journal    
DOI: 10.1016/S0921-8777(00)00018-5     Document Type: Article

References (37)

1. Friedberg E. DNA Repair. 1995;Freeman, New York, NY.
2. Hanawalt P. DNA Repair Mechanisms: Impact on Human Diseases and Cancer. 1995.
3. Bohr V.A., Smith C.A., Okumoto D.S., Hanawalt P.C. DNA repair in an active gene: removal of pyrimidine dimers from the DHFR gene of CHO cells is much more efficient than in the genome overall. Cell. 40:1985;359-369.
4. Mellon I., Spivak G., Hanawalt P.C. Selective removal of transcription-blocking DNA damage from the transcribed strand of the mammalian DHFR gene. Cell. 51:1987;241-249.
5. Zhen W., Link C.J., O'Connor P., Reed E., Parker R., Howell S.B., Bohr V. Increased gene-specific repair of cisplatin interstrand cross-links in cisplatin-resistant human ovarian cancer cell lines. Mol. Cell. Biol. 12:1992;3689-3698.
6. Thomas D.C., Morton A.G., Bohr V.A., Sancar A. General method for quantifying base adducts in specific mammalian genes. Proc. Natl. Acad. Sci. U. S. A. 85:1988;3723-3727.
7. Tang M.S., Bohr V.A., Zhang X.S., Pierce J., Hanawalt P.C. Quantification of aminofluorene adduct formation and repair in defined DNA sequences in mammalian cells using the UVRABC nuclease. J. Biol. Chem. 264:1989;14455-14462.
8. Chen R.H., Maher V.M., Brouwer J., van de Putte P., McCormick J.J. Preferential repair and strand-specific repair of benzo[a]pyrene diol epoxide adducts in the HPRT gene of diploid human fibroblasts. Proc. Natl. Acad. Sci. U. S. A. 89:1992;5413-5417.
9. Snyderwine E.G., Bohr V.A. Gene- and strand-specific damage and repair in Chinese hamster ovary cells treated with 4-nitroquinoline 1-oxide. Cancer Res. 52:1992;4183-4189.
10. Tang M.-S., Pao A., Zhang X.-S. Repair of benzo(a)pyrene diol epoxide- and UV-induced DNA damage in dihydrofolate reductase and adenine phosphoribosyltransferase genes of CHO cells. J. Biol. Chem. 269:1994;12749-12754.
11. Scicchitano D., Hanawalt P.C. Repair of N-methylpurines in specific DNA sequences in Chinese hamster ovary cells: absence of strand specificity in the dihydrofolate reductase gene. Proc. Natl. Acad. Sci. U. S. A. 86:1989;3050-3054.
12. Pfeifer G.P., Drouin R., Riggs A., Holmquist G.P. Binding of transcription factors creates hot spots for UV photoproducts in vivo. Mol. Cell. Biol. 12:1992;1798-1804.
13. Kalinowski D., Illenye S., Van Houten B. Analysis of DNA damage and repair in murine leukemia L1210 cells using a quantitative polymerase chain reaction assay. Nucleic Acids Res. 20:1992;3485-3494.
14. Van Houten B., Chandrasekhar D., Huang W., Katz E. Mapping DNA lesions at the gene level using PCR methodology. Amplifications/Perkin-Elmer. 10:1993;10-17.
15. Chandrasekhar D., Van Houten B. High resolution mapping of UV-induced photoproducts in the E. coli lacI gene: inefficient repair in the nontranscribed strand correlates with high mutation frequency. J. Mol. Biol. 238:1994;319-332.
16. Ponti M., Forrow S.M., Souhami R.L., D'Incalci M., Hartley J.A. Measurement of the sequence specificity of covalent DNA modification by antineoplastic agents using Taq DNA polymerase. Nucleic Acids Res. 19:1991;2929-2932.
17. Murray V., Motyka H., England P.R., Wickham G., Lee H.H., Denny W.A., McFadyen W.D. The use of Taq DNA polymerase to determine the sequence specificity of DNA damage caused by cis-diamminedichloroplatinum(II), acridine-tethered platinum(II) diammine complexes or two analogues. J. Biol. Chem. 267:1992;18805-18809.
18. Miller S.A., Dyker D.D., Polesky H.F. A simple salting out procedure for extracting DNA from human nucleated cells. Nucleic Acids Res. 16:1988;1215.
19. Cheng S., Fockler C., Barnes W.M., Higuchi R. Effective amplification of long targets from cloned inserts and human genomic DNA. Proc. Natl. Acad. Sci. U. S. A. 91:1994;5695-5699.
20. Yakes F.M., Van Houten B. Mitochondrial DNA damage is more extensive and persists longer than nuclear DNA damage in human cells following oxidative stress. Proc. Natl. Acad. Sci. U. S. A. 94:1997;514-519.
21. Salazar J., Van Houten B. Preferential mitochondrial DNA injury caused by glucose oxidase as a steady generator of hydrogen peroxide in human fibroblasts. Mutat. Res. 385(2):1997;139-149.
22. Cheng S., Chen Y., Monforte J.A., Higuchi R., Van Houten B. Template integrity is essential for PCR amplification of 20-30 kb sequences from genomic DNA. PCR Methods Appl. 4:1995;294-298.
23. Kolmodin L., Cheng S., Akers J. Amplifications: A Forum for PCR Users. vol. 13:1995.
24. Cheng S., Higuchi R., Stoneking M. Complete mitochondrial genome amplification. Nature Genet. 7:1994;350-351.
25. Young R.C., Fuks Z., Hoskins W.J. DeVita V., Hellman S., Rosenberg S. Cancer. 3rd edn. 1989;1162-1196 J.B. Lippincott, Philadelphia.
26. 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.
27. Corda Y., Job C., Anin M.F., Leng M., Job D. Transcription by eucaryotic and procaryotic RNA polymerases of DNA modified at a d(GG) or a d(AG) site by the antitumor drug cis-diamminedichloroplatinum(II). Biochemistry. 30:1991;222-230.
28. Barnes W.M. PCR amplification of up to 35-kb DNA with high fidelity and high yield from lambda bacteriophage templates. Proc. Natl. Acad. Sci. U. S. A. 91:1994;2216-2220.
29. McCarthy M.J., Rosenblatt J.I., Lloyd R.S. A modified quantitativwe polymerase chain reaction assay for measuring gene-specific repair of UV photoproducts in human cells. Mutat. Res. 363:1996;57-66.
30. Vreeswijk M., van Hoffen A., Westland B.E., Vrieling H., van Zeeland A., Mullenders L. Analysis of repair of cyclobutane pyrimidine dimers and pyrimidine 6-4 pyrimidone photoproducts in transcriptionally active and inactive genes in Chinese hamster cells. J. Biol. Chem. 269:1994;31858-31863.
31. Blaustein A.R., Hoffman P.D., Hokit D.G., Kiesecker J.M., Walls S., Hays J.B. UV repair and resistance to solar UV-B in amphibian eggs: a link to population declines? Proc. Natl. Acad. Sci. U. S. A. 91:1994;1791-1795.
32. Kripke M. UV-B Monitoring Workshop: A Review of the Science and Status of Measuring and Monitoring Programs. 1992;C-58 Science and Policy Associates, Washington, DC.
33. Jones J.C., Bohr V.A. Gene-specific formation and reoair of cisplatin intrastrand adducts and interstrand cross-links in chinese hamster overy cells. J. Biol. Chem. 266(11):1991;7101-7107.
34. Hatton D.H., Mitchell D.L., Strickland P.T., Johnson R.T. Enhanced photoproduct repair: its role in the DNA damage-resistance phenotype of human malignant melanoma cells. Cancer Res. 55:1995;181-189.
35. Venema J., van Hoffen A., Natarajan A.T., Mullenders L.H.F. The residual repair capacity of xeroderma pigmentosum complementation group C fibroblasts is highly specific for transcriptionally active DNA. Nucleic Acids Res. 18:1990;443-448.
36. Kantor G.J., Barsalou L.S., Hanawalt P.C. Selective repair of specific chromatin domains in UV-irradiated cells from xeroderma pigmentosum complementation group C. Mutat. Res. 235:1990;171-180.
37. Mullenders L.H.F., Van Kesteren A.C., Bussmann C.J.M., Vanzeeland A.A., Nataraian A.T. Preferential repair of nuclear matrix associated DNA in xeroderma pigmentosum complementation group C. Mutat. Res. 141:1984;75-82.