Evidence for the Involvement of Nucleotide Excision Repair in the Removal of Abasic Sites in Yeast

REFERENCES

• Alani, E., Cao, L., and Kleckner, N.. 1987. A method for gene disruption that allows repeated use of URA3 selection in the construction of multiply disrupted genes. Genetics 116:541–545
   PubMedGoogle Scholar
• Bardwell, A. J., Bardwell, L., Tomkinson, A. E., and Friedberg, E. C.. 1994. Specific cleavage of model recombination and repair intermediates by the yeast Rad1-Rad10 DNA endonuclease. Science 265:2082–2085
   PubMed Web of Science ®Google Scholar
• Bennett, R. A. O.. 1999. The Saccharomyces cerevisiae ETH1 gene, an inducible homolog of exonuclease III that provides resistance to DNA-damaging agents and limits spontaneous mutagenesis. Mol. Cell. Biol. 19:1800–1809
   PubMedGoogle Scholar
• Bjoras, M., Klungland, A., Johansen, R. F., and Seeberg, E.. 1995. Purification and properties of the alkylation repair DNA glycosylase encoded MAG gene from Saccharomyces cerevisiae. Biochemistry 34:4577–4582
   PubMedGoogle Scholar
• Burns, J. L., Guzder, S. N., Sung, P., Prakash, S., and Prakash, L.. 1996. An affinity of human replication protein A for ultraviolet-damaged DNA: implications for damage recognition in nucleotide excision repair. J. Biol. Chem. 271:11607–11610
   PubMed Web of Science ®Google Scholar
• Demple, B., and Harrison, L.. 1994. Repair of oxidative damage to DNA: enzymology and biology. Annu. Rev. Biochem. 63:915–948
   PubMed Web of Science ®Google Scholar
• de Vries, A., van Oostrom, C. T. M., Dortant, P. M., Beems, R. B., van Kreijl, C. F., Capel, P. J. A., and van Steeg, H.. 1997. Spontaneous liver tumors and benzo[ a ]pyrene-induced lymphomas in XPA-deficient mice. Mol. Carcinog. 19:46–53
   PubMedGoogle Scholar
• Drapkin, R., Reardon, J. T., Ansari, A., Huang, J. C., Zawel, L., Ahn, K., Sancar, A., and Reinberg, D.. 1994. Dual role of TFIIH in DNA excision repair and in transcription by RNA polymerase II. Nature 368:769–772
   PubMed Web of Science ®Google Scholar
• Giese, H., Dolle, M. E. T., Hezel, A., van Steeg, H., and Vijg, J.. 1999. Accelerated accumulation of somatic mutations in mice deficient in the nucleotide excision repair gene XPA. Oncogene 18:1257–1260
   PubMedGoogle Scholar
• Guzder, S. N., Habraken, Y., Sung, P., Prakash, L., and Prakash, S.. 1995. Reconstitution of yeast nucleotide excision repair with purified Rad proteins, replication protein A, and transcription factor TFIIH. J. Biol. Chem. 270:12973–12976
   PubMedGoogle Scholar
• Guzder, S. N., Sung, P., Prakash, L., and Prakash, S.. 1998. Affinity of yeast nucleotide excision repair factor 2, consisting of the Rad4 and Rad23 proteins, for ultraviolet damaged DNA. J. Biol. Chem. 273:31541–31546
   PubMed Web of Science ®Google Scholar
• Guzder, S. N., Sung, P., Prakash, L., and Prakash, S.. 1998. The DNA-dependent ATPase activity of yeast nucleotide excision repair factor 4 and its role in DNA damage recognition. J. Biol. Chem. 273:6292–6296
   PubMedGoogle Scholar
• Guzder, S. N., Sung, P., Prakash, L., and Prakash, S.. 1996. Nucleotide excision repair in yeast is mediated by sequential assembly of repair factors and not by a pre-assembled repairosome. J. Biol. Chem. 271:8903–8910
   PubMedGoogle Scholar
• Guzder, S. N., Sung, P., Prakash, L., and Prakash, S.. 1999. Synergistic interaction between yeast nucleotide excision repair factors NEF2 and NEF4 in the binding of ultraviolet-damaged DNA. J. Biol. Chem. 274:24257–24262
   PubMedGoogle Scholar
• Guzder, S. N., Sung, P., Prakash, L., and Prakash, S.. 1993. Yeast DNA repair gene RAD14 encodes a zinc metalloprotein with affinity for ultraviolet damaged DNA. Proc. Natl. Acad. Sci. USA 90:5433–5437
   PubMed Web of Science ®Google Scholar
• Guzder, S. N., Sung, P., Prakash, L., and Prakash, S.. 1997. Yeast Rad7-Rad16 complex specific for the nucleotide excision repair of the nontranscribed DNA strand, is an ATP-dependent DNA damage sensor. J. Biol. Chem. 272:21665–21668
   PubMedGoogle Scholar
• Habraken, Y., Sung, P., Prakash, L., and Prakash, S.. 1995. Structure-specific nuclease activity in yeast nucleotide excision repair protein Rad2. J. Biol. Chem. 270:30194–30198
   PubMedGoogle Scholar
• Habraken, Y., Sung, P., Prakash, L., and Prakash, S.. 1993. Yeast excision repair gene RAD2 encodes a single-stranded DNA endonuclease. Nature 366:365–368
   PubMedGoogle Scholar
• Habraken, Y., Sung, P., Prakash, S., and Prakash, L.. 1996. Transcription factor TFIIH and DNA endonuclease Rad2 constitute yeast nucleotide excision repair factor 3: implications for nucleotide excision repair and Cockayne syndrome. Proc. Natl. Acad. Sci. USA 93:10718–10722
   PubMedGoogle Scholar
• Higgins, N. P., Kato, K., and Strauss, B.. 1976. A model for replication repair in mammalian cells. J. Mol. Biol. 101:417–425
   PubMed Web of Science ®Google Scholar
• Huang, J.-C., Hsu, D. S., Kazantsev, A., and Sancar, A.. 1994. Substrate spectrum of human excinuclease: repair of abasic sites, methylated bases, mismatches, and bulky adducts. Proc. Natl. Acad. Sci. USA 91:12213–12217
   PubMed Web of Science ®Google Scholar
• Jansen, L. E. T., Verhage, R. A., and Brouwer, J.. 1998. Preferential binding of yeast Rad4-Rad23 complex to damaged DNA. J. Biol. Chem. 273:33111–33114
   PubMedGoogle Scholar
• Johnson, R. E., Torres-Ramos, C. A., Izumi, T., Mitra, S., Prakash, S., and Prakash, L.. 1998. Identification of APN2, the Saccharomyces cerevisiae homolog of the major human AP endonuclease HAP1, and its role in the repair of abasic sites. Genes Dev. 12:3137–3143
   PubMedGoogle Scholar
• Kraemer, K. H., Lee, L. L., and Scotto, J.. 1984. DNA repair protects against cutaneous and internal neoplasia: evidence from xeroderma pigmentosum. Carcinogenesis 5:511–514
   PubMed Web of Science ®Google Scholar
• Kraemer, K. H., Lee, M.-M., Andrews, A. D., and Lambert, W. C.. 1994. The role of sunlight and DNA repair in melanoma and nonmelanoma skin cancer. Arch. Dermatol. 130:1018–1021
   PubMed Web of Science ®Google Scholar
• Kraemer, K. H., Parris, C. N., Gozukara, E. M., Levy, D. D., Adelberg, S., and Seidman, M. M.. Human DNA repair-deficient diseases: clinical disorders and molecular defects DNA repair mechanisms Bohr, V. A., Wasserman, K., and Kraemer, K. H. 35:15–26 Munksgaard, Copenhagen, Denmark
   Google Scholar
• Lindahl, T., and Nyberg, B.. 1972. 1993. Rate of depurination of native deoxyribonucleic acid. Biochemistry 11:3610–3617
   PubMed Web of Science ®Google Scholar
• Mu, D., Hsu, D. S., and Sancar, A.. 1996. Reaction mechanism of human DNA repair excision nuclease. J. Biol. Chem. 271:8285–8294
   PubMed Web of Science ®Google Scholar
• Mu, D., Park, C.-H., Matsunaga, T., Hsu, D. S., Reardon, J. T., and Sancar, A.. 1995. Reconstitution of human DNA repair excision nuclease in a highly defined system. J. Biol. Chem. 270:2415–2418
   PubMed Web of Science ®Google Scholar
• Nance, M. A., and Berry, S. A.. 1992. Cockayne syndrome: review of 140 cases. Am. J. Med. Genet. 42:68–84
   PubMed Web of Science ®Google Scholar
• Popoff, S. C., Spira, A. I., Johnson, A. W., and Demple, B.. 1990. Yeast structural gene (APN1) for the major apurinic endonuclease: homology to Escherichia coli endonuclease IV. Proc. Natl. Acad. Sci. USA 87:4193–4197
   PubMed Web of Science ®Google Scholar
• Ramotar, D., Popoff, S. C., Gralla, E. B., and Demple, B.. 1991. Cellular role of yeast Apn1 apurinic endonuclease/3′-diesterase: repair of oxidative and alkylation DNA damage and control of spontaneous mutation. Mol. Cell. Biol. 11:4537–4544
   PubMed Web of Science ®Google Scholar
• Reardon, J. T., Bessho, T., Kung, H. C., Bolton, P. H., and Sancar, A.. 1997. In vitro repair of oxidative DNA damage by human nucleotide excision repair system: possible explanation for neurodegeneration in xeroderma pigmentosum patients. Proc. Natl. Acad. Sci. USA 94:9463–9468
   PubMed Web of Science ®Google Scholar
• Rothstein, R.. 1991. Targeting, disruption, replacement, and allele rescue: integrative DNA transformation in yeast. Methods Enzymol. 194:281–301
   PubMed Web of Science ®Google Scholar
• Roy, R., Brooks, C., and Mitra, S.. 1994. Purification and biochemical characterization of recombinant N-methylpurine-DNA glycosylase of the mouse. Biochemistry 33:15131–15140
   PubMedGoogle Scholar
• Sancar, A.. 1996. DNA excision repair. Annu. Rev. Biochem. 65:43–81
   PubMed Web of Science ®Google Scholar
• Schaeffer, L., Moncollin, V., Roy, R., Staub, A., Mezzina, M., Sarasin, A., Weeda, G., Hoeijmakers, J. H. J., and Egly, J. M.. 1994. The ERCC2/DNA repair protein is associated with the class II BTF2/TFIIH transcription factor. EMBO J. 13:2388–2392
   PubMed Web of Science ®Google Scholar
• Scott, A. D., Neishabury, M., Jones, D. H., Reed, S. H., Boiteux, S., and Waters, R.. 1999. Spontaneous mutation, oxidative DNA damage, and the roles of base and nucleotide excision repair in the yeast Saccharomyces. Yeast 15:205–218
   PubMed Web of Science ®Google Scholar
• Seeberg, E., Eide, L., and Bjorås, M.. 1995. The base excision repair pathway. Trends Biochem. Sci. 20:391–396
   PubMedGoogle Scholar
• Sung, P., Bailly, V., Weber, C., Thompson, L. H., Prakash, L., and Prakash, S.. 1993. Human xeroderma pigmentosum group D gene encodes a DNA helicase. Nature 365:852–855
   PubMed Web of Science ®Google Scholar
• Sung, P., Guzder, S. N., Prakash, L., and Prakash, S.. 1996. Reconstitution of TFIIH and requirement of its DNA helicase subunits, Rad3 and Rad25, in the incision step of nucleotide excision repair. J. Biol. Chem. 271:10821–10826
   PubMedGoogle Scholar
• Sung, P., Reynolds, P., Prakash, L., and Prakash, S.. 1993. Purification and characterization of the Saccharomyces cerevisiae RAD1/RAD10 endonuclease. J. Biol. Chem. 268:26391–26399
   PubMedGoogle Scholar
• Tomkinson, A. E., Bardwell, A. J., Bardwell, L., Tappe, N. J., and Friedberg, E. C.. 1993. Yeast DNA repair and recombination proteins Rad1 and Rad10 constitute a single-stranded-DNA endonuclease. Nature 362:860–862
   PubMedGoogle Scholar
• Torres-Ramos, C. A., Yoder, B. L., Burgers, P. M. J., Prakash, S., and Prakash, L.. 1996. Requirement of proliferating cell nuclear antigen in RAD6-dependent postreplicational DNA repair. Proc. Natl. Acad. Sci. USA 93:9676–9681
   PubMed Web of Science ®Google Scholar
• Wallace, S.. 1997. Oxidative damage to DNA and its repair Oxidative stress defenses. 49–90 Cold Spring Harbor Laboratory Press, Cold Spring Harbor, N.Y
   Google Scholar