Molecular cloning and characterization of Saccharomyces cerevisiae RAD28, the yeast homolog of the human Cockayne syndrome A (CSA) gene

Journal of Bacteriology

Volumn 178, Issue 20, 1996, Pages 5977-5988

  Bhatia, Prakash K ^a   Verhage, Richard A ^b   Brouwer, Jaap ^b   Friedberg, Errol C ^a  

^a UNIVERSITY OF TEXAS SOUTHWESTERN MEDICAL CENTER   (United States)

^b LEIDEN UNIVERSITY   (Netherlands)

Author keywords

[No Author keywords available]

Indexed keywords

MESYLIC ACID METHYL ESTER;

AMINO ACID SEQUENCE; ARTICLE; COCKAYNE SYNDROME; DELETION MUTANT; DNA REPAIR; GAMMA RADIATION; GENE ISOLATION; GENOTYPE; MOLECULAR CLONING; NONHUMAN; NUCLEOTIDE SEQUENCE; PHENOTYPE; PRIORITY JOURNAL; SACCHAROMYCES CEREVISIAE; SEQUENCE HOMOLOGY; ULTRAVIOLET RADIATION;

SACCHAROMYCES CEREVISIAE;

EID: 0029793038     PISSN: 00219193     EISSN: None     Source Type: Journal    
DOI: 10.1128/jb.178.20.5977-5988.1996     Document Type: Article

References (67)

1. Altschul, S. F., W. Gish, W. Miller, E. W. Myers, and D. J. Lipman. 1990. Basic local alignment search tool. J. Mol. Biol. 215:403-410.
2. Bang, D. D., R. A. Verhage, N. Goosen, J. Brouwer, and P. van de Putte. 1992. Molecular cloning of RAD16, a gene involved in differential repair in Saccharomyces cerevisiae. Nucleic Acids Res. 20:3925-3931.
3. Baudin, A., O. Ozier-Kalogeropoulos, A. Denouel, F. Lacroute, and C. Cullin. 1993. A simple and efficient method for direct gene deletion in Saccharomyces cerevisiae. Nucleic Acids Res. 21:3329-3330.
4. Bohr, V. A., C. A. Smith, D. S. Okumoto, and P. C. Hanawalt. 1985. 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 40:359-369.
5. Bohr, V. A., and K. Wassermann. 1988. DNA repair at the level of the genes. Trends Biochem. Sci. 13:429-433.
6. Broughton, B. C., A. F. Thompson, S. A. Harcourt, W. Vermeulen, J. H. J. Hoeijmakers, E. Botta, M. Stefanini, M. D. King, C. A. Weber, J. Cole, C. F. Arlett, and A. R. Lehmann. 1995. Molecular and cellular analysis of the DNA repair defect in a patient in xeroderma pigmentosum complementation group D who has the clinical features of xeroderma pigmentosum and Cockayne syndrome. Am. J. Hum. Genet. 56:167-174.
7. Cleaver, J. E. 1990. Do we know the cause of xeroderma pigmentosum? Carcinogenesis 11:875-882.
8. Cleaver, J. E., and K. H. Kraemer. 1989. Xeroderma pigmentosum, p. 2949-2971. In C. R. Scriver, A. L. Beaudet, W. S. Sly, and D. Valle (ed.), The metabolic basis of inherited disease, 6th ed., vol. II. McGraw-Hill, New York.
9. Cole, J., J. Quinn, J. L. Workman, and C. L. Peterson. 1994. Stimulation of GAL4 derivative binding to nucleosomal DNA by the yeast SW1/SNF complex. Science 265:53-60.
10. 9a.Dianov, G., J.-F. Houle, and E. C. Friedberg. Unpublished observations.
11. Eckardt, F., and R. H. Haynes. 1977. Kinetics of mutation induction by ultraviolet light in excision-deficient yeast. Genetics 85:225-247.
12. Eckardt, F., and W. Siede. 1985. Mutagen testing with yeast, p. 305-322. In R. C. von Borstel and A. Muhammed (ed.), Basic and applied mutagenesis. Plenum Publishing Corp., New York.
13. Friedberg, E. C, 1992. Xeroderma pigmentosum, Cockayne's syndrome, helicases, and DNA repair: what's the relationship? Cell 71:887-889.
14. Friedberg, E. C., and K. A. Henning. 1993. The conundrum of xeroderma pigmentosum - a rare disease with frequent complexities. Mutat. Res. 289:47-53.
15. Friedberg, E. C., G. C. Walker, and W. Siede. 1995. DNA repair and mutagenesis. p. 655-658. ASM Press, Washington, D.C.
16. Hanawalt, P. C. 1987. Preferential DNA repair in expressed genes. Environ. Health Perspect. 76:9-14.
17. Hanawalt, P. C. 1992. Transcription-dependent and transcription-coupled DNA repair responses, p. 231-242. In V. A. Bohr, K. Wassermann, and K. H. Kraemer (ed.), DNA repair mechanisms. Munksgaard, Copenhagen.
18. Hanawalt, P. C. 1994. Transcription-coupled repair and human disease. Science 266:1957-1958.
19. Henning, K. A., L. Li, N. Iyer, L. D. McDaniel, M. S. Reagan, R. Legerski, R. A. Schultz, M. Stefanini, A. R. Lehmann, L. V. Mayne, and E. C. Friedberg. 1995. The Cockayne syndrome group A gene encodes a WD repeat protein that interacts with CSB protein and a subunit of RNA polymerase II TFIIH. Cell 82:555-564.
20. Hoeijmakers, J. H. J. 1993. Nucleotide excision repair. I. From E. coli to yeast. Trends Genet. 9:173-177.
21. Hoeijmakers, J. H. J. 1993. Nucleotide excision repair. II. From yeast to mammals. Trends Genet. 9:211-217.
22. Kraemer, K. H., D. D. Levy, C. N. Parris, E. M. Gozukara, S. Moriwaki, S. Adelberg, and M. M. Seidman. 1994. Xeroderma pigmentosum and related disorders: examining the linkage between detective DNA repair and cancer. J. Invest. Dermatol. 103:96S-101S.
23. Kwon, H., A. N. Imbalzano, P. A. Khavari, R. E. Kingston, and M. R. Green, 1994. Nucleosome disruption and enhancement of activator binding by a human SWI/SNF complex. Nature (London) 370:477-481.
24. Lambright, D. G., J. Sondek, A. Bohm, N. P. Skiba, H. E. Hamm, and P. B. Sigler. 1996. The 2.0 Å crystal structure of a heterotrimeric G protein. Nature (London) 379:311-319.
25. Lawrence, C. W. 1982. Mutagenesis in Saccharomyces cerevisiae. Adv. Genet. 21:173-254.
26. Lea, D. E., and C. A. Coulson. 1949. The distribution of the numbers of mutants in bacterial populations. J. Genet. 49:264-284.
27. Leadon, S. A., and P. K. Cooper. 1993. Preferential repair of ionizing radiation-induced damage in the transcribed strand of an active gene is defective in Cockayne syndrome. Proc. Natl. Acad. Sci. USA 90:10499-10503.
28. Leadon, S. A., and D. A. Lawrence. 1992. Strand-selective repair of DNA damage in the yeast GAL7 gene requires RNA polymerase II. J. Biol. Chem. 267:23175-23182.
29. Lehmann, A. R. 1982. Three complementation groups in Cockayne syndrome. Mutat. Res. 106:347-356.
30. Lehmann, A. R., and L. V. Mayne. 1981. The response of Cockayne syndrome cells to UV-irradiation, p. 367-371. In E. Seeberg and K. Kleppe (ed.), Chromosome damage and repair. Plenum Press, New York.
31. Lorenz, M. C., R. S. Muir, E. Lim, J. McElver, S. C. Weber, and J. Heitman. 1995. Gene disruption with PCR products in Saccharomyces cerevisiae. Gene 158:113-117.
32. Luria, S. F., and M. Delbruck. 1943. Mutations of bacteria from virus sensitivity to virus resistance. Genetics 28:491-511.
33. Manivasakam, P., S. C. Weber, J. McElver, and R. H. Schiestl. 1995. Microhomology mediated PCR targeting in Saccharomyces cerevisiae. Nucleic Acids Res. 23:2799-2800.
34. Mellon, I., G. Spivak, and P. C. Hanawalt. 1987. Selective removal of transcription-blocking DNA damage from the transcribed strand of the mammalian DHFR gene. Cell 51:241-249.
35. Morrow, D. W., D. A. Tagle, Y. Shiloh, F. S. Collins, and P. Hieter. 1995. TEL1, an S. cerevisiae homolog of the human gene mutated in ataxia telangiectasia, is functionally related to the yeast checkpoint gene MEC1. Cell 82:831-840.
36. Nance, M. A., and S. A. Berry. 1992. Cockayne syndrome: review of 140 cases. Am. J. Med. Genet. 42:68-84.
37. 35a.Neer, E. Personal communication.
38. Neer, E. J., C. J. Schmidt, R. Nambudripad, and T. F. Smith. 1994. The ancient regulatory-protein family of WD-repeat proteins. Nature (London) 371:297-300.
39. Neer, E. J., and T. F. Smith. 1996. G protein heterodimers: new structures propel new questions. Cell 84:175-178.
40. Otsuka, F., R. E. Tarone, S. Cayeux, and J. H. Robbins. 1984. Use of lymphoblastoid cell lines to evaluate the hypersensitivity to ultraviolet radiation in Cockayne syndrome. J. Invest. Dermatol. 82:480-484.
41. Parris, C. N, and K. H. Kraemer. 1993. Ultraviolet-induced mutations in Cockayne syndrome cells are primarily caused by cyclobutane dimer photoproducts while repair of other photoproducts is normal. Proc. Natl. Acad. Sci. USA 90:7260-7264.
42. Perozzi, G., and S. Prakash. 1986. RAD7 gene of Saccharomyces cerevisiae: transcripts, nucleotide sequence analysis, and functional relationship between the RAD7 and RAD23 gene products. Mol. Cell. Biol. 6:1497-1507.
43. Peterson, C. L., and J. W. Tamkun. 1995. The SW1-SNF complex: a chromatin remodeling machine? Trends Biochem. Sci. 20:143-146.
44. Quinn, J., A. M. Fryberg, R. W. Ganster, M. C. Schmidt, and C. L. Peterson. 1996. DNA-binding properties of the yeast SWI/SNF complex. Nature (London) 379:844-847.
45. Sambrook, J., E. F. Fritsch, and T. Maniatis. 1989. Molecular cloning: a laboratory manual, 2nd ed. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, N.Y.
46. Sancar, A. 1994. Mechanisms of DNA excision repair. Science 266:1954-1956.
47. Schaeffer, L., V. Moncolin, R. Roy, A. Staub, M. Mezzina, A. Sarasin, G. Weeda, J. H. J. Hoeijmakers, and J.-M. Egly. 1994. The ERCC2/DNA repair protein is associated with the class II BTF2/TFIIH transcription factor. EMBO J. 13:2388-2392.
48. Schaeffer, L., R. Roy, S. Humbert, V. Moncollin, W. Vermeulen, J. H. J. Hoeijmakers, P. Chambon, and J.-M. Egly. 1993. DNA repair helicase: a component of BTF2 (TFIIH) basic transcription factor. Science 260:58-63.
49. Schild, D., B. J. Glassner, R. K. Mortimer, M. Carlson, and B. C. Laurent. 1992. Identification of R4D16, a yeast excision repair gene homologous to the recombinational repair gene RAD54 and to the SNF2 gene involved in transcriptional activation. Yeast 8:385-396.
50. Sherman, F. 1991. Getting started with yeast. Methods Enzymol. 194:3-21.
51. Sondek, J., A. Bohm, D. G. Lambright, H. E. Hamm, and P. B. Sigler. 1996. Crystal structure of a G protein βγ dimer at 2.1 Å resolution. Nature (London) 379:369-374.
52. 49a.Stefanini, M. Personal communication.
53. Sweder, K. S., and P. C. Hanawalt. 1992. Preferential repair of cyclobutane pyrimidine dimers in the transcribed strand of a gene in yeast chromosomes and plasmids is dependent on transcription. Proc. Natl. Acad. Sci. USA 89:10696-10700.
54. Tanaka, K., K. Y. Kawai, Y. Kumahara, and M. Ikenaga. 1981. Genetic complementation groups in Cockayne syndrome. Somatic Cell Genet. 7:445-456.
55. Troelstra, C., A. van Gool, J. de Wit, W. Vermeulen, D. Bootsma, and J. H. J. Hoeijmakers. 1992. ERCC6, a member of a subfamily of putative helicases, is involved in Cockayne's syndrome and preferential repair of active genes. Cell 71:939-953.
56. Tugendreich, S., D. E. Bassett, Jr., V. A. McKusick, M. S. Boguski, and P. Hieter. 1994. Genes conserved in yeast and humans. Hum. Mol. Genet. 3:1509-1517.
57. 53a.van der Horst, B., and Hoeijmakers, J. H. J. Personal communication.
58. van Gool, A. J., R. Verhage, S. M. A. Swagemakers, P. van de Putte, J. Brouwer, C. Troelstra, D. Bootsma, and J. H. J. Hoeijmakers. 1994. RAD26. the functional S. cerevisiae homolog of the Cockayne syndrome B gene ERCC6. EMBO J. 13:5361-5369.
59. van Hoffen, A., A. S. Balajee, A. A. van Zeeland, and L. H. F. Mullenders. 1996. Defective transcription-coupled repair in Cockayne's syndrome cells: consequence of the inability to reinitiate UV-inhibited RNA synthesis?, p. 151. In Workshop on processing of DNA damage, Noordwijkerhout, The Netherlands, 20 to 25 April 1996.
60. Venema, J., L. H. F. Mullenders, A. T. Natarajan, A. A. van Zeeland, and L. V. Mayne. 1990. The genetic defect in Cockayne syndrome is associated with a defect in repair of UV-induced DNA damage in transcriptionally active DNA. Proc. Natl. Acad. Sci. USA 87:4707-4711.
61. Verhage, R., A.-M. Zeeman, N. de Groot, F. Gleig, D. D. Bang, P. van de Putte, and J. Brouwer. 1994. The RAD7 and RAD16 genes, which are essential for pyrimidine dimer removal from the silent mating type loci, are also required for repair of the nontranscribed strand of an active gene in Saccharomyces cerevisiae. Mol. Cell. Biol. 14:6135-6142.
62. Verhage, R. A., A. J. van Gool, N. de Groot, J. H. J. Hoeijmakers, P. van de Putte, and J. Brouwer. 1996. Double mutants of Saccharomyces cerevisiae with alterations in global genome and transcription-coupled repair. Mol. Cell. Biol. 16:496-502.
63. Vermeulen, W., A. J. van Vuuren, E. Appeldoorn, G. Weeda, N. G. J. Jaspers, A. Priestly, C. F. Arlett, A. R. Lehmann, M. Stefanini, M. Mezzina, A. Sarasin, D. Bootsma, J.-M. Egly, and J. H. J. Hoeijmakers. 1994. Three unusual repair deficiencies associated with transcription factor BTF2 (TFIIH): evidence for the existence of a transcription syndrome. Cold Spring Harbor Symp. Quant. Biol. 59:317-329.
64. iα1,β1,γ2 Cell 83:1047-1058.
65. Wang, G., M. M. Seidman, and P. M. Glazer. 1996. Mutagenesis in mammalian tells induced by triple helix formation and transcription-coupled repair. Science 271:802-805.
66. Wang, Z., J. Q. Svejstrup, W. J. Feaver, X. Wu, R. D. Kornberg, and E. C. Friedberg, 1994. Transcription factor b (TFIIH) is required during nucleotide excision repair in yeast. Nature (London) 368:74-76.
67. Wang, Z., S. Wei, X. Wu, J. Q. Svejstrup, W. J. Feaver, R. D. Kornberg, and E. C. Friedberg. Unpublished results.