Difference between deoxyribose- and tetrahydrofuran-type abasic sites in the in vivo mutagenic responses in yeast

Nucleic Acids Research

Volumn 30, Issue 23, 2002, Pages 5129-5135

  Otsuka, Chie ^c   Sanadai, Sachi ^c   Hata, Yasuhiro ^c   Okuto, Hisanori ^c   Noskov, Vladimir N ^a   Loakes, David ^b   Negishi, Kazuo ^a  

^a NATIONAL CANCER INSTITUTE   (United States)

^b MRC LABORATORY OF MOLECULAR BIOLOGY   (United Kingdom)

^c OKAYAMA UNIVERSITY   (Japan)

Author keywords

[No Author keywords available]

Indexed keywords

ADENINE; CYTOSINE; DEOXYRIBOSE; DNA POLYMERASE; NUCLEIC ACID BASE; OLIGONUCLEOTIDE; TETRAHYDROFURAN; THYMINE; URACIL;

ANALYTIC METHOD; BACTERIAL STRAIN; CONTROLLED STUDY; DNA DAMAGE; DNA SEQUENCE; ESCHERICHIA COLI; GENE DELETION; GENE MUTATION; GENETIC TRANSFORMATION; IN VIVO STUDY; MUTAGENICITY; NONHUMAN; PRIORITY JOURNAL; REVIEW; SEQUENCE ANALYSIS; YEAST;

DNA; FURANS; MODELS, GENETIC; MUTAGENESIS; MUTATION; OLIGONUCLEOTIDES; SACCHAROMYCES CEREVISIAE; TRANSFORMATION, GENETIC; URACIL;

BACTERIA (MICROORGANISMS); ESCHERICHIA COLI;

EID: 0036924972     PISSN: 03051048     EISSN: None     Source Type: Journal    
DOI: 10.1093/nar/gkf666     Document Type: Review

References (42)

1. Loeb,L.A. and Preston,B.D. (1986) Mutagenesis by apurinic/apyrimidinic sites. Annu. Rev. Genet., 20, 201-230.
2. Sancar,A. and Sancar,G.B. (1988) DNA repair enzymes. Annu. Rev. Biochem., 57, 29-67.
3. Friedberg,E.C. and Gerlach,V.L. (1999) Novel DNA polymerases offer clues to the molecular basis of mutagenesis. Cell, 98, 413-416.
4. Percival,K.J., Klein,M.B. and Burgers,P.M. (1989) Molecular cloning and primary structure of the uracil-DNA-glycosylase gene from Saccharomyces cerevisiae. J. Biol. Chem., 264, 2593-2598.
5. 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.
6. 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.
7. Haracska,L., Unk,I., Johnson,R.E., Johansson,E., Burgers,P.M., Prakash,S. and Prakash,L. (2001) Roles of yeast DNA polymerases δ and ζ and of Rev1 in the bypass of abasic sites. Genes Dev., 15, 945-954.
8. Gibbs,P.E. and Lawrence,C.W. (1995) Novel mutagenic properties of abasic sites in Saccharomyces cerevisiae. J. Mol. Biol., 251, 229-236.
9. Nelson,J.R., Lawrence,C.W. and Hinkle,D.C. (1996) Deoxycytidyl transferase activity of yeast REV1 protein. Nature, 382, 729-731.
10. Haracska,L., Washington,M.T., Prakash,S. and Prakash,L. (2001) Inefficient bypass of an abasic site by DNA polymerase η. J. Biol. Chem., 276, 6861-6866.
11. Nelson,J.R., Gibbs,P.E., Nowicka,A.M., Hinkle,D.C. and Lawrence,C.W. (2000) Evidence for a second function for Saccharomyces cerevisiae Rev1p. Mol. Microbiol., 37, 549-554.
12. Otsuka,C., Kobayashi,K., Kawaguchi,N., Kunitomi,K., Moriyama,K., Hata,Y., Iwai,S., Loakes,D., Noskov,N.V., Pavlov,Y. and Negishi,K. (2002) Use of yeast transformation by oligonucleotides to study DNA lesion bypass in vivo. Mutat. Res., 504, 53-60.
13. Schaaper,R.M., Kunkel,T.A. and Loeb,L.A. (1983) Infidelity of DNA synthesis associated with bypass of apurinic sites. Proc. Natl Acad. Sci. USA, 80, 487-491.
14. Boiteux,S. and Laval,J. (1982) Coding properties of poly(deoxycytidylic acid) templates containing uracil or apyrimidinic sites: in vitro modulation of mutagenesis by deoxyribonucleic acid repair enzymes. Biochemistry, 21, 6746-6751.
15. Sagher,D. and Strauss,B. (1983) Insertion of nucleotides opposite apurinic/apyrimidinic sites in deoxyribonucleic acid during in vitro synthesis: uniqueness of adenine nucleotides. Biochemistry, 22, 4518-4526.
16. Kunkel,T.A. (1984) Mutational specificity of depurination. Proc. Natl Acad. Sci. USA, 5, 1494-1498.
17. Lawrence,C.W., Borden,A., Banerjee,S.K. and LeClerc,J.E. (1990) Mutation frequency and spectrum resulting from a single abasic site in a single-stranded vector. Nucleic Acids Res., 18, 2153-2157.
18. Randall,S.K., Eritja,R., Kaplan,B.E., Petruska,J. and Goodman,M.F. (1987) Nucleotide insertion kinetics opposite abasic lesions in DNA. J. Biol. Chem., 262, 6864-6870.
19. Takeshita,M., Chang,C.N., Johnson,F., Will,S. and Grollman,A.P. (1987) Oligodeoxynucleotides containing synthetic abasic sites. Model substrates for DNA polymerases and apurinic/apyrimidinic endonucleases. J. Biol. Chem., 262, 10171-10179.
20. Strauss,B.S. (1991) The 'A rule' of mutagen specificity: a consequence of DNA polymerase bypass of non-instructional lesions? Bioessays, 13, 79-84.
21. Shibutani,S., Takeshita,M. and Grollman,A.P. (1997) Translesional synthesis on DNA templates containing a single abasic site. A mechanistic study of the "A rule". J. Biol. Chem., 272, 13916-13922.
22. Gentil,A., Renault,G., Madzak,C., Margot,A., Cabral-Neto,J.B., Vasseur,J.J., Rayner,B., Imbach,J.L. and Sarasin,A. (1990) Mutagenic properties of a unique abasic site in mammalian cells. Biochem. Biophys. Res. Commun., 173, 704-710.
23. Gentil,A., Cabral-Neto,J.B., Mariage-Samson,R., Margot,A., Imbach,J.L., Rayner,B. and Sarasin,A. (1992) Mutagenicity of a unique apurinic/apyrimidinic site in mammalian cells. J. Mol. Biol., 227, 981-984.
24. Cabral Neto,J.B., Cabral,R.E., Margot,A., Le Page,F., Sarasin,A. and Gentil,A. (1994) Coding properties of a unique apurinic/apyrimidinic site replicated in mammalian cells. J. Mol. Biol., 240, 416-420.
25. Takeshita,M. and Eisenberg,W. (1994) Mechanism of mutation on DNA templates containing synthetic abasic sites: study with a double strand vector. Nucleic Acids Res., 22, 1897-1902.
26. Klinedinst,D.K. and Drinkwater,N.R. (1992) Mutagenesis by apurinic sites in normal and ataxia telangiectasia human lymphoblastoid cells. Mol. Carcinog., 6, 32-42.
27. Kamiya,H., Suzuki,M., Komatsu,Y., Miura,H., Kikuchi,K., Sakaguchi,T., Murata,N., Masutani,C., Hanaoka,F. and Ohtsuka,E. (1992) An abasic site analogue activates a c-Ha-ras gene by a point mutation at modified and adjacent positions. Nucleic Acids Res., 20, 4409-4415.
28. Kunz,B.A., Henson,E.S., Roche,H., Ramotar,D., Nunoshiba,T. and Demple,B. (1994) Specificity of the mutator caused by deletion of the yeast structural gene (APN1) for the major apurinic endonuclease. Proc. Natl Acad Sci. USA, 91, 8165-8169.
29. Moerschell,R.P., Tsunasawa,S. and Sherman,F. (1988) Transformation of yeast with synthetic oligonucleotides. Proc. Natl Acad. Sci. USA, 85, 524-528.
30. 6-hydroxyadenine studied by yeast oligonucleotide transformation assay. Mutat. Res.,308, 43-51.
31. Maniatis,T., Fritsch,E.F. and Sambrook,J. (1982) Molecular Cloning: A Laboratory Manual. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY.
32. Adams,A, Gottschling,D.E., Kaise,C.A. and Streams,T. (1997) Methods in Yeast Genetics. Cold Spring Harbor Laboratory Press, Plainview, NY.
33. Gietz,R.D. and Woods,R.A. (1994) High efficiency transformation with lithium acetate. In Johnston,J.R. (ed.), Molecular Genetics of Yeast - A Practical Approach. IRL Press, Oxford, UK, pp. 121-134.
34. 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 yeast strains. Genetics, 116, 541-545.
35. Wach,A., Brachat,A., Poehlmann,R. and Philippsen,P. (1994) New heterologous modules for classical or PCR-based gene disruptions in Saccharomyces cerevisiae. Yeast, 10, 1793-1808.
36. Malagon,F. and Aguilera,A. (1999) Construction and genetic analysis of S. cerevisiae deletants of six novel ORFs from chromosome II. Yeast, 15, 955-961.
37. Yamamoto,T., Moerschell,R.P., Wakem,L.P., Ferguson,D. and Sherman,F. (1992) Parameters affecting the frequencies of transformation and co-transformation with synthetic oligonucleotides in yeast. Yeast, 8, 935-948.
38. Yuan,F., Zhang,Y., Rajpal,D.K., Wu,X., Guo,D., Wang,M., Taylor,J.S. and Wang,Z. (2000) Specificity of DNA lesion bypass by the yeast DNA polymerase η. J. Biol. Chem., 275, 8233-8239.
39. Ohashi,E., Ogi,T., Kusumoto,R., Iwai,S., Masutani,C., Hanaoka,F. and Ohmori,H. (2000) Error-prone bypass of certain DNA lesions by the human DNA polymerase κ. Genes Dev., 14, 1589-1594.
40. Zhang,Y., Yuan,F., Wu,X., Wang,M., Rechkoblit,O., Taylor,J.S., Geacintov,N.E. and Wang,Z. (2000) Error-free and error-prone lesion bypass by human DNA polymerase κ in vitro. Nucleic Acids Res., 28, 4138-4146.
41. Zhang,Y., Yuan,F., Wu,X., Taylor,J.S. and Wang,Z. (2001) Response of human DNA polymerase ι to DNA lesions. Nucleic Acids Res., 29, 928-935.
42. Avkin,S., Adar,S., Blander,G. and Livneh,Z. (2002) Quantitative measurement of translesion replication in human cells: evidence for bypass of abasic sites by a replicative DNA polymerase. Proc. Natl Acad. Sci. USA, 99, 3764-3769.