Escherichia coli DNA polymerase IV contributes to spontaneous mutagenesis at coding sequences but not microsatellite alleles

Mutation Research - Fundamental and Molecular Mechanisms of Mutagenesis

Volumn 619, Issue 1-2, 2007, Pages 93-103

  Jacob, Kimberly D ^a   Eckert, Kristin A ^a  

^a PENN STATE CANCER INSTITUTE   (United States)

Author keywords

dinB; Dinucleotide; Microsatellite mutation; Mononucleotide

Indexed keywords

BACTERIAL DNA; DNA POLYMERASE; DNA POLYMERASE IV; GENE PRODUCT; THYMIDINE KINASE; UNCLASSIFIED DRUG;

ALLELE; ARTICLE; CONTROLLED STUDY; ESCHERICHIA COLI; GENE MUTATION; HERPES SIMPLEX VIRUS; MUTAGENESIS; MUTATION RATE; NONHUMAN; PRIORITY JOURNAL; STATISTICAL SIGNIFICANCE;

ALLELES; BASE SEQUENCE; DNA MISMATCH REPAIR; DNA POLYMERASE BETA; DNA, BACTERIAL; ESCHERICHIA COLI; ESCHERICHIA COLI PROTEINS; GENES, BACTERIAL; GENES, REPORTER; MICROSATELLITE REPEATS; MUTAGENESIS; MUTATION; SIMPLEXVIRUS; THYMIDINE KINASE;

ESCHERICHIA COLI; SIMPLEXVIRUS;

EID: 34247140642     PISSN: 00275107     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.mrfmmm.2007.02.007     Document Type: Article

References (39)

1. Beckman J.S., and Weber J.L. Survey of human and rat microsatellites. Genomics 12 (1992) 627-631
2. Debrauwere H., Gendrel C.G., Lechat S., and Dutreix M. Differences and similarities between various tandem repeat sequences: minisatellites and microsatellites. Biochimie 79 (1997) 577-586
3. Tautz D., and Renz M. Simple sequences are ubiquitous repetitive components of eukaryotic genomes. Nucleic Acids Res 12 (1984) 4127-4138
4. Vogt P. Potential genetic functions of tandem repeated DNA sequence blocks in the human genome are based on a highly conserved chromatin folding code. Hum Genet 84 (1990) 301-336
5. Stallings R.L. Conservation and evolution of (CT)n/(GA)n microsatellite sequences at orthologous positions in diverse mammalian genomes. Genomics 25 (1995) 107-113
6. Stallings R.L., Ford A.F., Nelson D., Torney D.C., Hildebrand C.E., and Moyzis R.K. Evolution and distribution of (GT)n repetitive sequences in mammalian genomes. Genomics 10 (1991) 807-815
7. Katti M.V., Ranjekar P.K., and Gupta V.S. Differential distribution of simple sequence repeats in eukaryotic genome sequences. Mol Biol Evol 18 (2001) 1161-1167
8. Toth G., Gaspari Z., and Jurka J. Microsatellites in different eukaryotic genomes: survey and analysis. Genome Res 10 (2000) 967-981
9. Wierdl M., Dominska M., and Petes T.D. Microsatellite instability in yeast: dependence on the length of the microsatellite. Genetics 146 (1997) 769-779
10. Eckert K.A., Yan G., and Hile S.E. Mutation rate and specificity analysis of tetranucleotide microsatellite DNA alleles in somatic human cells. Mol Carcinog 34 (2002) 140-150
11. Sia E.A., Kokoska R.J., Dominska M., Greenwell P., and Petes T.D. Microsatellite instability in yeast: dependence on repeat unit size and DNA mismatch repair genes. Mol Cell Biol 17 (1997) 2851-2858
12. Tran H.T., Keen J.D., Kricker M., Resnick M.A., and Gordenin D.A. Hypermutability of homonucleotide runs in mismatch repair and DNA polymerase proofreading yeast mutants. Mol Cell Biol 17 (1997) 2859-2865
13. Eckert K., and Yan G. Mutational analysis of dinucleotide and tetranucleotide microsatellite in Escherichia coli: influence of sequence on expansion mutagenesis. Nucleic Acids Res 28 (2000) 2831-2838
14. Streisinger G., Okada Y., Emrich J., Newton J., Tsugita A., Terzaghi E., and Inouye M. Frameshift mutations and the genetic code. This paper is dedicated to Professor Theodosius Dobzhansky on the occasion of his 66th birthday. Cold Spring Harb Symp Quant Biol 31 (1966) 77-84
15. Streisinger G., and Owen J. Mechanisms of spontaneous and induced frameshift mutation in bacteriophage T4. Genetics 109 (1985) 633-659
16. Levinson G., and Gutman G.A. Slipped-strand mispairing: a major mechanism for DNA sequence evolution. Mol Biol Evol 4 (1987) 203-221
17. Kroutil L.C., Register K., Bebenek K., and Kunkel T.A. Exonucleolytic proofreading during replication of repetitive DNA. Biochemistry 35 (1996) 1046-1053
18. Sagher D., Hsu A., and Strauss B. Stabilization of the intermediate in frameshift mutation. Mutat Res 423 (1999) 73-77
19. Strand M., Prolla T.A., Liskay R.M., and Petes T.D. Destabilization of tracts of simple repetitive DNA in yeast by mutations affecting DNA mismatch repair. Nature 365 (1993) 274-276
20. Wagner J., Gruz P., Kim S., Yamada M., Matsui K., Fuchs R., and Nohmi T. The dinB gene encodes a novel E. coli DNA polymerase, DNA Pol IV, involved in mutagenesis. Mol Cell 4 (1999) 281-286
21. Wagner J., and Nohmi T. Escherichia coli DNA polymerase IV mutator activity: genetic requirements and mutational specificity. J Bacteriol 182 (2000) 4587-4595
22. Kim S., Maenhaut-Michel G., Yamada M., Yamamoto Y., Matsui K., Sofuni T., Nohmi T., and Ohmori H. Multiple pathways for SOS-induced mutagenesis in Escherichia coli: an overexperssion of dinB/dinP results in strongly enhancing mutagenesis in the absence of any exogenous treatment to damage DNA. Proc Nat Acad Sci USA 94 (1997) 13792-13797
23. Strauss B., Roberts R., Francis L., and Pouryazdanparast P. Role of the dinB gene product in spontaneous mutation in Escherichia coli with an impared replicative polymerase. J Bacteriol 182 (2000) 6742-6750
24. Kim S.R., Matsui K., Yamada M., Gruz P., and Nohmi T. Roles of chromosomal and episomal dinB genes encoding DNA pol IV targeted and untargeted mutagenesis in Escherichia coli. Mol Genet Genomics 266 (2001) 207-215
25. Eckert K.A., and Drinkwater N.R. recA-dependent and recA-independent N-ethyl-N-nitrosourea mutagenesis at a plasmid-encoded herpes simplex virus thymidine kinase gene in Escherichia coli. Mutat Res 178 (1987) 1-10
26. McKenzie G.J., Harris R.S., Lee P.L., and Rosenberg S.M. The SOS response regulates adaptive mutation. Proc Natl Acad Sci USA 97 (2000) 6646-6651
27. McKenzie G.J., Lee P.L., Lombardo M.J., Hastings P.J., and Rosenberg S.M. SOS mutator DNA polymerase IV functions in adaptive mutation and not adaptive amplification. Mol Cell 7 (2001) 571-579
28. Eckert K.A., Ingle C.A., Klinedinst D.K., and Drinkwater N.R. Molecular analysis of mutations induced in human cells by N-ethyl-N-nitrosourea. Mol Carcinog 1 (1988) 50-56
29. Summers W.C., and Raksin P. A method for selection of mutations at the tdk locus in Escherichia coli. J Bacteriol 175 (1993) 6049-6051
30. Hile S., Yan G., and Eckert K. Somatic mutation rates and specificities at TC/AG and GT/CA microsatellite sequences in nontumorigenic human lymphoblastoid cells. Cancer Res 60 (2000) 1698-1703
31. Eckert K., Hile S., and Vargo P. Development and use of an in vitro HSV-tk forward mutation assay to study eukaryotic DNA polymerase processing of DNA alkyl lesions. Nucleic Acids Res 25 (1997) 1450-1457
32. Kuban W., Jonczyk P., Gawel D., Malanowska K., Schaaper R.M., and Fijalkowska I.J. Role of Escherichia coli DNA polymerase IV in in vivo replication fidelity. J Bacteriol 186 (2004) 4802-4807
33. Layton J.C., and Foster P.L. Error-prone DNA polymerase IV is controlled by the stress-response sigma factor, RpoS, in Escherichia coli. Mol Microbiol 50 (2003) 549-561
34. Wolff E., Kim M., Hu K., Yang H., and Miller J.H. Polymerases leave fingerprints: analysis of the mutational spectrum in Escherichia coli rpoB to assess the role of polymerase IV in spontaneous mutation. J Bacteriol 186 (2004) 2900-2905
35. McKenzie G.J., Magner D.B., Lee P.L., and Rosenberg S.M. The dinB operon and spontaneous mutation in Escherichia coli. J Bacteriol 185 (2003) 3972-3977
36. Kuban W., Banach-Orlowska M., Bialoskorska M., Lipowska A., Schaaper R.M., Jonczyk P., and Fijalkowska I.J. Mutator phenotype resulting from DNA polymerase IV overproduction in Escherichia coli: preferential mutagenesis on the lagging strand. J Bacteriol 187 (2005) 6862-6866
37. Gragg H., Harfe B.D., and Jinks-Robertson S. Base composition of mononucleotide runs affects DNA polymerase slippage and removal of frameshift intermediates by mismatch repair in Saccharomyces cerevisiae. Mol Cell Biol 22 (2002) 8756-8762
38. Morel P., Reverdy C., Michel B., Ehrlich S.D., and Cassuto E. The role of SOS and flap processing in microsatellite instability in Escherichia coli. Proc Natl Acad Sci USA 95 (1998) 10003-10008
39. Samuels M.L., and Witmer J.A. Statistics for the Life Sciences (2003), Prentice Hall, Upper Saddle River