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. 1996 Dec;178(23):6651–6657. doi: 10.1128/jb.178.23.6651-6657.1996

Role of mismatch repair in the Escherichia coli UVM response.

H S Murphy 1, V A Palejwala 1, M S Rahman 1, P M Dunman 1, G Wang 1, M Z Humayun 1
PMCID: PMC178557  PMID: 8955278

Abstract

Mutagenesis at 3,N4-ethenocytosine (epsilonC), a nonpairing mutagenic lesion, is significantly enhanced in Escherichia coli cells pretreated with UV, alkylating agents, or H2O2. This effect, termed UVM (for UV modulation of mutagenesis), is distinct from known DNA damage-inducible responses, such as the SOS response, the adaptive response to alkylating agents, or the oxyR-mediated response to oxidative agents. Here, we have addressed the hypothesis that UVM results from transient depletion of a mismatch repair activity that normally acts to reduce mutagenesis. To test whether the loss of mismatch repair activities results in the predicted constitutive UVM phenotype, E. coli cells defective for methyl-directed mismatch repair, for very-short-patch repair, or for the N-glycosylase activities MutY and MutM were treated with the UVM-inducing agent 1-methyl-3-nitro-1-nitrosoguanidine, with subsequent transfection of M13 viral single-stranded DNA bearing a site-specific epsilonC lesion. Survival of the M13 DNA was measured as transfection efficiency, and mutation fixation at the lesion was characterized by multiplex sequencing technology. The results showed normal UVM induction patterns in all the repair-defective strains tested. In addition, normal UVM induction was observed in cells overexpressing MutH, MutL, or MutS. All strains displayed UVM reactivation, the term used to describe the increased survival of epsilonC-containing DNA in UVM-induced cells. Taken together, these results indicate that the UVM response is independent of known mismatch repair systems in E. coli and may thus represent a previously unrecognized misrepair or misreplication pathway.

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Selected References

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  1. Au K. G., Cabrera M., Miller J. H., Modrich P. Escherichia coli mutY gene product is required for specific A-G----C.G mismatch correction. Proc Natl Acad Sci U S A. 1988 Dec;85(23):9163–9166. doi: 10.1073/pnas.85.23.9163. [DOI] [PMC free article] [PubMed] [Google Scholar]
  2. Au K. G., Clark S., Miller J. H., Modrich P. Escherichia coli mutY gene encodes an adenine glycosylase active on G-A mispairs. Proc Natl Acad Sci U S A. 1989 Nov;86(22):8877–8881. doi: 10.1073/pnas.86.22.8877. [DOI] [PMC free article] [PubMed] [Google Scholar]
  3. Banerjee S. K., Christensen R. B., Lawrence C. W., LeClerc J. E. Frequency and spectrum of mutations produced by a single cis-syn thymine-thymine cyclobutane dimer in a single-stranded vector. Proc Natl Acad Sci U S A. 1988 Nov;85(21):8141–8145. doi: 10.1073/pnas.85.21.8141. [DOI] [PMC free article] [PubMed] [Google Scholar]
  4. Barbin A., Bartsch H. Mutagenic and promutagenic properties of DNA adducts formed by vinyl chloride metabolites. IARC Sci Publ. 1986;(70):345–358. [PubMed] [Google Scholar]
  5. Chen H. J., Chung F. L. Formation of etheno adducts in reactions of enals via autoxidation. Chem Res Toxicol. 1994 Nov-Dec;7(6):857–860. doi: 10.1021/tx00042a021. [DOI] [PubMed] [Google Scholar]
  6. Dzidic S., Radman M. Genetic requirements for hyper-recombination by very short patch mismatch repair: involvement of Escherichia coli DNA polymerase I. Mol Gen Genet. 1989 Jun;217(2-3):254–256. doi: 10.1007/BF02464889. [DOI] [PubMed] [Google Scholar]
  7. Echols H., Goodman M. F. Fidelity mechanisms in DNA replication. Annu Rev Biochem. 1991;60:477–511. doi: 10.1146/annurev.bi.60.070191.002401. [DOI] [PubMed] [Google Scholar]
  8. Feng W. Y., Lee E. H., Hays J. B. Recombinagenic processing of UV-light photoproducts in nonreplicating phage DNA by the Escherichia coli methyl-directed mismatch repair system. Genetics. 1991 Dec;129(4):1007–1020. doi: 10.1093/genetics/129.4.1007. [DOI] [PMC free article] [PubMed] [Google Scholar]
  9. Grilley M., Holmes J., Yashar B., Modrich P. Mechanisms of DNA-mismatch correction. Mutat Res. 1990 Sep-Nov;236(2-3):253–267. doi: 10.1016/0921-8777(90)90009-t. [DOI] [PubMed] [Google Scholar]
  10. Grollman A. P., Moriya M. Mutagenesis by 8-oxoguanine: an enemy within. Trends Genet. 1993 Jul;9(7):246–249. doi: 10.1016/0168-9525(93)90089-z. [DOI] [PubMed] [Google Scholar]
  11. Hennecke F., Kolmar H., Bründl K., Fritz H. J. The vsr gene product of E. coli K-12 is a strand- and sequence-specific DNA mismatch endonuclease. Nature. 1991 Oct 24;353(6346):776–778. doi: 10.1038/353776a0. [DOI] [PubMed] [Google Scholar]
  12. Jones M., Wagner R., Radman M. Mismatch repair and recombination in E. coli. Cell. 1987 Aug 14;50(4):621–626. doi: 10.1016/0092-8674(87)90035-3. [DOI] [PubMed] [Google Scholar]
  13. Jones M., Wagner R., Radman M. Mismatch repair of deaminated 5-methyl-cytosine. J Mol Biol. 1987 Mar 5;194(1):155–159. doi: 10.1016/0022-2836(87)90724-8. [DOI] [PubMed] [Google Scholar]
  14. Joyce C. M., Grindley N. D. Method for determining whether a gene of Escherichia coli is essential: application to the polA gene. J Bacteriol. 1984 May;158(2):636–643. doi: 10.1128/jb.158.2.636-643.1984. [DOI] [PMC free article] [PubMed] [Google Scholar]
  15. Kramer B., Kramer W., Fritz H. J. Different base/base mismatches are corrected with different efficiencies by the methyl-directed DNA mismatch-repair system of E. coli. Cell. 1984 Oct;38(3):879–887. doi: 10.1016/0092-8674(84)90283-6. [DOI] [PubMed] [Google Scholar]
  16. Leithauser M. T., Liem A., Stewart B. C., Miller E. C., Miller J. A. 1,N6-ethenoadenosine formation, mutagenicity and murine tumor induction as indicators of the generation of an electrophilic epoxide metabolite of the closely related carcinogens ethyl carbamate (urethane) and vinyl carbamate. Carcinogenesis. 1990 Mar;11(3):463–473. doi: 10.1093/carcin/11.3.463. [DOI] [PubMed] [Google Scholar]
  17. Leong P. M., Hsia H. C., Miller J. H. Analysis of spontaneous base substitutions generated in mismatch-repair-deficient strains of Escherichia coli. J Bacteriol. 1986 Oct;168(1):412–416. doi: 10.1128/jb.168.1.412-416.1986. [DOI] [PMC free article] [PubMed] [Google Scholar]
  18. Lieb M., Allen E., Read D. Very short patch mismatch repair in phage lambda: repair sites and length of repair tracts. Genetics. 1986 Dec;114(4):1041–1060. doi: 10.1093/genetics/114.4.1041. [DOI] [PMC free article] [PubMed] [Google Scholar]
  19. Lieb M. Bacterial genes mutL, mutS, and dcm participate in repair of mismatches at 5-methylcytosine sites. J Bacteriol. 1987 Nov;169(11):5241–5246. doi: 10.1128/jb.169.11.5241-5246.1987. [DOI] [PMC free article] [PubMed] [Google Scholar]
  20. Lieb M. Spontaneous mutation at a 5-methylcytosine hotspot is prevented by very short patch (VSP) mismatch repair. Genetics. 1991 May;128(1):23–27. doi: 10.1093/genetics/128.1.23. [DOI] [PMC free article] [PubMed] [Google Scholar]
  21. Lu A. L., Clark S., Modrich P. Methyl-directed repair of DNA base-pair mismatches in vitro. Proc Natl Acad Sci U S A. 1983 Aug;80(15):4639–4643. doi: 10.1073/pnas.80.15.4639. [DOI] [PMC free article] [PubMed] [Google Scholar]
  22. Maas W. K., Wang C., Lima T., Hach A., Lim D. Multicopy single-stranded DNA of Escherichia coli enhances mutation and recombination frequencies by titrating MutS protein. Mol Microbiol. 1996 Feb;19(3):505–509. doi: 10.1046/j.1365-2958.1996.392921.x. [DOI] [PubMed] [Google Scholar]
  23. Maas W. K., Wang C., Lima T., Zubay G., Lim D. Multicopy single-stranded DNAs with mismatched base pairs are mutagenic in Escherichia coli. Mol Microbiol. 1994 Nov;14(3):437–441. doi: 10.1111/j.1365-2958.1994.tb02178.x. [DOI] [PubMed] [Google Scholar]
  24. May M. S., Hattaman S. Deoxyribonucleic acid-cytosine methylation by host- and plasmid-controlled enzymes. J Bacteriol. 1975 Apr;122(1):129–138. doi: 10.1128/jb.122.1.129-138.1975. [DOI] [PMC free article] [PubMed] [Google Scholar]
  25. Michaels M. L., Cruz C., Grollman A. P., Miller J. H. Evidence that MutY and MutM combine to prevent mutations by an oxidatively damaged form of guanine in DNA. Proc Natl Acad Sci U S A. 1992 Aug 1;89(15):7022–7025. doi: 10.1073/pnas.89.15.7022. [DOI] [PMC free article] [PubMed] [Google Scholar]
  26. Michaels M. L., Miller J. H. The GO system protects organisms from the mutagenic effect of the spontaneous lesion 8-hydroxyguanine (7,8-dihydro-8-oxoguanine). J Bacteriol. 1992 Oct;174(20):6321–6325. doi: 10.1128/jb.174.20.6321-6325.1992. [DOI] [PMC free article] [PubMed] [Google Scholar]
  27. Michaels M. L., Pham L., Cruz C., Miller J. H. MutM, a protein that prevents G.C----T.A transversions, is formamidopyrimidine-DNA glycosylase. Nucleic Acids Res. 1991 Jul 11;19(13):3629–3632. doi: 10.1093/nar/19.13.3629. [DOI] [PMC free article] [PubMed] [Google Scholar]
  28. Michaels M. L., Tchou J., Grollman A. P., Miller J. H. A repair system for 8-oxo-7,8-dihydrodeoxyguanine. Biochemistry. 1992 Nov 17;31(45):10964–10968. doi: 10.1021/bi00160a004. [DOI] [PubMed] [Google Scholar]
  29. Modrich P. Mechanisms and biological effects of mismatch repair. Annu Rev Genet. 1991;25:229–253. doi: 10.1146/annurev.ge.25.120191.001305. [DOI] [PubMed] [Google Scholar]
  30. Murli S., Walker G. C. SOS mutagenesis. Curr Opin Genet Dev. 1993 Oct;3(5):719–725. doi: 10.1016/s0959-437x(05)80089-9. [DOI] [PubMed] [Google Scholar]
  31. Nair J., Barbin A., Guichard Y., Bartsch H. 1,N6-ethenodeoxyadenosine and 3,N4-ethenodeoxycytine in liver DNA from humans and untreated rodents detected by immunoaffinity/32P-postlabeling. Carcinogenesis. 1995 Mar;16(3):613–617. doi: 10.1093/carcin/16.3.613. [DOI] [PubMed] [Google Scholar]
  32. Palejwala V. A., Pandya G. A., Bhanot O. S., Solomon J. J., Murphy H. S., Dunman P. M., Humayun M. Z. UVM, an ultraviolet-inducible RecA-independent mutagenic phenomenon in Escherichia coli. J Biol Chem. 1994 Nov 4;269(44):27433–27440. [PubMed] [Google Scholar]
  33. Palejwala V. A., Rzepka R. W., Humayun M. Z. UV irradiation of Escherichia coli modulates mutagenesis at a site-specific ethenocytosine residue on M13 DNA. Evidence for an inducible recA-independent effect. Biochemistry. 1993 Apr 20;32(15):4112–4120. doi: 10.1021/bi00066a037. [DOI] [PubMed] [Google Scholar]
  34. Palejwala V. A., Rzepka R. W., Simha D., Humayun M. Z. Quantitative multiplex sequence analysis of mutational hot spots. Frequency and specificity of mutations induced by a site-specific ethenocytosine in M13 viral DNA. Biochemistry. 1993 Apr 20;32(15):4105–4111. doi: 10.1021/bi00066a036. [DOI] [PubMed] [Google Scholar]
  35. Palejwala V. A., Simha D., Humayun M. Z. Mechanisms of mutagenesis by exocyclic DNA adducts. Transfection of M13 viral DNA bearing a site-specific adduct shows that ethenocytosine is a highly efficient RecA-independent mutagenic noninstructional lesion. Biochemistry. 1991 Sep 10;30(36):8736–8743. doi: 10.1021/bi00100a004. [DOI] [PubMed] [Google Scholar]
  36. Palejwala V. A., Wang G. E., Murphy H. S., Humayun M. Z. Functional recA, lexA, umuD, umuC, polA, and polB genes are not required for the Escherichia coli UVM response. J Bacteriol. 1995 Nov;177(21):6041–6048. doi: 10.1128/jb.177.21.6041-6048.1995. [DOI] [PMC free article] [PubMed] [Google Scholar]
  37. Palmer B. R., Marinus M. G. The dam and dcm strains of Escherichia coli--a review. Gene. 1994 May 27;143(1):1–12. doi: 10.1016/0378-1119(94)90597-5. [DOI] [PubMed] [Google Scholar]
  38. Pukkila P. J., Peterson J., Herman G., Modrich P., Meselson M. Effects of high levels of DNA adenine methylation on methyl-directed mismatch repair in Escherichia coli. Genetics. 1983 Aug;104(4):571–582. doi: 10.1093/genetics/104.4.571. [DOI] [PMC free article] [PubMed] [Google Scholar]
  39. Radicella J. P., Clark E. A., Fox M. S. Some mismatch repair activities in Escherichia coli. Proc Natl Acad Sci U S A. 1988 Dec;85(24):9674–9678. doi: 10.1073/pnas.85.24.9674. [DOI] [PMC free article] [PubMed] [Google Scholar]
  40. Radman M., Wagner R. Mismatch repair in Escherichia coli. Annu Rev Genet. 1986;20:523–538. doi: 10.1146/annurev.ge.20.120186.002515. [DOI] [PubMed] [Google Scholar]
  41. Sambamurti K., Callahan J., Luo X., Perkins C. P., Jacobsen J. S., Humayun M. Z. Mechanisms of mutagenesis by a bulky DNA lesion at the guanine N7 position. Genetics. 1988 Dec;120(4):863–873. doi: 10.1093/genetics/120.4.863. [DOI] [PMC free article] [PubMed] [Google Scholar]
  42. Schaaper R. M., Dunn R. L. Spectra of spontaneous mutations in Escherichia coli strains defective in mismatch correction: the nature of in vivo DNA replication errors. Proc Natl Acad Sci U S A. 1987 Sep;84(17):6220–6224. doi: 10.1073/pnas.84.17.6220. [DOI] [PMC free article] [PubMed] [Google Scholar]
  43. Schaaper R. M., Radman M. The extreme mutator effect of Escherichia coli mutD5 results from saturation of mismatch repair by excessive DNA replication errors. EMBO J. 1989 Nov;8(11):3511–3516. doi: 10.1002/j.1460-2075.1989.tb08516.x. [DOI] [PMC free article] [PubMed] [Google Scholar]
  44. Sohail A., Lieb M., Dar M., Bhagwat A. S. A gene required for very short patch repair in Escherichia coli is adjacent to the DNA cytosine methylase gene. J Bacteriol. 1990 Aug;172(8):4214–4221. doi: 10.1128/jb.172.8.4214-4221.1990. [DOI] [PMC free article] [PubMed] [Google Scholar]
  45. Tchou J., Kasai H., Shibutani S., Chung M. H., Laval J., Grollman A. P., Nishimura S. 8-oxoguanine (8-hydroxyguanine) DNA glycosylase and its substrate specificity. Proc Natl Acad Sci U S A. 1991 Jun 1;88(11):4690–4694. doi: 10.1073/pnas.88.11.4690. [DOI] [PMC free article] [PubMed] [Google Scholar]
  46. Tsai-Wu J. J., Radicella J. P., Lu A. L. Nucleotide sequence of the Escherichia coli micA gene required for A/G-specific mismatch repair: identity of micA and mutY. J Bacteriol. 1991 Mar;173(6):1902–1910. doi: 10.1128/jb.173.6.1902-1910.1991. [DOI] [PMC free article] [PubMed] [Google Scholar]
  47. Wagner R., Jr, Meselson M. Repair tracts in mismatched DNA heteroduplexes. Proc Natl Acad Sci U S A. 1976 Nov;73(11):4135–4139. doi: 10.1073/pnas.73.11.4135. [DOI] [PMC free article] [PubMed] [Google Scholar]
  48. Wang G., Humayun M. Z. Induction of the Escherichia coli UVM response by oxidative stress. Mol Gen Genet. 1996 Jul 19;251(5):573–579. doi: 10.1007/BF02173647. [DOI] [PubMed] [Google Scholar]
  49. Wang G., Palejwala V. A., Dunman P. M., Aviv D. H., Murphy H. S., Rahman M. S., Humayun M. Z. Alkylating agents induce UVM, a recA-independent inducible mutagenic phenomenon in Escherichia coli. Genetics. 1995 Nov;141(3):813–823. doi: 10.1093/genetics/141.3.813. [DOI] [PMC free article] [PubMed] [Google Scholar]
  50. Wu T. H., Marinus M. G. Dominant negative mutator mutations in the mutS gene of Escherichia coli. J Bacteriol. 1994 Sep;176(17):5393–5400. doi: 10.1128/jb.176.17.5393-5400.1994. [DOI] [PMC free article] [PubMed] [Google Scholar]

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