When replication travels on damaged templates: Bumps and blocks in the road

Research in Microbiology

Volumn 155, Issue 4, 2004, Pages 231-237

  Courcelle, Justin ^a   Belle, Jerilyn J ^a   Courcelle, Charmain T ^a  

^a MISSISSIPPI STATE UNIVERSITY   (United States)

Author keywords

Escherichia coli; Genomic template; Replication

Indexed keywords

DNA BASE;

DNA RECOMBINATION; DNA REPAIR; DNA REPLICATION; DNA STRAND; DNA SYNTHESIS; DNA TEMPLATE; ESCHERICHIA COLI; GENOME; KILLER CELL; MOLECULAR EVOLUTION; MUTAGENESIS; NONHUMAN; PRIORITY JOURNAL; SHORT SURVEY;

DNA DAMAGE; DNA REPAIR; DNA REPLICATION; ESCHERICHIA COLI; ESCHERICHIA COLI PROTEINS;

ESCHERICHIA COLI;

EID: 2442552917     PISSN: 09232508     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.resmic.2004.01.018     Document Type: Short Survey

References (73)

1. Bagg A., Kenyon C.J., Walker G.C. Inducibility of a gene product required for UV and chemical mutagenesis in Escherichia coli. Proc. Natl. Acad. Sci. USA. 78:1981;5749-5753
2. Bonner C.A., Hays S., McEntee K., Goodman M.F. DNA polymerase II is encoded by the DNA damage-inducible dinA gene of Escherichia coli. Proc. Natl. Acad. Sci. USA. 87:1990;7663-7667
3. Bork J.M., Cox M.M., Inman R.B. The RecOR proteins modulate RecA protein function at 5′ -ends of single-stranded DNA. EMBO J. 20:2001;7313-7322
4. Chan G.L., Doetsch P.W., Haseltine W.A. Cyclobutane pyrimidine dimers and (6-4) photoproducts block polymerization by DNA polymerase I. Biochemistry. 24:1985;5723-5728
5. Chen H., Bryan S.K., Moses R.E. Cloning the polB gene of Escherichia coli and identification of its product. J. Biol. Chem. 264:1989;20591-20595
6. Chow K.H., Courcelle J. RecO acts with RecF and RecR to protect and maintain replication forks blocked by UV-induced DNA damage in Escherichia coli. J. Biol. Chem. 2003;. in press
7. C.T. Courcelle, J. Courcelle, manuscript in preparation
8. Courcelle J., Crowley D.J., Hanawalt P.C. Recovery of DNA replication in UV-irradiated Escherichia coli requires both excision repair and recF protein function. J. Bacteriol. 181:1999;916-922
9. Courcelle J., Donaldson J.R., Chow K.H., Courcelle C.T. DNA damage-induced replication fork regression and processing in Escherichia coli. Science. 299:2003;1064-1067
10. Courcelle J., Hanawalt P.C. RecQ and RecJ process blocked replication forks prior to the resumption of replication in UV-irradiated Escherichia coli. Mol. Gen. Genet. 262:1999;543-551
11. Courcelle J., Hanawalt P.C. Participation of recombination proteins in rescue of arrested replication forks in UV-irradiated Escherichia coli need not involve recombination. Proc. Natl. Acad. Sci. USA. 98:2001;8196-8202
12. Courcelle J., Hanawalt P.C. RecA-dependent recovery of arrested DNA replication forks. Annu. Rev. Genet. 37:2003;611-646
13. Courcelle J., Khodursky A., Peter B., Brown P.O., Hanawalt P.C. Comparative gene expression profiles following UV exposure in wild-type and SOS-deficient Escherichia coli. Genetics. 158:2001;41-64
14. Courcelle J., Carswell-Crumpton C., Hanawalt P.C. recF and recR are required for the resumption of replication at DNA replication forks in Escherichia coli. Proc. Natl. Acad. Sci. USA. 94:1997;3714-3719
15. + regulates cell cycle checkpoint control and is homologous to the Bloom's syndrome disease gene. Mol. Cell. Biol. 18:1998;2721-2728
16. Dhar P.K., Devi S., Rao T.R., Kumari U., Joseph A., Kumar M.R., Nayak S., Shreemati Y., Bhat S.M., Bhat K.R. Significance of lymphocytic sister chromatid exchange frequencies in ovarian cancer patients. Cancer Genet. Cytogen. 89:1996;105-108
17. Donaldson J.R., Courcelle C.T., Courcellle J. RuvAB and RecG are not essential for the recovery of DNA synthesis following UV-induced DNA damage in Escherichia coli. Genetics. 2004;. in press
18. Donmez H., Ozkul Y., Ucak R. Sister chromatid exchange frequency in inhabitants exposed to asbestos in Turkey. Mutat. Res. 361:1996;129-132
19. Ellis N.A., Groden J., Ye T.Z., Straughen J., Lennon D.J., Ciocci S., Proytcheva M., German J. The Bloom's syndrome gene product is homologous to RecQ helicases. Cell. 83:1995;655-666
20. Friedberg E.C., Walker G.C., Siede W. DNA Repair and Mutagenesis. 1995;American Society for Microbiology, Washington, DC
21. Ganesan A.K., Smith K.C. The duration of recovery and repair in excision-deficient derivatives of Escherichia coli K-12 after ultraviolet light irradiation. Mol. Gen. Genet. 113:1971;285-296
22. Ganesan A.K. Persistence of pyrimidine dimers during post-replication repair in ultraviolet light-irradiated Escherichia coli. J. Mol. Biol. 87:1974;103-119
23. Gray M.D., Shen J.C., Kamath-Loeb A.S., Blank A., Sopher B.L., Martin G.M., Oshima J., Loeb L.A. The Werner syndrome protein is a DNA helicase. Nat. Genet. 17:1997;100-103
24. Hegde S., Sandler S.J., Clark A.J., Madiraju M.V. recO and recR mutations delay induction of the SOS response in Escherichia coli. Mol. Gen. Genet. 246:1995;254-258
25. Higuchi K., Katayama T., Iwai S., Hidaka M., Horiuchi T., Maki H. Fate of DNA replication fork encountering a single DNA lesion during oriC plasmid DNA replication in vitro. Genes Cells. 8:2003;437-449
26. Hiom K., Tsaneva I.R., West S.C. The directionality of RuvAB-mediated branch migration: in vitro studies with three-armed junctions. Genes Cells. 1:1996;443-451
27. Horii Z., Clark A.J. Genetic analysis of the recF pathway to genetic recombination in Escherichia coli K-12: Isolation and characterization of mutants. J. Mol. Biol. 80:1973;327-344
28. Horii Z.I., Suzuki K. Degradation of the DNA of Escherichia coli K-12 rec- (JC1569b) after irradiation with ultraviolet light. Photochem. photobiol. 8:1968;93-105
29. Howard-Flanders P., Theriot L., Stedeford J.B. Some properties of excision-defective recombination-deficient mutants of Escherichia coli K-12. J. Bacteriol. 97:1969;1134-1141
30. Husain S.A., Balasubramanian S., Bamezai R. Sister chromatid exchange frequency in breast cancer cases. Cancer Genet. Cytogen. 61:1992;142-146
31. Iwasaki H., Nakata A., Walker G.C., Shinagawa H. The Escherichia coli polB gene, which encodes DNA polymerase II, is regulated by the SOS system. J. Bacteriol. 172:1990;6268-6273
32. Kantake N., Madiraju M.V., Sugiyama T., Kowalczykowski S.C. Escherichia coli RecO protein anneals ssDNA complexed with its cognate ssDNA-binding protein: A common step in genetic recombination. Proc. Natl. Acad. Sci. USA. 99:2002;15327-15332
33. Karow J.K., Chakraverty R.K., Hickson I.D. The Bloom's syndrome gene product is a 3′ - 5′ DNA helicase. J. Biol. Chem. 272:1997;30611-30614
34. Kato T., Shinoura Y. Isolation and characterization of mutants of Escherichia coli deficient in induction of mutations by ultraviolet light. Mol. Gen. Genet. 156:1977;121-131
35. Kenyon C.J., Walker G.C. DNA-damaging agents stimulate gene expression at specific loci in Escherichia coli. Proc. Natl. Acad. Sci. USA. 77:1980;2819-2823
36. Kolodner R., Fishel R.A., Howard M. Genetic recombination of bacterial plasmid DNA: Effect of RecF pathway mutations on plasmid recombination in Escherichia coli. J. Bacteriol. 163:1985;1060-1066
37. Kowalczykowski S.C., Dixon D.A., Eggleston A.K., Lauder S.D., Rehrauer W.M. Biochemistry of homologous recombination in Escherichia coli. Microbiol. Rev. 58:1994;401-465
38. Lloyd R.G., Benson F.E., Shurvinton C.E. Effect of ruv mutations on recombination and DNA repair in Escherichia coli K-12. Mol. Gen. Genet. 194:1984;303-309
39. Lovett S.T., Kolodner R.D. Identification and purification of a single-stranded-DNA-specific exonuclease encoded by the recJ gene of Escherichia coli. Proc. Natl. Acad. Sci. USA. 86:1989;2627-2631
40. Mahdi A.A., Lloyd R.G. Identification of the recR locus of Escherichia coli K-12 and analysis of its role in recombination and DNA repair. Mol. Gen. Genet. 216:1989;503-510
41. Marians K.J. Prokaryotic DNA replication. Annu. Rev. Biochem. 61:1992;673-719
42. Mitchell D.L., Haipek C.A., Clarkson J.M. (6-4) Photoproducts are removed from the DNA of UV-irradiated mammalian cells more efficiently than cyclobutane pyrimidine dimers. Mutat. Res. 143:1985;109-112
43. Mitchell D.L., Nairn R.S. The biology of the (6-4) photoproduct. Photochem. Photobiol. 49:1989;805-819
44. Murray J.M., Lindsay H.D., Munday C.A., Carr A.M. Role of Schizosaccharomyces pombe RecQ homolog, recombination, and checkpoint genes in UV damage tolerance. Mol. Cell. Biol. 17:1997;6868-6875
45. Murthy M.K., Bhargava M.K., Augustus M. Sister chromatid exchange studies in oral cancer patients. Indian J. Cancer. 34:1997;49-58
46. Napolitano R., Janel-Bintz R., Wagner J., Fuchs R.P. All three SOS-inducible DNA polymerases (Pol II, Pol IV and Pol V) are involved in induced mutagenesis. EMBO J. 19:2000;6259-6265
47. Ohmori H., Hatada E., Qiao Y., Tsuji M., Fukuda R. dinP, a new gene in Escherichia coli, whose product shows similarities to UmuC and its homologues. Mutat. Res. 347:1995;1-7
48. Pages V., Fuchs R.P. Uncoupling of leading- and lagging-strand DNA replication during lesion bypass in vivo. Science. 300:2003;1300-1303
49. Postow L., Ullsperger C., Keller R.W., Bustamante C., Vologodskii A.V., Cozzarelli N.R. Positive torsional strain causes the formation of a four-way junction at replication forks. J. Biol. Chem. 276:2001;2790-2796
50. Qiu Z., Goodman M.F. The Escherichia coli polB locus is identical to dinA, the structural gene for DNA polymerase II: Characterization of Pol II purified from a polB mutant. J. Biol. Chem. 272:1997;8611-8617
51. Rangarajan S., Woodgate R., Goodman M.F. A phenotype for enigmatic DNA polymerase II: A pivotal role for pol II in replication restart in UV-irradiated Escherichia coli. Proc. Natl. Acad. Sci. USA. 96:1999;9224-9229
52. Reuven N.B., Arad G., Maor-Shoshani A., Livneh Z. The mutagenesis protein UmuC is a DNA polymerase activated by UmuD′, RecA, and SSB and is specialized for translesion replication. J. Biol. Chem. 274:1999;31763-31766
53. Rothman R.H., Kato T., Clark A.J. The beginning of an investigation of the role of recF in the pathways of metabolism of ultraviolet-irradiated DNA in Escherichia coli. Basic Life Sci. 5A:1975;283-291
54. Rupp W.D., Howard-Flanders P. Discontinuities in the DNA synthesized in an excision-defective strain of Escherichia coli following ultraviolet irradiation. J. Mol. Biol. 31:1968;291-304
55. Rupp W.D., Wilde C.E.I.I.I., Reno D.L., Howard-Flanders P. Exchanges between DNA strand in ultraviolet-irradiated Escherichia coli. J. Mol. Biol. 61:1971;25-44
56. Sancar A. DNA excision repair. Annu. Rev. Biochem. 65:1996;43-81
57. Sekelsky J.J., Brodsky M.H., Rubin G.M., Hawley R.S. Drosophila and human RecQ5 exist in different isoforms generated by alternative splicing. Nucleic Acids Res. 27:1999;3762-3769
58. Setlow R.B., Swenson P.A., Carrier W.L. Thymine dimers and inhibition of DNA synthesis by ultraviolet irradiation of cells. Science. 142:1963;1464-1466
59. Shan Q., Bork J.M., Webb B.L., Inman R.B., Cox M.M. RecA protein filaments: End-dependent dissociation from ssDNA stabilization by RecO and RecR proteins. J. Mol. Biol. 265:1997;519-540
60. Sommer S., Boudsocq F., Devoret R., Bailone A. Specific RecA amino acid changes affect RecA-UmuD′C interaction. Mol. Microbiol. 28:1998;281-291
61. +, a fission yeast gene related to the Bloom's and Werner's syndrome genes, is required for reversible S phase arrest. EMBO J. 16:1997;2682-2692
62. Tang M., Pham P., Shen X., Taylor J.S., O'Donnell M., Woodgate R., Goodman M.F. Roles of E. coli DNA polymerases IV and V in lesion-targeted and untargeted SOS mutagenesis. Nature. 404:2000;1014-1018
63. Tang M., Shen X., Frank E.G., O'Donnell M., Woodgate R., Goodman M.F. UmuD′(2)C is an error-prone DNA polymerase, Escherichia coli pol V. Proc. Natl. Acad. Sci. USA. 96:1999;8919-8924
64. Thoms B., Wackernagel W. Regulatory role of recF in the SOS response of Escherichia coli: Impaired induction of SOS genes by UV irradiation and nalidixic acid in a recF mutant. J. Bacteriol. 169:1987;1731-1736
65. Umezu K., Nakayama K., Nakayama H. Escherichia coli RecQ protein is a DNA helicase. published erratum appears in Proc. Natl. Acad. Sci. USA. 87:(22):1990 Nov;9072 Proc. Natl. Acad. Sci. USA. 87:1990;5363-5367
66. Wagner J., Gruz P., Kim S.R., Yamada M., Matsui K., Fuchs R.P., Nohmi T. The dinB gene encodes a novel E. coli DNA polymerase, DNA pol IV, involved in mutagenesis. Mol. Cell. 4:1999;281-286
67. Watt P.M., Hickson I.D., Borts R.H., Louis E.J. SGS1, a homologue of the Bloom's and Werner's syndrome genes, is required for maintenance of genome stability in Saccharomyces cerevisiae. Genetics. 144:1996;935-945
68. Watt P.M., Louis E.J., Borts R.H., Hickson I.D. Sgs1: An eukaryotic homolog of E. coli RecQ that interacts with topoisomerase II in vivo and is required for faithful chromosome segregation. Cell. 81:1995;253-260
69. Webb B.L., Cox M.M., Inman R.B. An interaction between the Escherichia coli RecF and RecR proteins dependent on ATP and double-stranded DNA. J. Biol. Chem. 270:1995;31397-31404
70. Webb B.L., Cox M.M., Inman R.B. Recombinational DNA repair: The RecF and RecR proteins limit the extension of RecA filaments beyond single-strand DNA gaps. Cell. 91:1997;347-356
71. Whitby M.C., Lloyd R.G. Altered SOS induction associated with mutations in recF, recO and recR. Mol. Gen. Genet. 246:1995;174-179
72. Whitby M.C., Vincent S.D., Lloyd R.G. Branch migration of Holliday junctions: Identification of RecG protein as a junction specific DNA helicase. EMBO J. 13:1994;5220-5228
73. Yamagata K., Kato J., Shimamoto A., Goto M., Furuichi Y., Ikeda H. Bloom's and Werner's syndrome genes suppress hyperrecombination in yeast sgs1 mutant: Implication for genomic instability in human diseases. Proc. Natl. Acad. Sci. USA. 95:1998;8733-8738