xni-deficient Escherichia coli are proficient for recombination and multiple pathways of repair

DNA Repair

Volumn 2, Issue 11, 2003, Pages 1175-1183

  Lombardo, Mary Jane ^a,c   Aponyi, Ildiko ^a   Ray, Mellanie P ^a   Sandigursky, Margarita ^b   Franklin, William A ^b   Rosenberg, Susan M ^a  

^a BAYLOR COLLEGE OF MEDICINE   (United States)

^b ALBERT EINSTEIN COLLEGE OF MEDICINE   (United States)

^c UNIVERSITY OF MARYLAND SCHOOL OF MEDICINE   (United States)

Author keywords

DNA repair; Exonucleases; Homologous recombination; Mismatch repair; xni

Indexed keywords

EXONUCLEASE; EXONUCLEASE IX; GENE PRODUCT; SINGLE STRANDED DNA; UNCLASSIFIED DRUG;

ARTICLE; CONTROLLED STUDY; DNA RECOMBINATION; DNA REPAIR; ENZYME ACTIVITY; ENZYME ANALYSIS; ESCHERICHIA COLI; GENE; GENE DELETION; GENE FUNCTION; HOMOLOGOUS RECOMBINATION; MISMATCH REPAIR; NONHUMAN; OXIDATION; PRIORITY JOURNAL; PROTEIN FAMILY; PROTEIN FUNCTION; ULTRAVIOLET RADIATION; XNI GENE;

ESCHERICHIA COLI;

EID: 0242362736     PISSN: 15687864     EISSN: None     Source Type: Journal    
DOI: 10.1016/S1568-7864(03)00135-6     Document Type: Article

References (42)

1. R.G. Lloyd, K.B. Low, Homologous recombination, in: F.C. Neidhardt, et al. (Eds.), Escherichia coli and Salmonella: Cellular and Molecular Biology, ASM Press, Washington, DC, 1996, pp. 2236-2255.
2. J.F. Petrosino, P.J. Hastings, S.M. Rosenberg, RecBCD enzyme and pathway, in: S. Brenner, J. Miller (Eds.), Encyclopedia of Genetics, Academic Press, London, 2001, pp. 1623-1631.
3. Miesel L., Roth J.R. Evidence that functions of the "RecF pathway" contribute to RecBCD-dependent transductional recombination. J. Bacteriol. 178:1996;3146-3155.
4. Razavy H., Szigety S.K., Rosenberg S.M. Evidence for both 3′- and 5′-single-strand DNA ends in intermediates in Chi stimulated recombination in vivo. Genetics. 142:1996;333-339.
5. Viswanathan M., Lovett S.T. Single-strand DNA-specific exonucleases in Escherichia coli. Roles in repair and mutation avoidance. Genetics. 149:1998;7-16.
6. Viswanathan M., Lovett S.T. Exonuclease X of Escherichia coli. A novel 3′-5′ DNase and DnaQ superfamily member involved in DNA repair. J. Biol. Chem. 274:1999;30094-30100.
7. Viswanathan M., Burdett V., Baitinger C., Modrich P., Lovett S.T. Redundant exonuclease involvement in Escherichia coli methyl-directed mismatch repair. J. Biol. Chem. 276:2001;31053-31058.
8. 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. U.S.A. 86:1989;2627-2631.
9. Lehman I.R., Nussbaum A.L. The deoxyribonucleases of Escherichia coli. V. On the specificity of Exonuclease I (phosphodiesterase). J. Biol. Chem. 239:1964;2628-2636.
10. Chase J.W., Richardson C.C. Escherichia coli mutants deficient in exonuclease VII. J. Bacteriol. 129:1977;934-947.
11. Sayers J.R. Computer aided identification of a potential 5′-3′ exonuclease gene encoded by Escherichia coli. J. Theor. Biol. 170:1994;415-421.
12. Shafritz K.M., Sandigursky M., Franklin W.A. Exonuclease IX of Escherichia coli. Nucl. Acids Res. 26:1998;2593-2597.
13. Sandigursky M., Franklin W.A. Exonuclease IX of Escherichia coli removes 3′-phosphoglycolate end groups from DNA. Radiat. Res. 150:1998;609-611.
14. D.M. Wilson III, B.P. Engelward, L. Samson, Prokaryotic base excision repair, in: J.A. Nickoloff, M.F. Hoekstra (Eds.), DNA Damage and Repair, Humana Press, Totowa, NJ, 1998, pp. 29-64.
15. Link A.J., Phillips D., Church G.M. Methods for generating precise deletions and insertions in the genome of wild-type Escherichia coli: application to open reading frame characterization. J. Bacteriol. 179:1997;6228-6237.
16. J.H. Miller, A Short Course in Bacterial Genetics, Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY, 1992.
17. Torkelson J., Harris R.S., Lombardo M.-J., Nagendran J., Thulin C., Rosenberg S.M. Genome-wide hypermutation in a subpopulation of stationary-phase cells underlies recombination-dependent adaptive mutation. EMBO J. 16:1997;3303-3311.
18. Grilley M., Griffith J., Modrich P. Bidirectional excision in methyl-directed mismatch repair. J. Biol. Chem. 268:1993;11830-11837.
19. Cooper D.L., Lahue R.S., Modrich P. Methyl-directed mismatch repair is bidirectional. J. Biol. Chem. 268:1993;11823-11829.
20. Harris R.S., Ross K.J., Lombardo M.-J., Rosenberg S.M. Mismatch repair in Escherichia coli cells lacking single-strand exonucleases ExoI, ExoVII, and RecJ. J. Bacteriol. 180:1998;989-993.
21. Burdett V., Baitinger C., Viswanathan M., Lovett S.T., Modrich P. In vivo requirement for RecJ, ExoVII, ExoI, and ExoX in methyl-directed mismatch repair. Proc. Natl. Acad. Sci. U.S.A. 98:2001;6765-6770.
22. von Borstel R.C. Measuring spontaneous mutation rates in yeast. Methods Cell Biol. 20:1978;1-24.
23. Lea D.E., Coulson C.A. The distribution of the numbers of mutants in bacterial populations. J. Genet. 49:1949;264-285.
24. Rosche W.A., Foster P.L. Determining mutation rates in bacterial populations. Methods. 20:2000;4-17.
25. Lombardo M.-J., Rosenberg S.M. radC102 of Escherichia coli is an allele of recG. J. Bacteriol. 182:2000;6287-6291.
26. Kuzminov A. Recombinational repair of DNA damage in Escherichia coli and bacteriophage lambda. Microbiol. Mol. Biol. Rev. 63:1999;751-813.
27. Philips G.J., Prasher D.C., Kushner S.R. Physical and biochemical characterization of cloned sbcB and xonA mutations from Escherichia coli. J. Bacteriol. 170:1988;2089-2094.
28. Lovett S.T., Clark A.J. Genetic analysis of the recJ gene of Escherichia coli K-12. J. Bacteriol. 157:1984;190-196.
29. Nakayama H., Nakayama K., Nakayama R., Irino N., Nakayama Y., Hanawalt P.C. Isolation and genetic characterization of a thymineless death-resistant mutant of Escherichia coli K12: identification of a new mutation (recQ1) that blocks the RecF recombination pathway. Mol. Gen. Genet. 195:1984;474-480.
30. Thaler D.S., Sampson E., Siddiqi I., Rosenberg S.M., Thomason L.C., Stahl F.W., Stahl M.M. Recombination of bacteriophage λ in recD mutants of Escherichia coli. Genome. 31:1989;53-67.
31. Lovett S.T., Luisi-de Luca C.A., Kolodner R. The dependence of recombination in recD mutants of Escherichia coli. Genetics. 129:1988;37-47.
32. Lloyd R.G. Conjugational recombination in resolvase-deficient ruvC mutants of Escherichia coli depends on recG. J. Bacteriol. 173:1991;5414-5418.
33. Sandigursky M., Franklin W.A. Exonuclease I of Escherichia coli removes phosphoglycolate 3′-end groups from DNA. Radiat. Res. 135:1993;229-233.
34. Levin J.D., Johnson A.W., Demple B. Homogeneous Escherichia coli endonuclease. IV. Characterization of an enzyme that recognizes oxidative damage in DNA. J. Biol. Chem. 263:1988;8066-8071.
35. 2-damaged Escherichia coli. Proc. Natl. Acad. Sci. U.S.A. 83:1986;7731-7735.
36. Cunningham R.P., Saporito S.M., Spitzer S.G., Weiss B. Endonuclease IV (nfo) mutant of Escherichia coli. J. Bacteriol. 168:1986;1120-1127.
37. Imlay J.A., Linn S. Mutagenesis and stress responses induced in Escherichia coli by hydrogen peroxide. J. Bacteriol. 169:1987;2967-2976.
38. Imlay J.A., Linn S. Bimodal pattern of killing of DNA-repair-defective or anoxically grown Escherichia coli by hydrogen peroxide. J. Bacteriol. 166:1986;519-527.
39. B.J. Bachmann, Derivatives and genotypes of some mutant derivatives of Escherichia coli K-12, in: F.C. Neidhardt, et al. (Eds.), Escherichia coli and Salmonella: Cellular and Molecular Biology, ASM Press, Washington, DC, 1996, pp. 2460-2488.
40. Murphy K.C. Use of bacteriophage lambda recombination functions to promote gene replacement in Escherichia coli. J. Bacteriol. 180:1998;2063-2071.
41. Blattner F.R., Plunkett G. Jr., Bloch C.A., Perna N.T., Burland V., Riley M., Collado-Vides J., Glassner J.D., Rode C.K., Mayhew G.F., Gregor J., Davis N.W., Kirkpatrick H.A., Goeden M.A., Rose D.J., Mau B., Shao Y. The complete genome sequence of Escherichia coli K-12. Science. 277:1997;1453-1474.
42. Harris R.S., Longerich S., Rosenberg S.M. Recombination in adaptive mutation. Science. 264:1994;258-260.