Stability of linear DNA in recA mutant Escherichia coli cells reflects ongoing chromosomal DNA degradation

Journal of Bacteriology

Volumn 179, Issue 3, 1997, Pages 880-888

  Kuzminov, Andrei ^a   Stahl, Franklin W ^a  

^a UNIVERSITY OF OREGON   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIAL DNA; NUCLEASE; RECA PROTEIN; RECOMBINASE;

ARTICLE; BACTERIOPHAGE LAMBDA; CHROMOSOME; CONTROLLED STUDY; COSMID; DNA DEGRADATION; DNA REPLICATION; ESCHERICHIA COLI; NONHUMAN; PRIORITY JOURNAL;

EID: 0031019463     PISSN: 00219193     EISSN: None     Source Type: Journal    
DOI: 10.1128/jb.179.3.880-888.1997     Document Type: Article

References (57)

1. Amundsen, S. K., A. F. Taylor, A. M. Chaudhury, and G. R. Smith. 1986. recD: the gene for an essential third subunit of exonuclease V. Proc. Natl. Acad. Sci. USA 83:5558-5562.
2. Buchmann, B. J. 1971. Pedigrees of some mutant strains of Escherichia coli K-12. Bacteriol. Rev. 36:525-557.
3. Becker, A., and H. Murialdo. 1990. Bacteriophage λ DNA: the beginning of the end. J. Bacteriol. 172:2819-2824.
4. Birnboim, H. C. 1983. A rapid alkaline extraction method for the isolation of plasmid DNA. Methods Enzymol. 100:243-255.
5. Brcic-Kostic, K., E. Salaj-Smic, N. Marsic, S. Kajic, I. Stojilkovic, and Z. Trgovcevic. 1991. Interaction of RecBCD enzyme with DNA damaged by gamma radiation. Mol. Gen. Genet. 228:136-142.
6. - strains of Escherichia coli K12. J. Mol. Biol. 91:53-66.
7. Capaldo, F. N., G. Ramsey, and S. D. Barbour. 1974. Analysis of the growth of recombination-deficient strains of Escherichia coli K-12. J. Bacteriol. 118: 242-249.
8. Carlson, K., and E. S. Miller. 1994. Working with T4. p. 421-426. In J. D. Karam (ed.), Molecular biology of bacteriophage T4. American Society for Microbiology, Washington, D.C.
9. - cloning vectors. I. Improved pUC polylinker regions to facilitate the use of sonicated DNA for nucleotide sequencing. Gene 68:139-149.
10. Chaudhury, A. M., and G. R. Smith. 1984. A new class of Escherichia coli recBC mutants: implications for the role of RecBC enzyme in homologous recombination. Proc. Natl. Acad. Sci. USA 81:7850-7854.
11. Chow, S., E. Daub, and H. Murialdo. 1987. The overproduction of DNA terminase of coliphage lambda. Gene 60:277-289.
12. Churchward, G., D. Belin, and Y. Nagamine. 1984. A pSC101-derived plasmid which shows no sequence homology to other commonly used cloning vectors. Gene 31:165-171.
13. Clark, A. J. 1973. Recombination deficient mutants of E. coli and other bacteria. Annu. Rev. Genet. 7:67-86.
14. Clark, A. J., M. Chamberlin, R. Boyce, and P. Howard-Flanders. 1966. Abnormal metabolic response to ultraviolet light of a recombination deficient mutant of Escherichia coli K12. J. Mol. Biol. 19:442-454.
15. Clark, A. J., and A. D. Margulies. 1965. Isolation and characterization of recombination-deficient mutants of Escherichia coli K-12. Proc. Natl. Acad. Sci. USA 53:451-459.
16. Czonka, L. N., and A. J. Clark. 1979. Deletions generated by the transposon Tn10 in the srl-recA region of the Escherichia coli K-12 chromosome. Genetics 93:321-343.
17. Dabert, P., S. D. Ehrlich, and A. Gruss. 1992. χ sequence protects against RecBCD degradation of DNA in vivo. Proc. Natl. Acad. Sci. USA 89:12073- 12077.
18. Dharmalingam, K., and E. B. Goldberg. 1976. Mechanism, localisation and control of restriction cleavage of phage T4 and λ chromosomes in vivo. Nature 260:406-410.
19. Dixon, D. A., J. J. Churchill, and S. C. Kowalczykowski. 1994. Reversible inactivation of the Escherichia coli RecBCD enzyme by the recombination hotspot χ in vitro: evidence for functional inactivation or loss of the RecD subunit. Proc. Natl. Acad. Sci. USA 91:2980-2984.
20. Dixon, D. A., and S. C. Kowalczykowski. 1993. The recombination hotspot χ is a regulatory sequence that acts by attenuating the nuclease activity of the E. coli RecBCD enzyme. Cell 73:87-96.
21. Dixon, D. A., and S. C. Kowalczykowski. 1995. Role of the Escherichia coli recombination hotspot, χ, in RecABCD-dependent homologous pairing. J. Biol. Chem. 270:16360-16370.
22. Feiss, M., I. Kobayashi, and W. Widner. 1983. Separate sites for binding and nicking of bacteriophage lambda DNA by terminase. Proc. Natl. Acad. Sci. USA 80:955-959.
23. Hickson, I. D., R. L. Gordon, A. E. Tomkinson, and P. T. Emmerson. 1981. A temperature sensitive RecA protein of Escherichia coli. Mol. Gen. Genet. 184:68-72.
24. Kobayashi, I., M. M. Stahl, and F. W. Stahl. 1984. The mechanism of the Chi-cos interaction in RecA-RecBC-mediated recombination in phage λ. Cold Spring Harbor Symp. Quant. Biol. 49:497-506.
25. Köppen, A., S. Krobitsch, B. Thoms, and W. Wuckernagel. 1995. Interaction with the recombination hot spot χ in vivo converts the RecBCD enzyme of Escherichia coli into a χ-independent recombinase by inactivation of the RecD subunit. Proc. Natl. Acad. Sci. USA 92:6249-6253.
26. Kowalczykowski, S. C., D. A. Dixon, A. K. Eggleston, S. D. Lauder, and W. M. Rehrauer. 1994. Biochemistry of homologous recombination in Escherichia coli. Microbiol. Rev. 58:401-465.
27. Kuzminov, A. 1995. Collapse and repair of replication forks in Escherichia coli. Mol. Microbiol. 16:373-384.
28. Kuzminov, A. 1996. Recombinational repair of DNA damage. R. G. Landes Company, Austin, Tex.
29. Kuzminov, A., E. Schabtach, and F. W. Stahl. 1994. χ-sites in combination with RecA protein increase the survival of linear DNA in E. coli by inactivating exoV activity of RecBCD nuclease. EMBO J. 13:2764-2776.
30. 29a.Kuzminov, A., and F. W. Stahl. Unpublished data.
31. Lindsley, J. E., and M. M. Cox. 1989. Dissociation pathway for RecA nucleoprotein filaments formed on linear duplex DNA. J. Mol. Biol. 205:695- 711.
32. Lloyd, R. G., C. Buckman, and F. E. Benson. 1987. Genetic analysis of conjugational recombination in Escherichia coli K12 strains deficient in RecBCD enzyme. J. Gen. Microbiol. 133:2531-2538.
33. Miller, J. H. 1972. Experiments in molecular genetics. Cold Spring Harbor Laboratory, Cold Spring Harbor, N.Y.
34. Myers, R. S., A. Kuzminov, and F. W. Stahl. 1995. The recombination hotspot χ activates RecBCD recombination by converting E. coli to a recD mutant phenocopy. Proc. Natl. Acad. Sci. USA 92:6244-6248.
35. Myers, R. S., and F. W. Stahl. 1994. χ and the RecBCD enzyme of Escherichia coli. Annu. Rev. Genet. 28:49-70.
36. Myers, R. S., M. M. Stahl, and F. W. Stahl. 1995. χ recombination activity in phage λ decays as a function of genetic distance. Genetics 141:805-812.
37. Oliver, D. B., and E. B. Goldberg. 1977. Protection of parental T4 DNA from a restriction exonuclease by the product of gene 2. J. Mol. Biol. 116:877-881.
38. Ponticelli, A. S., D. W. Schultz, A. F. Taylor, and G. R. Smith. 1985. Chi- dependent DNA strand cleavage by RecBC enzyme. Cell 41:145-151.
39. Rinken, R., B. Thoms, and W. Wackernagel. 1992. Evidence that recBC- dependent degradation of duplex DNA in Escherichia coli recD mutants involves DNA unwinding. J. Bacteriol. 174:5424-5429.
40. Roman, L., and S. C. Kowalczykowsi. 1989. Characterization of the helicase activity of the Escherichia coli RecBCD enzyme using a novel helicase assay. Biochemistry 28:2863-2873.
41. Roman, L. J., A. K. Eggleston, and S. C. Kowalczykowski. 1992. Processivity of the DNA helicase activity of Escherichia coli RecBCD enzyme. J. Biol. Chem. 267:4207-4214.
42. Sargentini, N. J., and K. C. Smith. 1986. Quantitation of the involvement of the recA,recB, recC, recF, recJ, recN, lexA, radA,radB, uvrD, and umuC genes in the repair of X-ray-induced DNA double-strand breaks in Escherichia coli. Radial. Res. 107:58-72.
43. Silverstein, J. L., and E. B. Goldberg. 1976. T4 DNA injection. I. Growth cycle of a gene 2 mutant. Virology 72:195-211.
44. Silverstein, J. L., and E. B. Goldberg. 1976. T4 DNA injection. II. Protection of entering DNA from host exonuclease V. Virology 72:212-223.
45. Simmon, V. F., and S. Lederberg. 1972. Degradation of bacteriophage lambda deoxyribonucleic acid after restriction by Escherichia coli K-12. J. Bacteriol. 112:161-169.
46. Skalka, A. 1974. A replicator's view of recombination (and repair), p. 421- 432. In R. F. Grell (ed.), Mechanisms in recombination. Plenum Press, New York, N.Y.
47. Skarstad, K., and E. Boye. 1993. Degradation of individual chromosomes in recA mutants of Escherichia coli. J. Bacteriol. 175:5505-5509.
48. Stahl, F. W., L. C. Thomason, I. Siddiqi, and M. M. Stahl. 1990. Further test of a recombination model in which χ removes the RecD subunit from the RecBCD enzyme of Escherichia coli. Genetics 126:519-533.
49. Stoker, N. G., N. F. Fairweather, and B. G. Spratt. 1982. Versatile low-copy number plasmid vectors for cloning in Escherichia coli. Gene 18:335-341.
50. Taylor, A. F. 1988. RecBCD enzyme of Escherichia coli, p. 231-263. In R. Kucherlapati and G. R. Smith (ed.), Genetic recombination. American Society for Microbiology, Washington, D.C.
51. Taylor, A. F., and G. R. Smith. 1992. RecBCD enzyme is altered upon cutting DNA at a Chi recombinational hotspot. Proc. Natl. Acad. Sci. USA 89:5226-5230.
52. Telander-Muskavitch, K. M., and S. Linn. 1981. RecBC-like enzymes: exonuclease V deoxyribonucleases, p. 234-250. In P. D. Boyer (ed.), The enzymes. Academic Press, Inc., New York, N.Y.
53. Thaler, D. S., E. Sampson, I. Siddiqi, S. M. Rosenberg, F. W. Stahl, and M. M. Stahl. 1988. A hypothesis: chi-activation of RecBCD enzyme involves removal of the RecD subunit, p. 413-422. In E. Friedberg and P. Hanawalt (ed.), Mechanisms and consequences of DNA damage processing. Alan R. Liss, Inc., New York, N.Y.
54. Uhlin, B. E., and A. J. Clark. 1981. Overproduction of the Escherichia coli RecA protein without stimulation of its proteolytic activity. J. Bacteriol. 148:386-390.
55. Uzest, M., S. D. Ehrlich, and B. Michel. 1995. Lethality of rep recB and rep recC double mutants of Escherichia coli. Mol. Microbiol. 17:1177-1188.
56. West, S. C., E. Cassuto, J. Mursalim, and P. Howard-Flanders. 1980. Recognition of duplex DNA containing single-stranded regions by RecA protein. Proc. Natl. Acad. Sci. USA 77:2569-2573.
57. Willetts, N. S., and A. J. Clark. 1969. Characteristics of some multiply recombination-deficient strains of Escherichia coli. J. Bacteriol. 100:231-239.