Mechanisms of mutation in nondividing cells. Insights from the study of adaptive mutation in Escherichia coli

Annals of the New York Academy of Sciences

Volumn 870, Issue , 1999, Pages 133-145

  Foster, Patricia L ^a,b   Rosche, William A ^a  

^a BOSTON UNIVERSITY   (United States)

^b BOSTON UNIVERSITY SCHOOL OF PUBLIC HEALTH   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

LACTOSE;

ALLELE; CELL DIVISION; CONFERENCE PAPER; DNA SYNTHESIS; EPISOME; ESCHERICHIA COLI; EVOLUTION; GENE MUTATION; NONHUMAN; PLASMID; SPONTANEOUS MUTATION;

ESCHERICHIA COLI;

EID: 0032813391     PISSN: 00778923     EISSN: None     Source Type: Book Series    
DOI: 10.1111/j.1749-6632.1999.tb08873.x     Document Type: Conference Paper

References (82)

1. LURIA, S.E. & M. DELBROCK. 1943. Mutations of bacteria from virus sensitivity to virus resistance. Genetics 28: 491-511.
2. NEWCOMBE, H.B. 1949. Origin of bacterial variants. Nature (Lond.) 164: 150-151.
3. LEDERBERG, J. & E. LEDERBERG. 1952. Replica plating and indirect selection of bacterial mutants. J. Bacteriol. 63: 399-406.
4. CAVALLI-SPORZA, L.L. & J. LEDERBERG. 1956. Isolation of preadaptive mutants by sib selection. Genetics 41: 367-581.
5. RYAN, F.J. 1955. Spontaneous mutation in non-dividing bacteria. Genetics 40: 726-738.
6. SHAPIRO, J.A. 1984. Observations on the formation of clones containing araB-lacZ cistron fusions. Molec. Gen. Genet. 194: 79-90.
7. CAIRNS, J., J. OVERBAUGH et al. 1988. The origin of mutants. Nature (Lond.) 335: 142-145.
8. FOSTER, P.L. 1993. Adaptive mutation: The uses of adversity. Annu. Rev. Microbiol. 47: 467-504.
9. CAIRNS, J. 1998. Mutation and cancer: The antecedents to our studies of adaptive mutation. Genetics 148: 1433-1440.
10. FOSTER, P.L. 1998. Adaptive mutation: Has the unicorn landed? Genetics 148: 1453-1459.
11. FOSTER, P.L. & J. CAIRNS. 1992. Mechanisms of directed mutation. Genetics 131: 783-789.
12. STAHL, F.W. 1988. A unicorn in the garden. Nature (Lond.) 335: 112-113.
13. HALL, B.G. 1990. Spontaneous point mutations that occur more often when they are advantageous than when they are neutral. Genetics 126: 5-16.
14. BOE, L. 1990. Mechanism for induction of adaptive mutations in Escherichia coli. Molec. Microbiol. 4: 597-601.
15. FOSTER, P.L. 1997. Nonadaptive mutations occur on the F′ episome during adaptive mutation conditions in Escherichia coli. J. Bacteriol. 179: 1550-1554.
16. ROSCHE, W.A. & P.L. FOSTER. Unpublished data.
17. TORKELSON, J., R.S. HARRIS et al. 1997. Genome-wide hypermutation in a subpopulation of stationary-phase cells underlies recombination-dependent adaptive mutation. EMBO J. 16: 3303-3311.
18. MÜLLER-HILL, B. & J. KANIA. 1974. Lac repressor can be fused to β-galactosidase. Nature (London) 249: 561-562.
19. BRAKE, A.J., A.V. FOWLER et al. 1978. β-galactosidase chimeras: primary structure of a lac repressor-β-galactosidase protein. Proc. Natl. Acad. Sci. USA 75: 4824-4827.
20. MILLER, J.H. 1985. Mutagenic specificity of ultraviolet light. J. Moler. Biol. 182: 45-65.
21. CALOS, M.P. & J.H. MILLER. 1981. Genetic and sequence analysis of frameshift mutations induced by ICR-191. J. Molec. Biol. 153: 39-66.
22. FOSTER, P.L. 1994. Population dynamics of a Lac strain of Escherichia coli during selection for lactose utilization. Genetics 138: 253-261.
23. FOSTER, P.L. Unpublished data.
24. CAIRNS, J. & P.L. FOSTER. 1991. Adaptive reversion of a frameshift mutation in Escherichia coli. Genetics 128: 695-701.
25. GALITSKI, T. & J.R. ROTH. 1996. A search for a general phenomenon of adaptive mutability. Genetics 143: 645-659.
26. FOSTER, P.L. & J.M. TRIMARCHI. 1994. Adaptive reversion of a frameshift mutation in Escherichia coli by simple base deletions in homopolymeric runs. Science 265: 407-409.
27. ROSENBERG, S.M., S. LONGERICH et al. 1994. Adaptive mutation by deletions in small mononucleotide repeats. Science 265: 405-407.
28. FOSTER, P.L., G. GUDMUNDSSON et al. 1995. Proofreading-defective DNA polymerase II increases adaptive mutation in Escherichia coli. Proc. Natl. Acad. Sci. USA 92: 7951-7955.
29. STREISINGER, G., Y. OKADA et al. 1966. Frameshift mutations and the genetic code. Cold Spring Harbor Symp. Quant. Biol. 31: 77-84.
30. KUNKEL, T.A. & K. BEBENEK. 1988. Recent studies of the fidelity of DNA synthesis. Biochim Biophys Acta 951: 1-15.
31. SCHAAPER, R.M. & R.L. DUNN. 1987. Spectra of spontaneous mutations in Escherichia coli strains defective in mismatch correction: The nature of in vivo DNA replication errors. Proc. Natl. Acad. Sci. USA 84: 6220-6224.
32. CUPPLES, C.G., M. CABRERA et al. 1990. A set of lacZ mutations in Escherichia coli that allow rapid detection of specific frameshift mutations. Genetics 125: 275-280.
33. ESCARCELLER, M., J. HICKS et al. 1994. Involvement of Escherichia coli DNA polymerase II in response to oxidative damage and adaptive mutation. J. Bacteriol. 176: 6221-6228.
34. FRIEDBERG, E.C., G.C. WALKER et al. 1995. DNA Repair and Mutagenesis. American Society for Microbiology, Washington, DC.
35. FOSTER, P.L. & W.A. ROSCHE. 1999. Increased episomal replication accounts for the high rate of adaptive mutation in recD mutants of Escherichia coli. Genetics 152. In press.
36. HARRIS, R.S., S. LONGERICH et al. 1994. Recombination in adaptive mutation. Science 264: 258-260.
37. KOWALCZYKOWSKI, S.D., D.A. DIXON et al. 1994. Biochemistry of homologous recombination in Escherichia coli. Microbiol. Rev. 58: 401-465.
38. CHAUDHURY, A.M. & G.R. SMITH. 1985. Role of Escherichia coli RecBC enzyme in SOS induction. Molec. Gen. Genet. 201: 525-528.
39. FOSTER, P.L., J.M. TRIMARCHI et al. 1996. Two enzymes, both of which process recombination intermediates, have opposite effects on adaptive mutation in Escherichia coli. Genetics 142: 25-37.
40. HARMON, F.G., W.M. REHRAUER et al. 1996. Interaction of Escherichia coli RecA protein with LexA repressor II. inhibition of DNA strand exchange by the uneleavable lexA S 119A repressor argues that recombination and SOS induction are competitive processes. J. Biol. Chem. 271: 23874-23883.
41. WEST, S.C. 1996. The RuvABC proteins and Holliday junction processing in Escherichia coli. J. Bacteriol. 178: 1237-1241.
42. HARRIS, R.S., K.J. ROSS et al. 1996. Opposing roles of the Holliday junction processing systems of Escherichia coli in recombination-dependent adaptive mutation. Genetics 142: 681-691.
43. RADICELLA, J.P., P.U. PARK et al. 1995. Adaptive mutation in Escherichia coli: A role for conjugation. Science 268: 418-420.
44. FOSTER, P.L. & J.M. TRIMARCHI. 1995. Adaptive reversion of an episomal frameshift mutation in Escherichia coli requires conjugal functions but not actual conjugation. Proc. Natl. Acad. Sci. USA 92: 5487-5490.
45. GALITSKI, T. & J.R. ROTH. 1995. Evidence that F plasmid transfer replication underlies apparent adaptive mutation. Science 268: 421-423.
46. FOSTER, P.L. 1999. Are adaptive mutations due to a decline in mismatch repair? The evidence is lacking. Rev. Mutation Res. 436. In press.
47. FOSTER, P.L. & J.M. TRIMARCHI. 1995. Conjugation is not required for adaptive reversion of an episomal frameshift mutation in Escherichia coli. J. Bacteriol. 177: 6670-6671.
48. HOLLOWAY, B. & K.B. LOW. 1996. F-prime and R-prime factors. In Escherichia coli and Salmonella: Cellular and Molecular Biology. F.C. Neidhardt, R. Curtiss, III et al., Eds.: 2413-2420. American Society of Microbiology. Washington, DC.
49. KUZMINOV, A. 1995. Collapse and repair of replication forks in Escherichia coli. Molec. Micro-biol. 16: 373-384.
50. TLSTY, D.T., A.M. ALBERTINI et al. 1984. Gene amplification in the lac region of E. coli. Cell 37: 217-224.
51. SONTI, R.V. & J.R. ROTH. 1989. Role of gene duplications in the adaptation of Salmonella typhimurium to growth on limiting carbon sources. Genetics 123; 19-28.
52. ROTH, J.R., N. BENSON et al. 1996. Rearrangements of the bacterial chromosome: Formation and applications. In Escherichia coli and Salmonella: Cellular and Molecular Biology. F.C. Niedhardt, R. Curtiss, et al., Eds.: 2256-2276. American Society of Microbiology. Washington, D.C.
53. MODRICH, P. & R. LAHCE. 1996. Mismatch repair in replication fidelity, genetic recombination, and cancer biology. Annu. Rev. Biochem. 65: 101-133.
54. JAYARAMAN, R. 1992. Cairnsian mutagenesis in Escherichia coli: Genetic evidence for two path-ways regulated by mutS and mutL genes. J. Genet. 71: 23-41.
55. REDDY, M. & J. GOWRISHANKAR. 1997. A genetic strategy to demonstrate the occurrence of spontaneous mutations in non-dividing cells within colonies of Escherichia coli. Genetics 147: 991-1001.
56. FENG, G., H.-C.T. TSUI et al. 1996. Depletion of the cellular amounts of the MutS and MutH methyl-directed mismatch repair proteins in stationary-phase Escherichia coli K-12 cells. J. Bacteriol. 178: 2388-2396.
57. DAMAGNEZ, v., M.-P. DOUTRIAUX et al. 1989. Saturation of mismatch repair in the mutD5 mutator strain of Escherichia coli. J. Bacteriol. 171: 4494-4497.
58. SCHAAPER, R.M. 1989. Escherichia coli mutator mutD5 is defective in the mutHLS pathway of DNA mismatch repair. Genetics 121: 205-212.
59. MAAS, W.K., C. WANG et al. 1996. Multicopy single-stranded DNA of Escherichia coli enhances mutation and recombination frequencies by titrating MutS protein. Molec. Microbiol. 19: 505-509.
60. WU, T.-H. & M.G. MARINUS. Personal communication.
61. TSUI, H.-C.T., G. FENG et al. 1997. Negative regulation of mutS and mutH repair gene expression by the Hfq and RpoS global regulators of Escherichia coli K-12. J. Bacteriol. 179: 7476-7487.
62. SCHAAPER, R.M. & M. RADMAN. 1989. The extreme mutator effect of Escherichia coli mutD5 results from saturation of mismatch repair by excessive DNA replication errors. EMBO J. 8: 3511-3516.
63. MACINTYRE, G., K.M. DOIRON et al. 1997. The Vsr endonuclease of Escherichia coli: An efficient DNA repair enzyme and a potent mutagen. J. Bacteriol. 179: 6048-6052.
64. HARRIS, R.S., G. FENG et al. 1997. Mismatch repair protein MutL becomes limiting during stationary-phase mutation. Genes Dev. 11: 2426-2437.
65. WORTH, L., S. CLARK et al. 1994. Mismatch repair proteins MutS and MutL inhibit RecA-catalyzed strand transfer between diverged DNAs. Proc. Natl. Acad. Sci. USA 91: 3238-3241.
66. ZAHRT, T.C. & S.R. MALOY. 1997. Barriers to recombination between closely related bacteria: MutS and RecBCD inhibit recombination between Salmonella typhimurium and Salmonella typhi. Proc. Natl. Acad. Sci. USA 94: 9786-9791.
67. LIEB, M. & A.S. BHAGWAT. 1996. Very short patch repair: Reducing the cost of cytosine methylation. Mol. Microbiol. 20: 467-473.
68. LIEB, M. & S. REHMAT. 1997. 5-Methylcytosine is not a mutation hot spot in nondividing Escherichia coli. Proc. Natl. Acad. Sci. USA 94: 940-945.
69. + revertants of the Escherichia coli strain FC40. Curr. Sci. 74: 583-589.
70. LIEB, M. 1987. Bacterial genes mutL, mutS, and dcm participate in repair of mismatches at 5-methylcytosine sites. J. Bacteriol. 169: 5241-5246.
71. FOSTER, P.L. & W.A. ROSCHE. 1998. Levels of the Vsr endonuclease do not regulate stationary-phase reversion of a Lac frameshift allele in Escherichia coli. J. Bacteriol. 180: 1944-1946.
72. WHITBY, M.C. & R.G. LLOYD. 1995. Branch migration of three-strand recombination intermediates by RecG, a possible pathway for securing exchanges initiated by 3′-tailed duplex DNA. EMBO J. 14: 3302-3310.
73. WHITBY, M.C., L. RYDER et al. 1993. Reverse branch migration of Holliday junctions by RecG protein: A new mechanism for resolution of intermediates in recombination and DNA repair. Cell 75: 341-350.
74. FRIEDMAN-OHANA, R. & A. COHEN. 1998. Heteroduplex joint formation in Escherichia coli recombination is initiated by pairing of a 3′-ending strand. Proc. Natl. Acad. Sci. USA 95: 6909-6914.
75. FOSTER, P.L. 1992. Directed mutation: Between unicorns and goats. J. Bacteriol. 174: 1711-1716.
76. MAO, E.F., L. LANE et al. 1997. Proliferation of mutators in a cell population. J. Bacteriol. 179: 417-422.
77. NINIO, J. 1991. Transient mutators: A semiquantitative analysis of the influence of translation and transcription errors on mutation rates. Genetics 129: 957-962.
78. KOGOMA, T. 1997. Stable DNA replication: Interplay between DNA replication, homologous recombination, and transcription. Microbiol. Molec. Biol. Rev. 61: 212-238.
79. DEMEREC, M. 1963. Selfer mutants of Salmonella typhimurium. Genetics 48: 1519-1531.
80. STRATHERN, J.N., B.K. SHAPER et al. 1995. DNA synthesis errors associated with double-strand-break repair. Genetics 140: 965-972.
81. BOYD, E.F., C.S. HILL et al. 1996. Mosaic structure of plasmids from natural populations of Escherichia coli. Genetics 143: 1091-1100.
82. BOYD, E.F. & D.L. HARTI, 1997. Recent horizontal transmission of plasmids between natural populations of Escherichia coli and Salmonella enterica. J. Bacteriol. 179: 1622-1627.