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PMID: 9184011 Published · ppublish English Journal Article Research Support, U.S. Gov't, Non-P.H.S. Research Support, U.S. Gov't, P.H.S. Review

Stable DNA replication: interplay between DNA replication, homologous recombination, and transcription.

Microbiology and molecular biology reviews : MMBR ·Vol. 61 ·No. 2 ·1997-06-00 ·Pages 212-38

Kogoma T

Abstract

Chromosome replication in Escherichia coli is normally initiated at oriC, the origin of chromosome replication. E. coli cells possess at least three additional initiation systems for chromosome replication that are normally repressed but can be activated under certain specific conditions. These are termed the stable DNA replication systems. Inducible stable DNA replication (iSDR), which is activated by SOS induction, is proposed to be initiated from a D-loop, an early intermediate in homologous recombination. Thus, iSDR is a form of recombination-dependent DNA replication (RDR). Analysis of iSDR and RDR has led to the proposal that homologous recombination and double-strand break repair involve extensive semiconservative DNA replication. RDR is proposed to play crucial roles in homologous recombination, double-strand break repair, restoration of collapsed replication forks, and adaptive mutation. Constitutive stable DNA replication (cSDR) is activated in mhA mutants deficient in RNase HI or in recG mutants deficient in RecG helicase. cSDR is proposed to be initiated from an R-loop that can be formed by the invasion of duplex DNA by an RNA transcript, which most probably is catalyzed by RecA protein. The third form of SDR is nSDR, which can be transiently activated in wild-type cells when rapidly growing cells enter the stationary phase. This article describes the characteristics of these alternative DNA replication forms and reviews evidence that has led to the formulation of the proposed models for SDR initiation mechanisms. The possible interplay between DNA replication, homologous recombination, DNA repair, and transcription is explored.

MeSH Terms
Bacteriophage T4/genetics DNA Damage DNA Repair DNA Replication DNA, Mitochondrial/genetics Escherichia coli/genetics Models, Genetic Nucleic Acid Conformation Receptors, Antigen/genetics Recombination, Genetic Transcription, Genetic Yeasts/genetics
Chemicals
DNA, Mitochondrial Receptors, Antigen
Authors & Affiliations
1 authors, click to expand affiliations / ORCID
Kogoma T
Department of Cell Biology, University of New Mexico Health Sciences Center, Albuquerque 87131, USA. [email protected]
References (235)
235 references, click to expand
  1. 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. 1989 Apr;86(8):2627-31 PMID: 2649886
  2. Inviability of recA- derivatives of the DNA polymerase mutant of De Lucia and Cairns.
    J Mol Biol. 1971 Jun 14;58(2):631-4 PMID: 4933421
  3. Levels of epsilon, an essential replication subunit of Escherichia coli DNA polymerase III, are controlled by heat shock proteins.
    J Bacteriol. 1992 Dec;174(23):7509-16 PMID: 1332935
  4. Substrate specificity of the Escherichia coli RuvC protein. Resolution of three- and four-stranded recombination intermediates.
    J Biol Chem. 1994 Feb 18;269(7):5195-201 PMID: 8106501
  5. Adaptive reversion of a frameshift mutation in Escherichia coli by simple base deletions in homopolymeric runs.
    Science. 1994 Jul 15;265(5170):407-9 PMID: 8023164
  6. Roles of ruvA, ruvC and recG gene functions in normal and DNA damage-inducible replication of the Escherichia coli chromosome.
    Genetics. 1994 Aug;137(4):895-902 PMID: 7982571
  7. Inducible stable DNA replication of Escherichia coli tolerates unexcised pyrimidine dimers in an uvr-dependent manner.
    Mutat Res. 1995 Jan;346(1):9-13 PMID: 7530331
  8. Requirement of the Escherichia coli dnaA gene function for ori-2-dependent mini-F plasmid replication.
    J Bacteriol. 1987 Apr;169(4):1724-30 PMID: 3031019
  9. DNA synthesis dependent on genetic recombination: characterization of a reaction catalyzed by purified bacteriophage T4 proteins.
    Cell. 1986 Dec 5;47(5):793-806 PMID: 3022939
  10. Growth phase-dependent modification of RNA polymerase in Escherichia coli.
    Mol Gen Genet. 1991 Nov;230(1-2):17-23 PMID: 1745227
  11. Reverse branch migration of Holliday junctions by RecG protein: a new mechanism for resolution of intermediates in recombination and DNA repair.
    Cell. 1993 Oct 22;75(2):341-50 PMID: 8402917
  12. The repair of double-strand breaks in DNA; a model involving recombination.
    J Theor Biol. 1976 Jun;59(1):97-106 PMID: 940351
  13. Characterization of the replication of Escherichia coli DNA in the absence of protein synthesis: stable DNA replication.
    J Mol Biol. 1975 May 15;94(2):243-56 PMID: 1095769
  14. DNA synthesis errors associated with double-strand-break repair.
    Genetics. 1995 Jul;140(3):965-72 PMID: 7672595
  15. Effect on DNA topology by DnaA protein, the initiation factor of chromosomal DNA replication in Escherichia coli.
    Biochemistry. 1996 Sep 3;35(35):11512-6 PMID: 8784207
  16. Chi and the RecBC D enzyme of Escherichia coli.
    Annu Rev Genet. 1994;28:49-70 PMID: 7893137
  17. Repair of DNA double-strand breaks in Escherichia coli K12 requires a functional recN product.
    Mol Gen Genet. 1984;195(1-2):267-74 PMID: 6092851
  18. Inducible stable DNA replication in Escherichia coli uvr+ and uvr- cells, treated with genotoxic chemicals.
    Mutat Res. 1992 Jan;281(1):63-6 PMID: 1371593
  19. Chi activity during transduction-associated recombination.
    Proc Natl Acad Sci U S A. 1981 Nov;78(11):7033-7 PMID: 7031667
  20. Adaptive mutation by deletions in small mononucleotide repeats.
    Science. 1994 Jul 15;265(5170):405-7 PMID: 8023163
  21. Changes of membrane proteins and their relation to deoxyribonucleic acid synthesis and cell division of Escherichia coli.
    J Biol Chem. 1970 Nov 10;245(21):5813-9 PMID: 4919490
  22. Is RecF a DNA replication protein?
    Proc Natl Acad Sci U S A. 1997 Apr 15;94(8):3483-4 PMID: 9108000
  23. The mechanism of recA polA lethality: suppression by RecA-independent recombination repair activated by the lexA(Def) mutation in Escherichia coli.
    Genetics. 1995 Apr;139(4):1483-94 PMID: 7789754
  24. Escherichia coli RecG and RecA proteins in R-loop formation.
    EMBO J. 1995 May 15;14(10):2385-92 PMID: 7774596
  25. Initiation of DNA replication in Escherichia coli: RNase H-deficient mutants do not require the dnaA function.
    Mol Gen Genet. 1984;196(2):283-9 PMID: 6208456
  26. 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.
    Radiat Res. 1986 Jul;107(1):58-72 PMID: 3526390
  27. Mapping and sequencing of mutations in the Escherichia coli rpoB gene that lead to rifampicin resistance.
    J Mol Biol. 1988 Jul 5;202(1):45-58 PMID: 3050121
  28. oriX: a new replication origin in E. coli.
    Cell. 1984 Jan;36(1):221-7 PMID: 6319009
  29. Meiosis-induced double-strand break sites determined by yeast chromatin structure.
    Science. 1994 Jan 28;263(5146):515-8 PMID: 8290959
  30. Cleavage of the Escherichia coli lexA protein by the recA protease.
    Proc Natl Acad Sci U S A. 1980 Jun;77(6):3225-9 PMID: 6447873
  31. DNA sequence and analysis of 136 kilobases of the Escherichia coli genome: organizational symmetry around the origin of replication.
    Genomics. 1993 Jun;16(3):551-61 PMID: 7686882
  32. DNA repair comes of age.
    Mutat Res. 1995 Mar;336(2):101-13 PMID: 7885381
  33. Differential suppression of priA2::kan phenotypes in Escherichia coli K-12 by mutations in priA, lexA, and dnaC.
    Genetics. 1996 May;143(1):5-13 PMID: 8722757
  34. Menage à trois: double strand break repair, V(D)J recombination and DNA-PK.
    Bioessays. 1995 Nov;17(11):949-57 PMID: 8526889
  35. Two related superfamilies of putative helicases involved in replication, recombination, repair and expression of DNA and RNA genomes.
    Nucleic Acids Res. 1989 Jun 26;17(12):4713-30 PMID: 2546125
  36. Instability of inhibited replication forks in E. coli.
    Bioessays. 1995 Aug;17(8):733-41 PMID: 7661854
  37. Mammalian DNA polymerase beta can substitute for DNA polymerase I during DNA replication in Escherichia coli.
    J Biol Chem. 1992 Jan 25;267(3):1407-10 PMID: 1730689
  38. DNA sequences at immunoglobulin switch region recombination sites.
    Nucleic Acids Res. 1993 Feb 11;21(3):365-72 PMID: 8441648
  39. Discriminatory function of ribonuclease H in the selective initiation of plasmid DNA replication.
    Nucleic Acids Res. 1982 Feb 11;10(3):833-53 PMID: 6278438
  40. Evidence for RecA protein association with the cell membrane and for changes in the levels of major outer membrane proteins in SOS-induced Escherichia coli cells.
    J Bacteriol. 1985 Sep;163(3):870-6 PMID: 3897198
  41. Footprinting analysis of mammalian RNA polymerase II along its transcript: an alternative view of transcription elongation.
    Proc Natl Acad Sci U S A. 1991 May 15;88(10):4245-9 PMID: 1709738
  42. Induction of UV-resistant DNA replication in Escherichia coli: induced stable DNA replication as an SOS function.
    Mol Gen Genet. 1979 Oct 2;176(1):1-9 PMID: 396443
  43. Constitutive expression of the SOS response in recA718 mutants of Escherichia coli requires amplification of RecA718 protein.
    J Bacteriol. 1987 Feb;169(2):728-34 PMID: 3542969
  44. dif, a recA-independent recombination site in the terminus region of the chromosome of Escherichia coli.
    New Biol. 1991 Aug;3(8):799-811 PMID: 1657123
  45. Opposing roles of the holliday junction processing systems of Escherichia coli in recombination-dependent adaptive mutation.
    Genetics. 1996 Mar;142(3):681-91 PMID: 8849879
  46. Multiple initiation mechanisms adapt phage T4 DNA replication to physiological changes during T4's development.
    FEMS Microbiol Rev. 1995 Aug;17(1-2):83-98 PMID: 7669352
  47. Effects of rifampicin resistant rpoB mutations on antitermination and interaction with nusA in Escherichia coli.
    J Mol Biol. 1988 Nov 20;204(2):247-61 PMID: 2464690
  48. Repair of DNA double-strand breaks in Escherichia coli cells requires synthesis of proteins that can be induced by UV light.
    Proc Natl Acad Sci U S A. 1981 Jun;78(6):3450-3 PMID: 7022449
  49. A novel Escherichia coli mutant capable of DNA replication in the absence of protein synthesis.
    J Mol Biol. 1978 May 5;121(1):55-69 PMID: 351189
  50. Mutation induced by DNA damage: a many protein affair.
    Mutat Res. 1990 Sep-Nov;236(2-3):301-11 PMID: 2169028
  51. Orientation-dependent recombination hotspot activity in bacteriophage lambda.
    J Mol Biol. 1979 Jul 15;131(4):681-95 PMID: 159958
  52. Activation of recA protein. The open helix model for LexA cleavage.
    J Mol Biol. 1992 Aug 5;226(3):707-19 PMID: 1507222
  53. The recombination hotspot chi is a regulatory sequence that acts by attenuating the nuclease activity of the E. coli RecBCD enzyme.
    Cell. 1993 Apr 9;73(1):87-96 PMID: 8384931
  54. RNase H-defective mutants of Escherichia coli: a possible discriminatory role of RNase H in initiation of DNA replication.
    Mol Gen Genet. 1984;195(1-2):17-22 PMID: 6092845
  55. Genetic control of damage-inducible restriction alleviation in Escherichia coli K12: an SOS function not repressed by lexA.
    Mol Gen Genet. 1984;197(2):297-303 PMID: 6097797
  56. DNA damage-inducible replication of the Escherichia coli chromosome is initiated at separable sites within the minimal oriC.
    J Mol Biol. 1994 Feb 4;235(5):1459-69 PMID: 8107086
  57. Recombination associated with replication of malarial mitochondrial DNA.
    EMBO J. 1996 Feb 1;15(3):684-93 PMID: 8599952
  58. recD: the gene for an essential third subunit of exonuclease V.
    Proc Natl Acad Sci U S A. 1986 Aug;83(15):5558-62 PMID: 3526335
  59. RecA, Tus protein and constitutive stable DNA replication in Escherichia coli rnhA mutants.
    Mol Gen Genet. 1994 Sep 1;244(5):557-62 PMID: 8078483
  60. Replication deficiencies in priA mutants of Escherichia coli lacking the primosomal replication n' protein.
    Proc Natl Acad Sci U S A. 1991 Apr 15;88(8):3029-32 PMID: 1826559
  61. INDUCTION OF REPLICATION BY THYMINE STARVATION AT THE CHROMOSOME ORIGIN IN ESCHERICHIA COLI.
    J Mol Biol. 1964 Aug;9:288-307 PMID: 14202267
  62. Effects of modulation of RNase H production on the recovery of DNA synthesis following UV-irradiation in Escherichia coli.
    Mol Gen Genet. 1987 Oct;209(3):494-8 PMID: 2828881
  63. Modulation of recombination and DNA repair by the RecG and PriA helicases of Escherichia coli K-12.
    J Bacteriol. 1996 Dec;178(23):6782-9 PMID: 8955297
  64. Growth-medium-dependent repair of DNA single-strand and double-strand breaks in X-irradiated Escherichia coli.
    Radiat Res. 1985 Oct;104(1):109-15 PMID: 3901096
  65. Purification and characterization of bacteriophage T4 gene 59 protein. A DNA helicase assembly protein involved in DNA replication.
    J Biol Chem. 1994 Dec 30;269(52):33049-62 PMID: 7806533
  66. Formation of an RNA primer for initiation of replication of ColE1 DNA by ribonuclease H.
    Proc Natl Acad Sci U S A. 1980 May;77(5):2450-4 PMID: 6156450
  67. DNA replication in Escherihia coli: replication in absence of protein synthesis after replication inhibition.
    J Mol Biol. 1970 Sep 14;52(2):143-64 PMID: 4922212
  68. Adaptive mutation: the uses of adversity.
    Annu Rev Microbiol. 1993;47:467-504 PMID: 8257106
  69. Mode of initiation of constitutive stable DNA replication in RNase H-defective mutants of Escherichia coli K-12.
    J Bacteriol. 1987 Jun;169(6):2650-8 PMID: 3034862
  70. Recovery from ultraviolet light-induced inhibition of DNA synthesis requires umuDC gene products in recA718 mutant strains but not in recA+ strains of Escherichia coli.
    Proc Natl Acad Sci U S A. 1987 Oct;84(19):6805-9 PMID: 3309946
  71. Size and Structure of Replicating Mitochondrial DNA in Cultured Tobacco Cells.
    Plant Cell. 1996 Mar;8(3):447-461 PMID: 12239390
  72. Requirement of RecBC enzyme and an elevated level of activated RecA for induced stable DNA replication in Escherichia coli.
    J Bacteriol. 1990 Apr;172(4):1834-9 PMID: 2180906
  73. The recombination hot spot chi activates RecBCD recombination by converting Escherichia coli to a recD mutant phenocopy.
    Proc Natl Acad Sci U S A. 1995 Jul 3;92(14):6244-8 PMID: 7603978
  74. A cold sensitive dnaA mutant of E. coli which overinitiates chromosome replication at low temperature.
    Mol Gen Genet. 1978 Jun 1;162(1):9-16 PMID: 353526
  75. Homologous recombination in procaryotes.
    Microbiol Rev. 1988 Mar;52(1):1-28 PMID: 3280962
  76. The RuvABC proteins and Holliday junction processing in Escherichia coli.
    J Bacteriol. 1996 Mar;178(5):1237-41 PMID: 8631697
  77. Repair of double-strand breaks in bacteriophage T4 by a mechanism that involves extensive DNA replication.
    Genetics. 1996 Aug;143(4):1507-20 PMID: 8844141
  78. The mutant DnaAcos protein which overinitiates replication of the Escherichia coli chromosome is inert to negative regulation for initiation.
    J Biol Chem. 1994 Sep 2;269(35):22075-9 PMID: 8071330
  79. DnaA protein is sensitive to a soluble factor and is specifically inactivated for initiation of in vitro replication of the Escherichia coli minichromosome.
    J Biol Chem. 1995 Apr 21;270(16):9265-71 PMID: 7721846
  80. Molecular handles on adaptive mutation.
    Mol Microbiol. 1995 Oct;18(2):185-9 PMID: 8709838
  81. Structural requirements of substrate DNA for binding to and cleavage by RuvC, a Holliday junction resolvase.
    J Biol Chem. 1994 May 27;269(21):15132-9 PMID: 8195150
  82. Targeting of the UmuD, UmuD', and MucA' mutagenesis proteins to DNA by RecA protein.
    Proc Natl Acad Sci U S A. 1993 Sep 1;90(17):8169-73 PMID: 8367479
  83. DNA synthesis inhibition and the induction of protein X in Escherichia coli.
    J Mol Biol. 1976 Mar 15;101(4):459-77 PMID: 57241
  84. Replication of animal mitochondrial DNA.
    Cell. 1982 Apr;28(4):693-705 PMID: 6178513
  85. Proofreading-defective DNA polymerase II increases adaptive mutation in Escherichia coli.
    Proc Natl Acad Sci U S A. 1995 Aug 15;92(17):7951-5 PMID: 7644519
  86. Absence of RNase H allows replication of pBR322 in Escherichia coli mutants lacking DNA polymerase I.
    Proc Natl Acad Sci U S A. 1984 Dec;81(24):7845-9 PMID: 6096862
  87. Function of ribonuclease H in initiation of DNA replication in Escherichia coli K-12.
    Mol Gen Genet. 1985;200(1):103-9 PMID: 2993805
  88. DNA replication triggered by double-stranded breaks in E. coli: dependence on homologous recombination functions.
    Cell. 1994 Sep 23;78(6):1051-61 PMID: 7923355
  89. Escherichia coli RNA polymerase mutants that enhance or diminish the SOS response constitutively expressed in the absence of RNase HI activity.
    J Bacteriol. 1994 Mar;176(5):1521-3 PMID: 8113195
  90. Method for determining whether a gene of Escherichia coli is essential: application to the polA gene.
    J Bacteriol. 1984 May;158(2):636-43 PMID: 6233260
  91. Structural analysis of mitochondrial DNA molecules from fungi and plants using moving pictures and pulsed-field gel electrophoresis.
    J Mol Biol. 1996 Feb 2;255(4):564-88 PMID: 8568898
  92. A new class of Escherichia coli recBC mutants: implications for the role of RecBC enzyme in homologous recombination.
    Proc Natl Acad Sci U S A. 1984 Dec;81(24):7850-4 PMID: 6393130
  93. dnaA suppressor (dasF) mutants of Escherichia coli are stable DNA replication (sdrA/rnh) mutants.
    Mol Gen Genet. 1984;196(2):350-5 PMID: 6092872
  94. Recombination-dependent concatemeric plasmid replication.
    Microbiol Rev. 1991 Dec;55(4):675-83 PMID: 1779931
  95. dnaT, dominant conditional-lethal mutation affecting DNA replication in Escherichia coli.
    J Bacteriol. 1978 Dec;136(3):1008-17 PMID: 363684
  96. Escherichia coli XerC recombinase is required for chromosomal segregation at cell division.
    New Biol. 1991 Aug;3(8):789-98 PMID: 1931824
  97. In vivo evidence for the involvement of anionic phospholipids in initiation of DNA replication in Escherichia coli.
    Proc Natl Acad Sci U S A. 1995 Jan 31;92(3):783-7 PMID: 7846051
  98. Recombination in adaptive mutation.
    Science. 1994 Apr 8;264(5156):258-60 PMID: 8146657
  99. Studies on the inducible inhibitor of radiation-induced DNA degradation of Escherichia coli.
    Radiat Res. 1973 Aug;55(2):265-79 PMID: 4579016
  100. Continuous synthesis of the dnaA gene product of Escherichia coli in the cell cycle.
    Mol Gen Genet. 1982;186(1):87-94 PMID: 6287172
  101. Two enzymes, both of which process recombination intermediates, have opposite effects on adaptive mutation in Escherichia coli.
    Genetics. 1996 Jan;142(1):25-37 PMID: 8770582
  102. D-loops and R-loops: alternative mechanisms for the initiation of chromosome replication in Escherichia coli.
    J Bacteriol. 1994 Apr;176(7):1807-12 PMID: 8144445
  103. Ribonucleases H of retroviral and cellular origin.
    Pharmacol Ther. 1990;48(2):259-80 PMID: 1963496
  104. Nature of the SOS-inducing signal in Escherichia coli. The involvement of DNA replication.
    J Mol Biol. 1990 Mar 5;212(1):79-96 PMID: 2108251
  105. Thymine starvation-induced structural changes in Escherichia coli DNA. Detection by pulsed field gel electrophoresis and evidence for involvement of homologous recombination.
    J Mol Biol. 1994 Nov 4;243(4):611-20 PMID: 7966286
  106. Molecular organization and nucleotide sequence of the recG locus of Escherichia coli K-12.
    J Bacteriol. 1991 Nov;173(21):6837-43 PMID: 1938888
  107. Integrative suppression of dnaA(Ts) mutations mediated by plasmid F in Escherichia coli is a DnaA-dependent process.
    Mol Gen Genet. 1987 Dec;210(2):262-9 PMID: 2830456
  108. ATPase-deficient mutants of the Escherichia coli DNA replication protein PriA are capable of catalyzing the assembly of active primosomes.
    J Biol Chem. 1992 Apr 5;267(10):6933-40 PMID: 1313026
  109. Requirement of homologous recombination functions for viability of the Escherichia coli cell that lacks RNase HI and exonuclease V activities.
    Biochimie. 1993;75(1-2):89-99 PMID: 8389213
  110. RecBCD enzyme is altered upon cutting DNA at a chi recombination hotspot.
    Proc Natl Acad Sci U S A. 1992 Jun 15;89(12):5226-30 PMID: 1535156
  111. The DNA replication priming protein, PriA, is required for homologous recombination and double-strand break repair.
    J Bacteriol. 1996 Mar;178(5):1258-64 PMID: 8631700
  112. The Escherichia coli polB gene, which encodes DNA polymerase II, is regulated by the SOS system.
    J Bacteriol. 1990 Nov;172(11):6268-73 PMID: 2228959
  113. Operon structure of dnaT and dnaC genes essential for normal and stable DNA replication of Escherichia coli chromosome.
    J Biol Chem. 1988 Oct 15;263(29):15083-93 PMID: 2844800
  114. RNase H confers specificity in the dnaA-dependent initiation of replication at the unique origin of the Escherichia coli chromosome in vivo and in vitro.
    Proc Natl Acad Sci U S A. 1984 Feb;81(4):1040-4 PMID: 6322184
  115. DNA damage-inducible origins of DNA replication in Escherichia coli.
    EMBO J. 1992 Nov;11(11):4219-25 PMID: 1396602
  116. Homologous pairing of single-stranded DNA and superhelical double-stranded DNA catalyzed by RecO protein from Escherichia coli.
    J Bacteriol. 1995 Feb;177(3):566-72 PMID: 7836288
  117. A mechanism of formation of a persistent hybrid between elongating RNA and template DNA.
    Cell. 1990 Jul 27;62(2):331-8 PMID: 1695550
  118. Old phage, new insights: two recently recognized mechanisms of transcriptional regulation in bacteriophage T4 development.
    FEMS Microbiol Lett. 1995 Apr 15;128(1):1-8 PMID: 7744235
  119. Computer analysis of retroviral pol genes: assignment of enzymatic functions to specific sequences and homologies with nonviral enzymes.
    Proc Natl Acad Sci U S A. 1986 Oct;83(20):7648-52 PMID: 2429313
  120. RecA protein promotes rapid RNA-DNA hybridization in heterogeneous RNA mixtures.
    Nucleic Acids Res. 1992 Aug 25;20(16):4347-53 PMID: 1508725
  121. Evidence for the direct involvement of RNA in the initiation of DNA replication in Escherichia coli 15T.
    J Mol Biol. 1972 Feb 28;64(1):47-60 PMID: 4552485
  122. Cloning of the Escherichia coli gene for primosomal protein i: the relationship to dnaT, essential for chromosomal DNA replication.
    Proc Natl Acad Sci U S A. 1986 Mar;83(5):1256-60 PMID: 3006041
  123. Involvement of the activated form of RecA protein in SOS mutagenesis and stable DNA replication in Escherichia coli.
    Proc Natl Acad Sci U S A. 1984 Dec;81(23):7539-43 PMID: 6390441
  124. Conjugational recombination in E. coli: myths and mechanisms.
    Cell. 1991 Jan 11;64(1):19-27 PMID: 1986865
  125. Homologous pairing in vitro stimulated by the recombination hotspot, Chi.
    Cell. 1991 Jul 26;66(2):361-71 PMID: 1855256
  126. The leucine-Lrp regulon in E. coli: a global response in search of a raison d'être.
    Cell. 1992 Feb 21;68(4):617-9 PMID: 1739970
  127. Requirement of the Escherichia coli dnaA gene product for plasmid F maintenance.
    J Bacteriol. 1986 Oct;168(1):440-3 PMID: 3020005
  128. Homologous recombination and the roles of double-strand breaks.
    Trends Biochem Sci. 1995 Oct;20(10):387-91 PMID: 8533149
  129. RNA-DNA hybridization promoted by E. coli RecA protein.
    Nucleic Acids Res. 1992 Aug 25;20(16):4339-46 PMID: 1380698
  130. MECHANISM OF RNA POLYMERASE ACTION: FORMATION OF DNA-RNA HYBRIDS WITH SINGLE-STRANDED TEMPLATES.
    J Mol Biol. 1964 Feb;8:297-313 PMID: 14126298
  131. Conditional lethality of recA and recB derivatives of a strain of Escherichia coli K-12 with a temperature-sensitive deoxyribonucleic acid polymerase I.
    J Bacteriol. 1972 Mar;109(3):971-8 PMID: 4551758
  132. Chi sequence protects against RecBCD degradation of DNA in vivo.
    Proc Natl Acad Sci U S A. 1992 Dec 15;89(24):12073-7 PMID: 1465442
  133. Activation of stable DNA replication in rapidly growing Escherichia coli at the time of entry to stationary phase.
    Mol Microbiol. 1996 Sep;21(5):953-61 PMID: 8885266
  134. Biochemistry of homologous recombination in Escherichia coli.
    Microbiol Rev. 1994 Sep;58(3):401-65 PMID: 7968921
  135. Recombination of bacteriophage lambda in recD mutants of Escherichia coli.
    Genome. 1989;31(1):53-67 PMID: 2556327
  136. Apparent gene conversion in an Escherichia coli rec+ strain is explained by multiple rounds of reciprocal crossing-over.
    Mol Gen Genet. 1988 Jun;212(3):393-404 PMID: 2843741
  137. Mutagenesis and inducible responses to deoxyribonucleic acid damage in Escherichia coli.
    Microbiol Rev. 1984 Mar;48(1):60-93 PMID: 6371470
  138. RNase H-defective mutants of Escherichia coli.
    J Bacteriol. 1986 May;166(2):361-3 PMID: 3009391
  139. Roles of DNA topoisomerases in the regulation of R-loop formation in vitro.
    J Biol Chem. 1997 Jan 17;272(3):1473-9 PMID: 8999816
  140. Rec-mediated recombinational hot spot activity in bacteriophage lambda. III. Chi mutations are site-mutations stimulating rec-mediated recombination.
    J Mol Biol. 1975 May 15;94(2):203-12 PMID: 1142440
  141. Purified Escherichia coli recA protein catalyzes homologous pairing of superhelical DNA and single-stranded fragments.
    Proc Natl Acad Sci U S A. 1979 Apr;76(4):1638-42 PMID: 156361
  142. Direct evidence for specific binding of the replicative origin of the Escherichia coli chromosome to the membrane.
    J Bacteriol. 1984 Apr;158(1):313-6 PMID: 6325394
  143. Reaching for the ring: the study of mitochondrial genome structure.
    Curr Genet. 1993 Oct;24(4):279-90 PMID: 8252636
  144. RecA-mediated cleavage activates UmuD for mutagenesis: mechanistic relationship between transcriptional derepression and posttranslational activation.
    Proc Natl Acad Sci U S A. 1988 Mar;85(6):1816-20 PMID: 3279418
  145. Concatemer formation of ColE1-type plasmids in mutants of Escherichia coli lacking RNase H activity.
    J Mol Biol. 1986 Jun 5;189(3):389-99 PMID: 3023625
  146. Mutations, duplication, and deletion of recombined switch regions suggest a role for DNA replication in the immunoglobulin heavy-chain switch.
    Mol Cell Biol. 1989 May;9(5):1850-6 PMID: 2747637
  147. Two related recombinases are required for site-specific recombination at dif and cer in E. coli K12.
    Cell. 1993 Oct 22;75(2):351-61 PMID: 8402918
  148. RNase H is not involved in the induction of stable DNA replication in Escherichia coli.
    J Bacteriol. 1986 Jan;165(1):321-3 PMID: 3001028
  149. Enzymatic production of deoxyribonucleic acid double-strand breaks after ultraviolet irradiation of Escherichia coli K-12.
    J Bacteriol. 1975 Feb;121(2):511-7 PMID: 1089633
  150. DNA polymerase II is encoded by the DNA damage-inducible dinA gene of Escherichia coli.
    Proc Natl Acad Sci U S A. 1990 Oct;87(19):7663-7 PMID: 2217198
  151. Molecular mechanisms of Holliday junction processing in Escherichia coli.
    Adv Biophys. 1995;31:49-65 PMID: 7625278
  152. Purification of ribonuclease H as a factor required for initiation of in vitro Co1E1 DNA replication.
    Nucleic Acids Res. 1982 Oct 11;10(19):5949-65 PMID: 6292861
  153. Double-strand scission of DNA involved in thymineless death of Escherichia coli 15 TAU.
    Biochim Biophys Acta. 1973 Jan 19;294(1):204-13 PMID: 4575960
  154. n' Protein activator sites of plasmid pBR322 are not essential for its DNA replication.
    J Mol Biol. 1983 Jul 5;167(3):751-6 PMID: 6308266
  155. Homologous recombination-dependent initiation of DNA replication from DNA damage-inducible origins in Escherichia coli.
    EMBO J. 1993 Aug;12(8):3287-95 PMID: 8344265
  156. RecA protein of Escherichia coli has a third essential role in SOS mutator activity.
    J Bacteriol. 1990 Jun;172(6):3030-6 PMID: 2188949
  157. Multiple origin usage for DNA replication in sdrA(rnh) mutants of Escherichia coli K-12. Initiation in the absence of oriC.
    J Mol Biol. 1984 Sep 15;178(2):227-36 PMID: 6387151
  158. Double-stranded gap repair of DNA by gene conversion in Escherichia coli.
    Genetics. 1988 Aug;119(4):751-7 PMID: 3044922
  159. Transcriptional activation of pBR322 DNA can lead to duplex DNA unwinding catalyzed by the Escherichia coli preprimosome.
    J Biol Chem. 1989 Sep 5;264(25):15120-9 PMID: 2475495
  160. Identification and characterization of the Escherichia coli RecT protein, a protein encoded by the recE region that promotes renaturation of homologous single-stranded DNA.
    J Bacteriol. 1993 Jan;175(1):277-87 PMID: 8416902
  161. Origin of replication, oriC, of the Escherichia coli K12 chromosome: genetic mapping and minichromosome replication.
    Cold Spring Harb Symp Quant Biol. 1979;43 Pt 1:121-8 PMID: 383376
  162. DMC1: a meiosis-specific yeast homolog of E. coli recA required for recombination, synaptonemal complex formation, and cell cycle progression.
    Cell. 1992 May 1;69(3):439-56 PMID: 1581960
  163. Sequential early stages in the in vitro initiation of replication at the origin of the Escherichia coli chromosome.
    J Biol Chem. 1988 May 25;263(15):7124-30 PMID: 2835363
  164. A mutation in helicase motif III of E. coli RecG protein abolishes branch migration of Holliday junctions.
    Nucleic Acids Res. 1994 Feb 11;22(3):308-13 PMID: 8127666
  165. Genetic analysis of double-strand break repair in Escherichia coli.
    J Bacteriol. 1993 Aug;175(16):5176-85 PMID: 8349557
  166. Inhibition of the recBCD-dependent activation of Chi recombinational hot spots in SOS-induced cells of Escherichia coli.
    J Bacteriol. 1992 Feb;174(4):1172-8 PMID: 1310498
  167. The origin of replication, oriC, and the dnaA protein are dispensable in stable DNA replication (sdrA) mutants of Escherichia coli K-12.
    EMBO J. 1983;2(3):463-8 PMID: 11894964
  168. Initiation of general recombination catalyzed in vitro by the recA protein of Escherichia coli.
    Proc Natl Acad Sci U S A. 1979 Jun;76(6):2615-9 PMID: 379861
  169. The double-strand-break repair model for recombination.
    Cell. 1983 May;33(1):25-35 PMID: 6380756
  170. Mechanisms for recF-dependent and recB-dependent pathways of postreplication repair in UV-irradiated Escherichia coli uvrB.
    J Bacteriol. 1983 Dec;156(3):1093-8 PMID: 6358188
  171. DNA polymerase I modulates inducible stable DNA replication in Escherichia coli.
    J Bacteriol. 1992 Oct;174(19):6311-3 PMID: 1400182
  172. Chi sites in combination with RecA protein increase the survival of linear DNA in Escherichia coli by inactivating exoV activity of RecBCD nuclease.
    EMBO J. 1994 Jun 15;13(12):2764-76 PMID: 8026461
  173. Stability and properties of double and triple helices: dramatic effects of RNA or DNA backbone composition.
    Science. 1992 Nov 27;258(5087):1463-6 PMID: 1279808
  174. Genetic analysis of constitutive stable DNA replication in rnh mutants of Escherichia coli K12.
    Mol Gen Genet. 1987 Jul;208(3):420-7 PMID: 2823060
  175. recA-dependent DNA replication in the absence of protein synthesis: characteristics of a dominant lethal replication mutation, dnaT, and requirement for recA+ function.
    Cold Spring Harb Symp Quant Biol. 1979;43 Pt 1:537-49 PMID: 383381
  176. The dnaA gene product is not required during stable chromosome replication in Escherichia coli.
    Mol Gen Genet. 1980;180(3):617-20 PMID: 7007826
  177. DNA double-chain breaks in recombination of phage lambda and of yeast.
    Annu Rev Genet. 1988;22:169-97 PMID: 2977087
  178. The RecG branch migration protein of Escherichia coli dissociates R-loops.
    J Mol Biol. 1996 Dec 13;264(4):713-21 PMID: 8980680
  179. Cloning of replication origins from the E. coli K12 chromosome.
    Nature. 1978 Oct 12;275(5680):561-4 PMID: 357995
  180. Mechanism of ultraviolet-induced mutagenesis: extent and fidelity of in vitro DNA synthesis on irradiated templates.
    Proc Natl Acad Sci U S A. 1978 Jul;75(7):3037-41 PMID: 356043
  181. Survival of hunger and stress: the role of rpoS in early stationary phase gene regulation in E. coli.
    Cell. 1993 Jan 29;72(2):165-8 PMID: 8425216
  182. Fidelity mechanisms in DNA replication.
    Annu Rev Biochem. 1991;60:477-511 PMID: 1883202
  183. Overexpression of RNase H partially complements the growth defect of an Escherichia coli delta topA mutant: R-loop formation is a major problem in the absence of DNA topoisomerase I.
    Proc Natl Acad Sci U S A. 1995 Apr 11;92(8):3526-30 PMID: 7536935
  184. Interactions between RuvA and RuvC at Holliday junctions: inhibition of junction cleavage and formation of a RuvA-RuvC-DNA complex.
    J Mol Biol. 1996 Dec 20;264(5):878-90 PMID: 9000618
  185. Adaptive mutation sequences reproduced by mismatch repair deficiency.
    Proc Natl Acad Sci U S A. 1995 Dec 19;92(26):12017-20 PMID: 8618835
  186. Discontinuities in the DNA synthesized in an excision-defective strain of Escherichia coli following ultraviolet irradiation.
    J Mol Biol. 1968 Jan 28;31(2):291-304 PMID: 4865486
  187. Movement and site selection for priming by the primosome in phage phi X174 DNA replication.
    Proc Natl Acad Sci U S A. 1981 Feb;78(2):707-11 PMID: 6262762
  188. The DnaA box R4 in the minimal oriC is dispensable for initiation of Escherichia coli chromosome replication.
    Nucleic Acids Res. 1995 Aug 25;23(16):3119-25 PMID: 7667087
  189. Two types of temperature sensitivity in DNA replication of an Escherichia coli dnaB mutant.
    J Mol Biol. 1976 May 5;103(1):191-7 PMID: 785007
  190. Ribonuclease H: from discovery to 3D structure.
    New Biol. 1990 Sep;2(9):771-7 PMID: 2177653
  191. Dissociation of synthetic Holliday junctions by E. coli RecG protein.
    EMBO J. 1993 Jan;12(1):17-22 PMID: 8428576
  192. Genetic analysis of mutations that compensate for loss of Escherichia coli DNA topoisomerase I.
    J Bacteriol. 1985 Jun;162(3):1173-9 PMID: 2987184
  193. Does transcription by RNA polymerase play a direct role in the initiation of replication?
    J Cell Sci. 1994 Jun;107 ( Pt 6):1381-7 PMID: 7525619
  194. Autodigestion of lexA and phage lambda repressors.
    Proc Natl Acad Sci U S A. 1984 Mar;81(5):1375-9 PMID: 6231641
  195. UV-induced alleviation of K-specific restriction of bacteriophage lambda.
    J Virol. 1977 Mar;21(3):1249-51 PMID: 321803
  196. Adaptive reversion of a frameshift mutation in Escherichia coli.
    Genetics. 1991 Aug;128(4):695-701 PMID: 1916241
  197. Absence of a direct role for RNase HI in initiation of DNA replication at the oriC site on the Escherichia coli chromosome.
    J Bacteriol. 1993 Oct;175(20):6731-4 PMID: 8407851
  198. Reduced transcription of the rnh gene in Escherichia coli mutants expressing the SOS regulon constitutively.
    Mol Gen Genet. 1987 Jan;206(1):95-100 PMID: 3033443
  199. Double-strand break repair in the absence of RAD51 in yeast: a possible role for break-induced DNA replication.
    Proc Natl Acad Sci U S A. 1996 Jul 9;93(14):7131-6 PMID: 8692957
  200. recA-independent general genetic recombination of plasmids.
    Nature. 1981 Nov 12;294(5837):184-6 PMID: 7029308
  201. Requirement for the polymerization and 5'-->3' exonuclease activities of DNA polymerase I in initiation of DNA replication at oriK sites in the absence of RecA in Escherichia coli rnhA mutants.
    J Bacteriol. 1993 Nov;175(22):7254-9 PMID: 8226672
  202. Attachment of nascent RNA molecules to superhelical DNA.
    J Mol Biol. 1975 Nov 5;98(3):565-79 PMID: 811809
  203. Recombination by replication.
    Cell. 1996 May 31;85(5):625-7 PMID: 8646771
  204. Stimulation of nuclease activity by thymine starvation.
    Biochem Biophys Res Commun. 1972 Mar 10;46(5):1782-7 PMID: 4552456
  205. The initiator protein DnaA: evolution, properties and function.
    Biochim Biophys Acta. 1994 Mar 1;1217(2):111-30 PMID: 8110826
  206. Further tests of a recombination model in which chi removes the RecD subunit from the RecBCD enzyme of Escherichia coli.
    Genetics. 1990 Nov;126(3):519-33 PMID: 2249753
  207. Thymine deficiency and the normal DNA replication cycle. I.
    J Mol Biol. 1961 Apr;3:144-55 PMID: 13764647
  208. RecBC enzyme nicking at Chi sites during DNA unwinding: location and orientation-dependence of the cutting.
    Cell. 1985 May;41(1):153-63 PMID: 3888405
  209. Mechanisms of transcription-repair coupling and mutation frequency decline.
    Microbiol Rev. 1994 Sep;58(3):317-29 PMID: 7968917
  210. Evidence that recBC-dependent degradation of duplex DNA in Escherichia coli recD mutants involves DNA unwinding.
    J Bacteriol. 1992 Aug;174(16):5424-9 PMID: 1322885
  211. Colibri: a functional data base for the Escherichia coli genome.
    Microbiol Rev. 1993 Sep;57(3):623-54 PMID: 8246843
  212. Initiation of lagging-strand synthesis for pBR322 plasmid DNA replication in vitro is dependent on primosomal protein i encoded by dnaT.
    J Biol Chem. 1988 Oct 15;263(29):15016-23 PMID: 2844795
  213. Termination efficiency at rho-dependent terminators depends on kinetic coupling between RNA polymerase and rho.
    Proc Natl Acad Sci U S A. 1992 Feb 15;89(4):1453-7 PMID: 1741399
  214. RecA protein acts at the initiation of stable DNA replication in rnh mutants of Escherichia coli K-12.
    J Bacteriol. 1985 Aug;163(2):439-44 PMID: 2991187
  215. Processing the holliday junction in homologous recombination.
    Trends Biochem Sci. 1996 Mar;21(3):107-11 PMID: 8882584
  216. Selective inhibition of in vitro DNA synthesis dependent on phiX174 compared with fd DNA. I. Protein requirements for selective inhibition.
    J Biol Chem. 1977 Apr 25;252(8):2524-33 PMID: 140166
  217. Mechanism of transient inhibition of DNA synthesis in ultraviolet-irradiated E. coli: inhibition is independent of recA whilst recovery requires RecA protein itself and an additional, inducible SOS function.
    Mol Gen Genet. 1985;199(1):133-40 PMID: 3889546
  218. DNA polymerase I in constitutive stable DNA replication in Escherichia coli.
    J Bacteriol. 1997 Apr;179(7):2109-15 PMID: 9079893
  219. ATP-dependent resolution of R-loops at the ColE1 replication origin by Escherichia coli RecG protein, a Holliday junction-specific helicase.
    EMBO J. 1997 Jan 2;16(1):203-9 PMID: 9009281
  220. Repair of DNA double-strand breaks in Escherichia coli, which requires recA function and the presence of a duplicate genome.
    J Mol Biol. 1977 Oct 15;116(1):81-98 PMID: 338918
  221. Escherichia coli PriA protein is essential for inducible and constitutive stable DNA replication.
    EMBO J. 1994 Nov 15;13(22):5338-45 PMID: 7525276
  222. Double-strand breaks at an initiation site for meiotic gene conversion.
    Nature. 1989 Mar 2;338(6210):87-90 PMID: 2645528
  223. Integration of donor DNA in bacterial conjugation.
    J Mol Biol. 1973 Jun 15;77(1):101-23 PMID: 4588879
  224. Initiation of V(D)J recombinations in a cell-free system by RAG1 and RAG2 proteins.
    Curr Top Microbiol Immunol. 1996;217:1-10 PMID: 8787614
  225. Induction of chromosome re-initiations in a thermosensitive DNA mutant of Escherichiacoli.
    J Mol Biol. 1970 Sep 14;52(2):371-86 PMID: 4922218
  226. Hypernegative supercoiling of the DNA template during transcription elongation in vitro.
    J Biol Chem. 1994 Jan 21;269(3):2068-74 PMID: 8294458
  227. Genetic separation of Escherichia coli recA functions for SOS mutagenesis and repressor cleavage.
    J Bacteriol. 1989 May;171(5):2533-41 PMID: 2651406
  228. DNA polymerase III holoenzyme: structure and function of a chromosomal replicating machine.
    Annu Rev Biochem. 1995;64:171-200 PMID: 7574479
  229. Intron mobility in phage T4 occurs in the context of recombination-dependent DNA replication by way of multiple pathways.
    Genes Dev. 1996 Feb 1;10(3):351-64 PMID: 8595885
  230. Crystal structure at 3.5 A resolution of HIV-1 reverse transcriptase complexed with an inhibitor.
    Science. 1992 Jun 26;256(5065):1783-90 PMID: 1377403
  231. Suppressor mutations (rin) that specifically suppress the recA+ dependence of stable DNA replication in Escherichia coliK-12.
    Mol Gen Genet. 1982;187(2):225-30 PMID: 6757658
  232. Rec-mediated recombinational activity of two adjacent Chi elements in bacteriophage lambda.
    Genet Res. 1985 Feb;45(1):1-8 PMID: 3158572
  233. Branch migration of Holliday junctions: identification of RecG protein as a junction specific DNA helicase.
    EMBO J. 1994 Nov 1;13(21):5220-8 PMID: 7957087
  234. Collapse and repair of replication forks in Escherichia coli.
    Mol Microbiol. 1995 May;16(3):373-84 PMID: 7565099
  235. Host participation in plasmid maintenance: dependence upon dnaA of replicons derived from P1 and F.
    Proc Natl Acad Sci U S A. 1986 Jun;83(12):4423-7 PMID: 3520571
Article Info
Journal
Microbiology and molecular biology reviews : MMBR
Abbr.
Microbiol Mol Biol Rev
ISSN
1092-2172
DOI
10.1128/mmbr.61.2.212-238.1997
Email
[email protected]
Published
1997-06-00
Pages
212-38
Language
English
Region
United States
NLM ID
9706653
PMCID
PMC232608
Subset
IM
Grants
NIGMS NIH HHS · GM22092 · United States
External Links
PubMed source DOI: 10.1128/mmbr.61.2.212-238.1997 PMC Full Text View journal details
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