Palindromes as substrates for multiple pathways of recombination in Escherichia coli

Genetics

Volumn 154, Issue 2, 2000, Pages 513-522

  Cromie, Gareth A ^a   Millar, Catherine B ^a   Schmidt, Kristina H ^a   Leach, David R F ^a  

^a UNIVERSITY OF EDINBURGH   (United Kingdom)

Author keywords

[No Author keywords available]

Indexed keywords

HELICASE; PALINDROMIC DNA; SINGLE STRANDED DNA;

ARTICLE; DNA REPAIR; DNA REPLICATION; DNA STRAND BREAKAGE; DNA STRUCTURE; ESCHERICHIA COLI; GENE MUTATION; GENETIC RECOMBINATION; NONHUMAN; PRIORITY JOURNAL;

BACTERIAL PROTEINS; BACTERIOPHAGE LAMBDA; DNA REPLICATION; DNA, SINGLE-STRANDED; DNA-BINDING PROTEINS; ESCHERICHIA COLI; ESCHERICHIA COLI PROTEINS; NUCLEIC ACID CONFORMATION; RECOMBINATION, GENETIC; REPLICATION PROTEIN A;

BACTERIOPHAGE LAMBDA; ESCHERICHIA COLI; NEGIBACTERIA;

EID: 0033960606     PISSN: 00166731     EISSN: None     Source Type: Journal    
DOI: None     Document Type: Article

References (53)

1. AL-DEIB, A. A., A. A. MAHUI and R. G. LLOYD, 199G Modulation of recombination and DNA repair by the RecG and PriA helicases of Escherichia coli K-12. J. Bacteriol. 178: 6782-6789.
2. ANDERSON, D. G., and S. C. KOWALCZYKOWSKI, 1997 The translocating RecBCD enzyme stimulates recombination by directing RecA protein onto ssDNA in a cAi-regulated manner. Cell 90: 77-86.
3. CHAI.KER, A. F., D. R. F. LEACH and R. G. LLOYD, 1988 Escherichia cou sbcC mutants permit thé stable propagation of replicons containing a long palindrome. Gène 71: 201-205.
4. CLARK, A. J., 1991 Rec genes and homologous recombination proteins in I-jchericliia coli. Biochimie 73: 523-532.
5. CONNELLY, J. C., and D. R. LEACH, 1996 The sbcC and sbcD genes of Escherichia coli encode a nuclease involved in palindrome inviability and genetic recombination. Genes Cells 1: 285-291.
6. CONNELLY.J. C., E. S. DE I.EAU, E. A. C-KELY and D. R. LEACH, 1997
7. Overexprcssion, purification, and characterization of the SbcCD protein from Escherichia coli. ]. BioI.Chem. 272: 19819-19826.
8. CONNELLY,. C., I. A. KIRKIIAM and D. R. LEACH, 1998 The SbcCD nuclease of Escherichia coli is a structural maintenance of chromosomes (SMC) family protein that cleaves hairpin DN'A. Proc. Nail. Acad. Sei. USA 95: 79G9-7974.
9. Cox, M. M., 1998 A broadening view of recombinational repair in bacteria. Genes Cells 3: 65-78.
10. DIXOM, D. A., and S. C. KOWALCZYKOWSKI, 1991 Homologous pairing in vitro stimulated by the recombination hotspot, Chi. Cell 66: 361-371.
11. DIXON, D. A., and S. C. KOWALCZYKOWSKI, 1993 The recombination hotspot chi is a regulatory sequence that acts by attenuating the nuclease activity of the /:. coli RecBCD enzyme. Cell 73: 87-96.
12. DIXON, D. A.J.J. CHURCHILL and S. C. KOWALCZYKOWSKI, 1994 Reversible inaclivalion of tlie Escherichia coli RecBCD enzyme by the recombination hotspot chi in vitro: evidence for functional inaclivalion or loss of the RecD subunit. Proc. Nail. Acad. Sei. USA 91: 2980-2984.
13. FENG, W. Y., and J. B. HAYS, 1995 DMA structures generated during recombination initiated by mismatch repair of UV-irradialed nonrcplicating phage DNA in Escherichia coli: requirements for helicase, exonucleascs, and RecF and RecBCD functions. Genetics 140: 1175-1186.
14. GIBSON, F. P., D. R. LEACH and R. G. LLOYD, 1992 Identification of sbcD mutations as cosuppressors of recIIC that allow propagation of DNA palindromes in Escherichia coli K-12. J. Bactcriol. 174: 1222-1228.
15. HANADA, K., T. UKITA, Y. KOIINO, K. SAITO el al, 1997 RecQ DNA helicase is a suppressor of illegitimate recombination in Escherichia coli. Proc. Nail. Acad. Sei. USA 94: 3860-3865.
16. HARMON, F. G., and S. C. KOWALCZYKOWSKI, 1998 RecQ helicase, in concert with RccA and SSH proteins, initiates and disrupts DNA recombination. Genes Dev. 12: 1134-1144.
17. HORII, Z., and A.J. CLARK, 1973 Genetic analysis of the recF pathway lo genetic recombination in Escherichia coli K-12: isolation and characterization of mutants. J. Mol. Biol. 80: 327-344.
18. HOWARD- FLANDERS, P., and L. THERIOT, 1966 Mutants of Escherichia coli K-12 defective in DNA repair and in genetic recombination. Genetics 53: 1137-1150.
19. ISHIOKA, K., A. FUKUOII, II. IWASAKI, A. NAKATA and H. SlIINAGAWA,1998 Abortive recombination in Escherichia coli ruv mutants blocks chromosome partitioning. Genes Cells 3: 209-220.
20. KIKUCIII, A., and K. ASAI, 1984 Reverse gyrase: a topoisomerase which imroduces positive superhelical turns into DNA. Nature 309: 677-681.
21. KOGOMA, T., G. W. CADWF.LL, K. G. BERNARD and T. ASAI, 1996 The DNA replication priming protein, PriA, is required for homologous recombination and double-strand break repair. J. Bacteriol. 178: 1258-1264.
22. 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.
23. KULKARNI, S., 1990 Genetic studies on DNA palindromes in phage lambda and E. coli. Ph.D. Thesis, University of Oregon, pp. 38-62.
24. KUZMINOV, A., 1995 Collapse and repair of replication forks in Escherichia coli. Mol. Microbiol. 16: 373-384.
25. LEACH, D. R., 1994 Long DNA palindromes, cruciform structures, genetic instability and secondary structure repair. Bioessays 16: 893-900.
26. LEACH, D., andj. LINDSEY, 1986 In vivo loss of supercoiled DNA carrying a palindromic sequence. Mol. Gen. Gcnel. 204:322-327.
27. LEACH, D. R., E.A. OKELYandD.J. PINDER, 1997 Repair by recombination of DNA containing a palindromic sequence. Mol. Microbiol. 26: 597-606.
28. LLOYD, R. G., and C. BUCKMAN, 1985 Identification and genetic analysis of sbcC mutations in commonly used recBC shell slrains of Escherichia ro K-12. J. Bacteriol. 164: 836-844.
29. LLOYD, R. G., and C. BUCKMAN, 1991 Genetic analysis of the recG locus of Escherichia coli K-12 and its role in recombination and DNA repair. J. Bacteriol 173: 1004-1011.
30. LLOYD, R. G., and A. THOMAS, 1984 A molecular model for conjugal recombination in E. coli K-12. Mol. Gen. Genet. 197: 328-336.
31. LLOYD, R. G., C. BUCKMAN and F. E. BENSON', 1987 Gcnclic analysis of conjugational recombination in Kscherichia coli K12 strains deficient in RccBCD cnz)Tiie.J. Gen. Microbiol. 133: 2531-2538.
32. I.OVKTT, S. T., and R. D. KOLODNER, 1989 Identification and purification of a single-strandcd-DN'A-spccific exonucleasc encoded by the rtt] gene of Kscheiichia coli. Proc. Natl. Acad. Sei. USA 86: 2627-2631.
33. McGi.YNN, P., A. A. Ai.-DKiii.J. I.iu, K.J. MARIANS and R. G. I.I.OYD, 1997 The DNA replication protein PriA and the recombination protein RecG bind D-loops.J. Mol. Biol. 270: 212-221.
34. NAOM, I. S., S.J. MORTON, D. R. LF.ACII and R. G. LLOYD, 1989 Molecular organization of sl/cC, a gene that affects genetic recombination and the viability of DNA palindromes in Kscheiichia coli K-12. Nucleic Acids Rcs/17: 8033-8045.
35. PICKSLEY, S. M., P. V. ATTHELD and R. G. LLOYD, 1984 Repair of DNA double-strand breaks in Kscherichia coli K12 requires a functional recN product. Mol. Gen. Genet. 195: 267-274.
36. PICKSLEY, S. M., S.J. MORTON and R. G. I.LOYD, 1985 The rcrA'locus of Kscherichia coli K12: molecular analysis and identification of the gene product. Mol. Gen. Genet. 201: 301-307.
37. PINDER, D.J., C. E. BLAKE.J. C. LINDSF.Y and I). R. LEACH, 1998 Replication strand preference for deletions associated with DNA palindromes. Mol. Microbiol. 28: 719-727.
38. ROSCIIE, W. A., T. Q. TRINH and R. R. SINDEN, 1995 Differential DNA secondary structure-mediated deletion mutation in the leading and lagging strands. J. Bacteriol. 177: 4385-4391.
39. RUPP, W. D., and P. HOWARD-FI.ANIERS, 1968 Discontinuities in the DNA synthesiscd in an excision-defective strain of Kscherichia coli following ultraviolet irradiation. J. Mol. Biol. 31: 291-304.
40. SIIURVINTON, C. E., R. G. LLOYD, F. E. BENSON and P. V. ATTFIEI.D, 1984 Gcnclic analysis and molecular cloning of the Kscherichia coli niv gene. Mol. Gen. Genet. 194: 322-329.
41. SHUKVINTON, C. E., M. M. STAHL and F. W. STAHL, 1987 Irge palindromes in the lambda phage genome arc preserved in a iec+ host by inhibiting lambda DNA replication. Proc. Natl. Acad. Sei. USA 84: 1624-1628.
42. SMITH, G. R., 1988 Homologous recombination in procaryotes. Microbiol. Rev. 52: 1-28.
43. ST. PIERRE, R., and T. LINN, 1996 A refined vector system for the in vivo construction of single-copy transcriptional or translational fusions to lacZ. Gene 169: 65-68.
44. SUN, H.J. K. KAROW, I. D. HICKSON and N. MAIZELS, 1998 The Bloom's syndrome helicase unwinds G4 DNA. J. Biol. Cliem. 42: 27587-27592.
45. SUN, H., R. J. BENNETT and N. MAIZELS, 1999 The Saccharomyces cerevisae Sgsl helicase efficiently unwinds G-G paired DNAs. Nucleic Acids Res. 9: 1978-1984.
46. TAYI.OR, A. F., and G. R. SMITH, 1985 Substrate specificity of the DNA unwinding activity of the RecBC enzyme of Kscherichia coli. J. Mol. Biol. 185: 431-443.
47. TRINII, T. Q., and R. R. SINDEN, 1991 Preferential DNA secondarystructure mutagencsis in the lagging strand of replication in /;. coli. Nature 352: 544-547.
48. UMEZU, K., and R. D. KOLODNER, 1994 Protein interactions in genetic recombination in Kscherichia coli. Interactions involving RecO and RecR overcome the inhibition of RecA by singlestranded DNA-binding protein.J. Biol. Chem. 269:30005-30013.
49. UMEZU, K., K. NAKAYAMA and IL NAKAYAMA, 1990 Ksc/teiichia coli RecQ protein is a DNA helicase. Proc. Natl. Acad. Sei. USA 87: 5363-5367.
50. WANG, T. C., and K. C. SMITH, 1985 Mechanisms of sfcsuppression of the recBC-deficicncy in postreplication repair in UV-irradiatcd Escherichia coli K-12. Mol. Gen. Genet. 201: 186-191.
51. WANG, T. C., and K. C. SMITH, 1988 Different effects of recj and rarA/mutations on the postreplication repair of UV-damaged DNA in Escherichia coli K-12.J. Bacteriol. 170: 2555-2559.
52. WEBB, B. L., M. M. Cox and R. B. INMAN, 1997 Recombinational DNA repair: the RecF and RecR proteins limit the extension of RecA filaments beyond single-strand DNA gaps. Cell 91:347-356.
53. VERTMAN K, F., A. R. WY.MAN and D. BOTSTEIN, 1986 Host/vector interactions which affect the viability of rccombinant phage lambda clones. Gene 49: 253-262.