Genes involved in conjugative DNA processing of plasmid R6K

Molecular Microbiology

Volumn 24, Issue 6, 1997, Pages 1157-1168

  Núñez, Belén ^a   Avila, Pilar ^a   De La Cruz, Fernando ^a  

^a UNIVERSITY OF CANTABRIA   (Spain)

Author keywords

[No Author keywords available]

Indexed keywords

ARTICLE; BINDING SITE; CONJUGATION; DNA SEQUENCE; NONHUMAN; PLASMID; PRIORITY JOURNAL; TRANSPOSON; VIRUS REPLICATION;

BACTERIA (MICROORGANISMS); BACTERIOPHAGE SFX;

EID: 0030844429     PISSN: 0950382X     EISSN: None     Source Type: Journal    
DOI: 10.1046/j.1365-2958.1997.4111778.x     Document Type: Article

References (52)

1. Altschul, S.F., Gish, W., Miller, W., Myers, E.W., and Lipman, D.J. (1990) Basic local alignment search tool. J Mol Biol 215: 403-410.
2. Avila, P., Núñez, B., and de la Cruz, F. (1996) Plasmid R6K contains two oriTs which can assemble simultaneously in relaxosomes in vivo. J Mol Biol 261: 135-143.
3. Balzer, D., Pansegrau, W., and Lanka, E. (1994) Essential motifs of relaxase (Tral) and TraG protein involved in conjugative transfer of plasmid RP4. J Bacteriol 176: 4285-4295.
4. Bartolomé, B., Jubete, Y., Martínez, E., and de la Cruz, F. (1991) Construction and properties of a family of pACYC184-derived cloning vectors compatible with pBR322 and its derivatives. Gene 102: 75-78.
5. Belogurov, A.A., and Delver, E.P. (1995) A motif conserved among the type I restriction-modification enzymes and antirestriction protein: a possible basis for mechanism of action of plasmid-encoded antirestriction functions. Nucleic Acids Res 23: 785-787.
6. Bolland, S., Llosa, M., Avila, P., and de la Cruz, F. (1990) General organization of the conjugal transfer genes of the IncW plasmid R388 and interactions between R388 and IncN and IncP plasmid. J Bacteriol 172: 5795-5802.
7. Bowie, J.U., and Sauer, R.T. (1990) TraY proteins of F and related episomes are members of the Arc and Mnt repressor family. J Mol Biol 211: 5-6.
8. Bradley, D.E. (1980) Morphological and serological relationships of conjugative pili. Plasmid 4: 115-169.
9. Bull, C.J., White, O., Olsen, G., Zhou, L., Fleischmann, R.D., Button, G.G., et al. (1996) Complete genome sequence of the methanogenic archaeon, Methanococcus jannaschii. Science 273: 1058-1073.
10. Burland, V.D., Plunkett, G., Blattner, F.R. (1994) EMBL Data bank accession number P39342.
11. Cabezón, E., Lanka, E., and de la Cruz, F. (1994) Requirements for mobilization of plasmids RSF1010 and ColE1 by the IncW plasmid R388: trwB and traG are interchangeable. J Bacteriol 176: 4455-4458.
12. Cabezón, E., Sastre, J.I., and de la Cruz, F. (1997) Genetic evidence of a coupling role for the TraG protein family in bacteria conjugation. Mol Gen Genet, in press.
13. Campbell, J.L., Richards, C.C., and Studier, F.W. (1978) Genetic recombination and complementation between bacteriophage T7 and cloned fragments of T7-DNA. Proc Natl Acad Sci USA 75: 2276-2280.
14. Chang, A.C.Y., and Cohen, S.N. (1978) Construction and characterization of amplifiable multicopy DNA cloning vector vehicles derived from the P15A cryptic miniplasmid. J Bacteriol 134: 1141-1156.
15. Chow, W., and Berg, D.E. (1988) Tn5tac1, a derivative of transposon Tn5 that generates conditional mutations. Proc Natl Acad Sci USA 85: 6468-6472.
16. Coetzee, J.N., Bradley, D.E., du Toit, L., and Hedges, R.W. (1988) Bacteriophage X-2: a filamentous phage lysing IncX-plasmid-harboring bacterial strains. J Gen Microbiol 134: 2535-2541.
17. Crosa, J.H. (1980) Three origins of replication are active in vivo in the R plasmid RSF1040. J Biol Chem 255: 11075-11077.
18. Crosa, J.H., Luttropp, L.K., and Falkow, S. (1978) Molecular cloning of replication and incompatibility regions from the R-plasmid R6K. J Mol Biol 124: 443-468.
19. de la Cruz, F., and Grinsted, J. (1982) Genetic and molecular characterization of Tn27, a multiple resistance transposon from R100-1. J Bacteriol 151: 222-228.
20. Derbyshire, K.M., Hatfull, G., and Willetts, N. (1987) Mobilization of the non-conjugative plasmid RSF1010: a genetic and DNA sequence analysis of the mobilization region. Mol Gen Genet 206: 161-168.
21. Devereux, J., Haeberli, P., and Smithies, O. (1984) A comprehensive set of sequence analysis programs for the VAX. Nucleic Acids Res 12: 387-395.
22. Dower, W.J., Miller, J.F., and Ragsdele, C.W. (1988) High efficiency transformation of E. coli by high voltage electroporation. Nucleic Acids Res 16: 6127-6145.
23. Flashner, Y., and Shafferman, A. (1990) α and β replication origins of plasmid R6K show similar distortions of the DNA helix in vivo. Proc Natl Acad Sci USA 87: 9123-9127.
24. Flashner, Y., Shlomaoi, J., and Shafferman, A. (1996) Three novel plasmid R6K proteins act in concert to distort DNA within α and β origins of DNA replication. Mol Microbiol 19: 985-996.
25. Fuller-Pace, F.V., and Murray, N.E. (1986) Two DNA recognition domains of the specificity polypeptides of a family of type I restriction enzymes. Proc Natl Acad Sci USA 83: 9368-9372.
26. Germino, J., and Bastia, D. (1983) Interaction of the plasmid R6K-encoded replication initiator protein with its binding sites on DNA. Cell 34: 125-134.
27. Grant, S.G.N., Jesee, J., Bloom, F.R., and Hanahan, D. (1990) Differential plasmid rescue from transgenic mouse DNAs into Escherichia coli methylation-restriction mutants. Proc Natl Acad Sci USA 87: 4645-4649.
28. Hanahan, D. (1983) Studies on transformation of Escherichia coli with plasmids. J Mol Biol 166: 557-580.
29. Kelley, W.L., and Bastia, D. (1992) Activation in vivo of the minimal replication origin β of plasmid R6K requires a small target sequence essential for DNA looping. New Biologist 4: 569-580.
30. Kolter, R., and Helinski, D.R. (1978) Construction of plasmid R6K derivatives in vitro: characterization of the R6K replication region. Plasmid 1: 571-580.
31. Lanka, E., and Wilkins, B.M. (1995) DNA processing reactions in bacterial conjugation. Annu Rev Biochem 64: 141-69.
32. Less, M., Balzer, D., Weyrauch, K., and Lanka, E. (1993) The mating pair formation system of plasmid RP4 defined by RSF1010 mobilization and donor specific phage propagation. J Bacteriol 175: 6415-6425.
33. Llosa, M., Bolland, S., and de la Cruz, F. (1994) Conjugation-independent, site-specific recombination at the oriT of the IncW plasmid R388 mediated by TrwC. J Bacteriol 176: 3210-3217.
34. Llosa, M., Grandoso, G., and de la Cruz, F. (1995) Nicking activity of TrwC directed against the origin of transfer of the IncW plasmid R388. J Mol Biol 246: 54-62.
35. Masai, H., Nomura, N., Kubota, Y., and Aray, Y. (1990) Roles of φX174 type primosome and G4 type primase-dependent priming in initiation of lagging and leading strand synthesis of DNA replication. J Biol Chem 265: 15124-15133.
36. Miron, A., Mukherjee, S., and Bastia, D. (1992) Activation of distant replication origins in vivo by DNA looping as revealed by a novel mutant form of an initiator protein defective in cooperativity at a distance. EMBO J 11: 1205-1216.
37. Moncalián, G., Grandoso, G., Llosa, M., and de la Cruz, F. (1997) oriT-processing and regulatory roles of TrwA protein in plasmid R388 conjugation. J Mol Biol, in press.
38. Mukherjee, S., Erickson, H., and Bastia, D. (1988) Enhancer-origin interaction in plasmid R6K involves a DNA loop mediated by initiator protein. Cell 52: 375-383.
39. Mukhopadhyay, P., Filutowicz, M., and Helinski, D.R. (1986) Replication from one of the three origins of the plasmid R6K requires coupled expression of two plasmid-encoded proteins. J Biol Chem 261: 9534-9539.
40. Pansegrau, W., Balzer, D., Kruft, V., Lurz, R., and Lanka, E. (1990) In vitro assembly of relaxosomes at the transfer origin of plasmid RP4. Proc Natl Acad Sci USA 87: 6555-6559.
41. Perwez, T., and Meyer, R. (1996) MobB protein stimulates nicking at the R1162 origin of transfer by increasing the proportion of complexed plasmid DNA. J Bacteriol 178: 5762-5767.
42. Pretki, P., and Krisch, H.M. (1984) In vitro insertional mutagenesis with a selectable DNA fragment. Gene 29: 303-313.
43. Ratnakar, P.V.A., Mohanty, B.K., Lobert, M., and Bastia, D. (1996) The replication initiator protein π of the plasmid R6K specifically interacts with the host-encoded helicase DnaB. Proc Natl Acad Sci USA 93: 5522-5526.
44. Raumann, B.E., Rould, M.A., Pabo, C.O., and Sauer, R.T. (1994) DNA recognition by beta-sheets in the Arc repressor-operator crystal structure. Nature 367: 754-757.
45. Rost, B., and Sander, C. (1993) Improved prediction of protein secondary structure by use of sequence profiles and neural networks. Proc Natl Acad Sci USA 90: 7558-7562.
46. Sambrook, J., Fritsch, E.F, and Maniatis, T. (1989) Molecular Cloning: A Laboratory Manual. 2nd edn. Cold Spring Harbor, New York: Cold Spring Harbor Laboratory Press.
47. Scherzinger, E., Lurz, R., Otto, S., and Dobrinski, E. (1992) In vitro cleavage of double- and single-stranded DNA by plasmid RSF1010-encoded mobilization proteins. Nucleic Acids Res 20: 41-48.
48. Shafferman, A., and Helinski, D.R. (1983) Structural properties of the β origin of replication of plasmid R6K. J Biol Chem 258: 4083-4090.
49. Shafferman, A., Flashner, Y., Hertman, I., and Lion, M. (1987) Identification and characterization of the functional a origin of DNA replication of the R6K plasmid and its relatedness to the R6K β and γ origins. Mol Gen Genet 208: 263-270.
50. Studier, F.W., Rosenberg, A.H., Dunn, J.J., and Dubendorff, J.W. (1990) Use of T7 RNA polymerase to direct expression of cloned genes. Methods Enzymol 185: 60-89.
51. Winans, S.C., Elledge, S.J., Krueger, J.H., and Walker, G.G. (1985) Site-directed insertion and deletion mutagenesis with cloned fragments in Escherichia coli. J Bacteriol 161: 1219-1221.
52. Yanisch-Perron, C., Viera, J., and Messing, J. (1985) Improved M13 phage cloning vectors and host strains: nucleotide sequences of the M13mp18 and pUC19 vectors. Gene 33: 103-119.