The anti-immunity system of phage-plasmid N15: Identification of the antirepressor gene and its control by a small processed RNA

Molecular Microbiology

Volumn 34, Issue 5, 1999, Pages 980-994

  Ravin, Nikolai V ^a,b   Svarchevsky, Alexander N ^c   Dehò, Gianni ^a  

^a UNIVERSITY OF MILAN   (Italy)

^b INSTITUTE OF BIOENGINEERING   (Russian Federation)

^c PETER THE GREAT ST PETERSBURG POLYTECHNIC UNIVERSITY   (Russian Federation)

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIAL RNA;

ARTICLE; BACTERIOPHAGE; BACTERIOPHAGE N15; BACTERIOPHAGE P1; CELL DIVISION; CONTROLLED STUDY; CYTOLYSIS; GENE FUNCTION; GENE LOCUS; GENE MAPPING; GENE MUTATION; GENE OVEREXPRESSION; GENE REPRESSION; GENETIC TRANSCRIPTION; IMMUNITY; NONHUMAN; NORTHERN BLOTTING; NUCLEOTIDE SEQUENCE; OPEN READING FRAME; OPERON; PRIORITY JOURNAL; PROMOTER REGION; PROPHAGE; REPRESSOR GENE; RNA PROCESSING; RNA STRUCTURE; TRANSCRIPTION INITIATION; TRANSCRIPTION TERMINATION;

BACTERIA (MICROORGANISMS); ESCHERICHIA COLI; UNIDENTIFIED BACTERIOPHAGE;

EID: 0033428519     PISSN: 0950382X     EISSN: None     Source Type: Journal    
DOI: 10.1046/j.1365-2958.1999.01658.x     Document Type: Article

References (53)

1. Alano, P., Dehò, G., Sironi, G., and Zangrossi, S. (1986) Regulation of the plasmid state of the genetic element P4. Mol Gen Genet 203: 445-450.
2. Altschul, S.F., Madden, A.A., Schaffer, T.L., Zhang, J., Zhang, Z., Miller, W., and Lipman, D.J. (1997) Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res 25: 3389-3402.
3. Biere, A.L., Citron, M., and Schuster, H. (1992) Transcriptional control via translational repression by c4 antisense RNA of bacteriophages P1 and P7. Genes Dev 6: 2409-2416.
4. Boorstein, W.R., and Craig, E.A. (1989) Primer extension analysis of RNA. Methods Enzymol 180: 347-369.
5. Brännvall, M., Mattsson, J.G., Svärd, S.G., and Kirsebom, L.A. (1998) RNase P RNA structure and cleavage reflect the primary structure of tRNA genes. J Mol Biol 283: 771-783.
6. Briani, F., Zangrossi, S., Ghisotti, D., and Dehò, G. (1996) A Rho-dependent transcription termination site regulated by bacteriophage P4 RNA immunity factor. Virology 223: 57-67.
7. Campbell, A., and Botstein, D. (1983) Evolution of the lambdoid phages. In Lambda II. Hendrix, W.R. Roberts, J.W. Stahl, F.W., and Weisberg, R.A. (eds). Cold Spring Harbor, NY: Cold Spring Harbor Laboratory Press, pp. 365-380.
8. Citron, M., and Schuster, H. (1990) The c4 repressors of bacteriophages P1 and P7 are antisense RNAs. Cell 62: 591-598.
9. Citron, M., and Schuster, H. (1992) The c4 repressor of bacteriophage P1 is a processed 77 base antisense RNA. Nucleic Acids Res 20: 3085-3090.
10. D'Souza, M., Larsen, N., and Overbeek, R. (1997) Searching for patterns in genomic data. Trends Genet 13: 497-498.
11. Dehò, G., Zangrossi, S., Sabbattini, P., Sironi, G., and Ghisotti, D. (1992) Bacteriophage P4 immunity controlled by small RNAs via transcription termination. Mol Microbiol 6: 3415-3425.
12. Forti, F., Sabbattini, P., Sironi, G., Zangrossi, S., Dehò, G., and Ghisotti, D. (1995) Immunity determinant of phage-plasmid P4 is a short processed RNA. J Mol Biol 249: 869-878.
13. Forti, F., Polo, S., Lane, K.B., Six, E.W., Sironi, G., Dehò, G., and Ghisotti, D. (1999) Translation of two nested genes in bacteriophage P4 controls immunity specific transcription termination. J Bacteriol 5225-5233.
14. Fraser, C.M., Casjens, S., Huang, W.M., Sutton, G.G., Clayton, R., Lathigra, R., et al. (1997) Genomic sequence of a Lyme disease spirochaete, Borrelia burgdorferi. Nature 390: 580-586.
15. Friedman, D., and Gottesman, M. (1983) Lytic mode of lambda development. In Lambda II. Hendrix, W.R. Roberts, J.W. Stahl, F.W., and Weisberg, R.A., (eds). Cold Spring Harbor, NY: Cold Spring Harbor Laboratory Press, pp. 21-51.
16. Geisselsoder, J., Youderian, P., Dehò, G., Chidambaram, M., Goldstein, R., and Ljungquist, E. (1981) Mutants of satellite virus P4 that cannot derepress their bacteriophage P2 helper. J Mol Biol 148: 1-19.
17. Ghisotti, D., Chiaramonte, R., Forti, F., Zangrossi, S., Sironi, G., and Dehò, G. (1992) Genetic analysis of the immunity region of phage-plasmid P4. Mol Microbiol 6: 3405-3413.
18. Grant, S.G., Jessee, 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.
19. BAD promoter. J Bacteriol 177: 4121-4130.
20. Heisig, A., Riedel, H.D., Dobrinski, B., Lurz, R., and Schuster, H. (1989) Organization of the immunity region imml of bacteriophage P1 and synthesis of the P1 antirepressor. J Mol Biol 209: 525-538.
21. Hinnebusch, J., and Barbour, A.G. (1991) Linear plasmids of Borrelia burgdorferi have a telomeric structure and sequence similar to those of a eukaryotic virus. J Bacteriol 173: 7233-7239.
22. Hiraga, S., Niki, H., Ogura, T., Ichinose, C., Mori, H., Ezaki, B., and Jaffe, A. (1989) Chromosome partitioning in Escherichia coli: novel mutants producing anucleate cells. J Bacteriol 171: 1496-1505.
23. Kirsebom, L.A. (1995) RNase P - a 'Scarlet Pimpernel'. Mol Microbiol 17: 411-420.
24. Kirsebom, L.A., and Svärd, S.G. (1994) Base pairing between Escherichia coli RNase P RNA and its substrate. EMBO J 13: 4870-4876.
25. Lessl, M., Balzer, D., Lurz, R., Waters, V.L., Guiney, D.G., and Lanka, E. (1992) Dissection of IncP conjugative plasmid transfer: definition of the transfer region Tra2 by mobilization of the Tra1 region in trans. J Bacteriol 174: 2493-2500.
26. Liu, T., Renberg, S.K., and Haggård-Ljungquist, E. (1998) The E protein of satellite phage P4 acts as an anti-repressor by binding to the C protein of helper phage. Mol Microbiol 30: 1041-1050.
27. Łobocka, M.B., Svarchevsky, A.N., Rybchin, A.N., and Yarmolinsky, M.B. (1996) Characterization of the primary immunity region of the Escherichia coli linear plasmid prophage N15. J Bacteriol 178: 2902-2910.
28. de Lorenzo, V., Herrero, M., Jakubzik, U., and Timmis, K.N. (1990) Mini-Tn5 transposon derivatives for insertion mutagenesis, promoter probing, and chromosomal insertion of cloned DNA in gram-negative eubacteria. J Bacteriol 171: 6568-6572.
29. Miller, J.H. (1972) Experiments in Molecular Genetics Cold Spring Harbor, NY: Cold Spring Harbor Laboratory Press.
30. Pearson, W.R., and Lipman, D.J. (1988) Improved tools for biological sequence comparison. Proc Natl Acad Sci USA 85: 2444-2448.
31. Peck-Miller, K.A., and Altman, S. (1991) Kinetics of the processing of the precursor to 4.5 S RNA, a naturally occurring substrate for RNase P from Escherichia coli. J Mol Biol 221: 1-5.
32. Piazza, F., Zappone, M., Sana, M., Briani, F., and Dehò, G. (1996) Polynucleotide phosphorylase of Escherichia coli is required for the establishment of bacteriophage P4 immunity. J Bacteriol 178: 5513-5521.
33. Ravin, N.V., and Ravin, V.K. (1994) Supercopy plasmid based on the replicon from the temperate bacteriophage N15 (in Russian). Mol Gen Mikrobiol Virusol (Moscow) 1: 37-39.
34. Ravin, N.V., Doroshenko, O.I., and Ravin, V.K. (1998) Cos region of the temperate bacteriophage N15 (in Russian). Mol Gen Mikrobiol Virusol 2: 17-20.
35. Ravin, V.K. (1971) Lysogeny (in Russian). Moscow: Nauka press.
36. Ravin, V.K., and Shulga, M.G. (1970) The evidence of extra-chromosomal location of prophage N15. Virology 40: 800-807.
37. Riedel, H.-D., Heinrich, J., and Schuster, H. (1993) Cloning, expression, and characterization of the icd gene in the imml operon of bacteriophage P1. J Bacteriol 175: 2833-2838.
38. Rybchin, V.N., and Svarchevsky, A.N. (1999) The plasmid prophage N15: a linear DNA with covalently closed ends. Mol Microbiol 33: 895-903.
39. Sabbattini, P., Forti, F., Ghisotti, D., and Dehò, G. (1995) Control of transcription termination by an RNA factor in bacteriophage P4 immunity: identification of the target sites. J Bacteriol 177: 1425-1434.
40. Sabbattini, P., Six, E., Zangrossi, S., Briani, F., Ghisotti, D., and Dehò, G. (1996) Immunity specificity determinants in the P4-like retronphage ΦR73. Virology 216: 389-396.
41. Sambrook, J., Fritsch, E.F., and Maniatis, T. (eds). (1989) Molecular cloning: A Laboratory Manual. 2nd edn. Cold Spring Harbor, NY: Cold Spring Harbor Laboratory Press.
42. Sankova, T.P., Svarchevsky, A.N., and Rybchin, V.N. (1992) Isolation, characterization and mapping of the N15 plasmid insertion mutations (in Russian). Genetika (Moscow) 28: 66-76.
43. Sasaki, I., and Bertani, G. (1965) Growth abnormalities in Hfr derivatives of Escherichia coli strain C. J Gen Microbiol 40: 365-376.
44. Scott, J.R., West, B.W., and Laping, J.L. (1978) Superinfection immunity and prophage repression in phage P1. Virology 85: 587-600.
45. Simons, R.W., and Kleckner, N. (1988) Biological regulation by antisense RNA in prokaryotes. Annu Rev Genet 22: 567-600.
46. Simons, R.W., Houman, F., and Kleckner, N. (1987) Improved single and multicopy lac-based cloning vectors for protein and operon fusions. Gene 53: 85-96.
47. Susskind, M.M., and Botstein, D. (1975) Mechanism of action of Salmonella phage P22 antirepressor. J Mol Biol 98: 413-424.
48. Svarchevsky, A.N. (1986) Plasmid N15: the particularities of genetics and DNA structure (in Russian). PhD Thesis. Leningrad: The Leningrad State University.
49. Svarchevsky, A.N., and Rybchin, V.N. (1984) Physical mapping of plasmid N15 DNA (in Russian). Mol Gen Mikrobiol Virusol (Moscow) 10: 16-22.
50. Vostrov, A.A., Vostrukhina, O.A., Svarchevsky, A.N., and Rybchin, V.N. (1996) Proteins responsible for lysogenic conversion caused by coliphages N15 and Φ80 are highly homologous. J Bacteriol 178: 1484-1486.
51. Wandersman, C., and Yarmolinsky, M. (1977) Bipartite control of immunity conferred by the related heteroimmune plasmid prophages, P1 and P7 (formerly φAmp). Virology 77: 386-400.
52. Yanish-Perron, C., Vieira, 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.
53. Zuker, M., and Stiegler, P. (1981) Optimal computer folding of large RNA sequences using thermodynamics and auxiliary information. Nucleic Acids Res 9: 133-148.