Transcription-termination-mediated immunity and its prevention in bacteriophage SfV of Shigella flexneri

Journal of General Virology

Volumn 88, Issue 11, 2007, Pages 3187-3197

  Roberts, Fleur ^a   Allison, Gwen E ^a,b   Verma, Naresh K ^a  

^a AUSTRALIAN NATIONAL UNIVERSITY   (Australia)

^b Canberra Hospital   (Australia)

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIAL PROTEIN; GAMMA LIKE CL PROTEIN; PROTEIN ORF77; RNA; UNCLASSIFIED DRUG;

ARTICLE; BACTERIAL STRAIN; BACTERIOPHAGE; BACTERIOPHAGE SFV; CONTROLLED STUDY; GENETIC CODE; GENETIC TRANSCRIPTION; IMMUNITY; LYSOGENIZATION; NONHUMAN; OPEN READING FRAME; PLASMID; PRIORITY JOURNAL; PROTEIN EXPRESSION; RNA SEQUENCE; SEROTYPE; SHIGELLA FLEXNERI; SUPERINFECTION;

BACTERIOPHAGES; LYSOGENY; OPEN READING FRAMES; RNA, UNTRANSLATED; RNA, VIRAL; SHIGELLA FLEXNERI; TRANSCRIPTION, GENETIC;

SHIGELLA FLEXNERI;

EID: 36248964710     PISSN: 00221317     EISSN: None     Source Type: Journal    
DOI: 10.1099/vir.0.83062-0     Document Type: Article

References (48)

1. Allison, G. E., Angeles, D., Tran-Dinh, N. & Verma, N. K. (2002). Complete genomic sequence of SfV, a serotype-converting temperate bacteriophage of Shigella flexneri. J Bacteriol 184, 1974-1987.
2. Biere, A. L., Citron, M. & Schuster, H. (1992). Transcriptional control via translational repression by c4 antisense RNA of bacteriophages P1 and P7. Genes Dev 6, 2409-2416.
3. Briani, F., Zangrossi, S., Ghisotti, D. & Deho, G. (1996). A Rho-dependent transcription termination site regulated by bacteriophage P4 RNA immunity factor. Virology 223, 57-67.
4. Briani, F., Ghisotti, D. & Deho, G. (2000). Antisense RNA-dependent transcription termination sites that modulate lysogenic development of satellite phage P4. Mol Microbiol 36, 1124-1134.
5. Briani, F., Del Vecchio, E., Migliorini, D., Hajnsdorf, E., Regnier, P., Ghisotti, D. & Deho, G. (2002). RNase E and polyadenyl polymerase I are involved in maturation of Cl RNA, the P4 phage immunity factor. J Mol Biol 318, 321-331.
6. Brown, T., Mackey, K. & Du, T. (2004). Analysis of RNA by Northern and slot blot hybridization. In Current Protocols in Molecular Biology, vol. 4, pp. 1-19. Edited by F. M. Ausubel, R. Brent, R. E. Kingston, D. D. Moore, J. G. Seidman, J. A. Smith & K. Struhl. Holboken, NJ: Wiley.
7. Citron, M. & Schuster, H. (1990). The c4 repressors of bacteriophages P1 and P7 are antisense RNAs. Cell 62, 591-598.
8. Citron, M. & Schuster, H. (1992). The c4 repressor of bacteriophage P1 is a processed 77 base antisense RNA. Nucleic Acids Res 20, 3085-3090.
9. Deho, G., Zangrossi, S., Ghisotti, D. & Sironi, G. (1988). Alternative promoters in the development of bacteriophage plasmid P4. J Virol 62, 1697-1704.
10. Deho, G., Zangrossi, S., Sabbattini, P., Sironi, G. & Ghisotti, D. (1992). Bacteriophage P4 immunity controlled by small RNAs via transcription termination. Mol Microbiol 6, 3415-3425.
11. Faubladier, M. & Bouche, J. P. (1994). Division inhibition gene dicF of Escherichia coli reveals a widespread group of prophage sequences in bacterial genomes. J Bacteriol 176, 1150-1156.
12. Forti, F., Sabbattini, P., Sironi, G., Zangrossi, S., Deho, G. & 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., Deho, G. & Ghisotti, D. (1999). Translation of two nested genes in bacteriophage P4 controls immunity-specific transcription termination. J Bacteriol 181, 5225-5233.
14. Forti, F., Dragoni, I., Briani, F., Deho, G. & Ghisotti, D. (2002). Characterization of the small antisense Cl RNA that regulates bacteriophage P4 immunity. J Mol Biol 315, 541-549.
15. Ghisotti, D., Chiaramonte, R., Forti, F., Zangrossi, S., Sironi, G. & Deho, G. (1992). Genetic analysis of the immunity region of phage-plasmid P4. Mol Microbiol 6, 3405-3413.
16. S mutant reveal the interdependence of the c4, icd, and ant genes in the P1 immI operon. J Bacteriol 176, 4931-4936.
17. Heinrich, J., Riedel, H. D., Ruckert, B., Lurz, R. & Schuster, H. (1995a). The lytic replicon of bacteriophage P1 is controlled by an antisense RNA. Nucleic Acids Res 23, 1468-1474.
18. Heinrich, J., Velleman, M. & Schuster, H. (1995b). The tripartite immunity system of phages P1 and P7. FEMS Microbiol Rev 17, 121-126.
19. Hofer, B., Ruge, M. & Dreiseikelmann, B. (1995). The superinfection exclusion gene (sieA) of bacteriophage P22: identification and overexpression of the gene and localization of the gene product. J Bacteriol 177, 3080-3086.
20. Huan, P. T., Bastin, D. A., Whittle, B. L., Lindberg, A. A. & Verma, N. K. (1997a). Molecular characterization of the genes involved in O-antigen modification, attachment, integration and excision in Shigella flexneri bacteriophage SfV. Gene 195, 217-227.
21. Huan, P. T., Whittle, B. L., Bastin, D. A., Lindberg, A. A. & Verma, N. K. (1997b). Shigella flexneri type-specific antigen V: cloning, sequencing and characterization of the glucosyl transferase gene of temperate bacteriophage SfV. Gene 195, 207-216.
22. Huttenhofer, A. & Vogel, J. (2006). Experimental approaches to identify non-coding RNAs. Nucleic Acids Res 34, 635-646.
23. Lindberg, A. A., Karnall, A., Stocker, B. A., Katakura, S., Sweiha, H. & Reinholt, F. P. (1988). Development of an auxotrophic oral live Shigella flexneri vaccine. Vaccine 6, 146-150.
24. Lu, M. J. & Henning, U. (1989). The immunity (imm) gene of Escherichia coli bacteriophage T4. J Virol 63, 3472-3478.
25. Lu, M. J., Stierhof, Y. D. & Henning, U. (1993). Location and unusual membrane topology of the immunity protein of the Escherichia coli phage T4. J Virol 67, 4905-4913.
26. Macpherson, D. F., Morona, R., Beger, D. W., Cheah, K. C. & Manning, P. A. (1991). Genetic analysis of the rfb region of Shigella flexneri encoding the Y serotype O-antigen specificity. Mol Microbiol 5, 1491-1499.
27. Maillou, J. & Dreiseikelmann, B. (1990). The sim gene of Escherichia coli phage P1: nucleotide sequence and purification of the processed protein. Virology 175, 500-507.
28. Majdalani, N., Vanderpool, C. K. & Gottesman, S. (2005). Bacterial small RNA regulators. Crit Rev Biochem Mol Biol 40, 93-113.
29. Markine-Goriaynoff, N., Gillet, L., Van Etten, J. L., Korres, H., Verma, N. & Vanderplasschen, A. (2004). Glycosyltransferases encoded by viruses. J Gen Virol 85, 2741-2754.
30. Mavris, M., Manning, P. A. & Morona, R. (1997). Mechanism of bacteriophage SfII-mediated serotype conversion in Shigella flexneri. Mol Microbiol 26, 939-950.
31. McGrath, S., Fitzgerald, G. F. & van Sinderen, D. (2002). Identification and characterization of phage-resistance genes in temperate lactococcal bacteriophages. Mol Microbiol 43, 509-520.
32. Oppenheim, A. B., Kobiler, O., Stevens, J., Court, D. L. & Adhya, S. (2005). Switches in bacteriophage lambda development. Annu Rev Genet 39, 409-429.
33. Piazza, F., Zappone, M., Sana, M., Briani, F. & Deho, G. (1996). Polynucleotide phosphorylase of Escherichia coli is required for the establishment of bacteriophage P4 immunity. J Bacteriol 178, 5513-5521.
34. Ranade, K. & Poteete, A. R. (1993). Superinfection exclusion ( sieB) genes of bacteriophages P22 and lambda. J Bacteriol 175, 4712-4718.
35. Ravin, N. V., Svarchevsky, A. N. & Deho, G. (1999). The anti-immunity system of phage-plasmid N15: identification of the antirepressor gene and its control by a small processed RNA. Mol Microbiol 34, 980-994.
36. Riedel, H. D., Heinrich, J., Heisig, A., Choli, T. & Schuster, H. (1993a). The antirepressor of phage P1. Isolation and interaction with the C1 repressor of P1 and P7. FEBS Lett 334, 165-169.
37. Riedel, H. D., Heinrich, J. & Schuster, H. (1993b). Cloning, expression, and characterization of the icd gene in the immI operon of bacteriophage P1. J Bacteriol 175, 2833-2838.
38. Sabbattini, P., Forti, F., Ghisotti, D. & Deho, G. (1995). Control of transcription termination by an RNA factor in bacteriophage P4 immunity: identification of the target sites. J Bacteriol 177, 1425-1434.
39. Sambrook, J. & Russell, D. W. (2001). Molecular Cloning: a Laboratory Manual, 3rd edn. Cold Spring Harbor, NY: Cold Spring Harbor Laboratory Press.
40. Simmons, D. A. & Romanowska, E. (1987). Structure and biology of Shigella flexneri O antigens. J Med Microbiol 23, 289-302.
41. Storz, G., Altuvia, S. & Wasserman, K. M. (2005). An abundance of RNA regulators. Annu Rev Biochem 74, 199-217.
42. Storz, G., Opdyke, J. A. & Wassarman, K. M. (2006). Regulating bacterial transcription with small RNAs. Cold Spring Harb Symp Quant Biol 71, 269-273.
43. Sung, K., Khan, S. A., Nawaz, M. S. & Khan, A. A. (2003). A simple and efficient Triton X-100 boiling and chloroform extraction method of RNA isolation from Gram-positive and Gram-negative bacteria. FEMS Microbiol Lett 229, 97-101.
44. Susskind, M. M., Wright, A. & Botstein, D. (1971). Superinfection exclusion by P22 prophage in lysogens of Salmonella typhimurium. II. Genetic evidence for two exclusion systems. Virology 45, 638-652.
45. Susskind, M. M., Botstein, D. & Wright, A. (1974). Superinfection exclusion by P22 prophage in lysogens of Salmonella typhimurium. III. Failure of superinfecting phage DNA to enter sieA + lysogens. Virology 62, 350-366.
46. Vander Byl, C. & Kropinski, A. M. (2000). Sequence of the genome of Salmonella bacteriophage P22. J Bacteriol 182, 6472-6481.
47. Yanisch-Perron, C., Vieira, J. & Messing, J. (1985). Improved M13 phage cloning vectors and host strains: nucleotide sequences of the M13mp18 and pUC19 vectors. Gene 33, 103-119.
48. Zuker, M., Mathews, D. H. & Turner, D. H. (1999). Algorithms and thermodynamics for RNA secondary structure prediction: a practical guide. In RNA Biochemistry and Biotechnology, pp. 11-43. Edited by J. Barciszewski & B. F. C. Clark. Dordrecht, The Netherlands: Kluwer.