Similarly organized lysogeny modules in temperate Siphoviridae from low GC content gram-positive bacteria

Virology

Volumn 263, Issue 2, 1999, Pages 427-435

  Lucchini, Sacha ^a   Desiere, Frank ^a   Brüssow, Harald ^a  

^a NESTLÉ RESEARCH CENTER   (Switzerland)

Author keywords

[No Author keywords available]

Indexed keywords

VIRUS PROTEIN;

ARTICLE; BACTERIOPHAGE; DNA REPLICATION; GRAM NEGATIVE BACTERIUM; GRAM POSITIVE BACTERIUM; INSECT VIRUS; LYSOGENIZATION; NONHUMAN; NUCLEOTIDE SEQUENCE; PRIORITY JOURNAL; SEQUENCE HOMOLOGY; VIRUS CLASSIFICATION;

BACTERIA (MICROORGANISMS); INSECTA; MYOVIRIDAE; NEGIBACTERIA; POSIBACTERIA; SIPHOVIRIDAE;

EID: 0033604287     PISSN: 00426822     EISSN: None     Source Type: Journal    
DOI: 10.1006/viro.1999.9959     Document Type: Article

References (43)

1. Ackermann H. W. Frequency of morphological phage descriptions in 1995. Arch. Virol. 141:1996;209-218.
2. Ackermann H. W. Tailed bacteriophages: The order Caudovirales. Adv. Virus Res. 51:1999;135-201.
3. Afonso C. L., Tulman E. R., Lu Z., Oma E., Kutish G. F., Rock D. L. The genome of Melanoplus sanguinipes entomopoxvirus. J. Virol. 73:1999;533-552.
4. Altschul S. F., Gish W., Miller W., Myers E. W., Lipman D. J. Basic local alignment search tool. J. Mol. Biol. 215:1990;403-410.
5. Alvarez M. A., Herrero M., Suarez J. E. The site-specific recombination system of the Lactobacillus species bacteriophage A2 integrates in gram-positive and gram-negative bacteria. Virology. 250:1998;185-193.
6. Bernstein H., Bernstein C. Bacteriophage T4 genetic homologies with bacteria and eucaryotes. J. Bacteriol. 171:1989;2265-2270.
7. Boccard F., Smokvina T., Pernodet J. L., Friedmann A., Guerineau M. The integrated conjugative plasmid pSAM2 of Streptomyces ambofaciens is related to temperate bacteriophages. EMBO J. 8:1989;973-980.
8. Botstein D. A theory of modular evolution for bacteriophages. Ann. N.Y. Acad. Sci. 354:1980;484-490.
9. Boyce J. D., Davidson B. E., Hillier A. J. Sequence analysis of the Lactococcus lactis temperate bacteriophage BK5-T and demonstration that the phage DNA has cohesive ends. Appl. Environ. Microbiol. 61:1995;4089-4098.
10. Bruttin A., Brüssow H. Site-specific spontaneous deletions in three genome regions of a temperate Streptococcus thermophilus phage. Virology. 219:1996;96-104.
11. Bruttin A., Desiere F., Lucchini S., Foley S., Brüssow H. Characterization of the lysogeny DNA module from the temperate Streptococcus thermophilus bacteriophage phi Sfi21. Virology. 233:1997a;136-148.
12. Bruttin A., Foley S., Brussow H. The site-specific integration system of the temperate Streptococcus thermophilus bacteriophage phiSfi21. Virology. 237:1997b;148-158.
13. Brüssow H., Bruttin A., Desiere F., Lucchini S., Foley S. Molecular ecology and evolution of Streptococcus thermophilus bacteriophages-a review. Virus Genes. 16:1998;95-109.
14. Casjens S., Hatfull G. F., Hendrix R. Evolution of dsDNA tailed-bacteriophage genomes. Semin. Virol. 3:1992;383-397.
15. Christiansen B., Brondsted L., Vogensen F. K., Hammer K. A resolvase-like protein is required for the site-specific integration of the temperate lactococcal bacteriophage TP901-1. J. Bacteriol. 178:1996;5164-5173.
16. Corpet F. Multiple sequence alignment with hierarchical clustering. Nucleic Acids. Res. 16:1988;10881-10890.
17. Desiere F., Lucchini F., Brüssow H. Comparative sequence analysis of the DNA packaging, head and tail morphogenesis modules in the temperate cos-site Streptococcus thermophilus bacteriophage Sfi21. Virology. 260:1999;244-253.
18. Desiere F., Lucchini S., Bruttin A., Zwahlen M. C., Brüssow H. A highly conserved DNA replication module from Streptococcus thermophilus phages is similar in sequence and topology to a module from Lactococcus lactis phages. Virology. 234:1997;372-382.
19. Desiere F., Lucchini S., Brüssow H. Evolution of Streptococcus thermophilus bacteriophage genomes by modular exchanges followed by point mutations and small deletions and insertions. Virology. 241:1998;345-356.
20. Duret L., Gasteiger E., Perriere G. LALNVIEW: A graphical viewer for pairwise sequence alignments. Comput. Appl. Biosci. 12:1996;507-510.
21. Engel G., Altermann E., Klein J., Henrich B. Structure of a genome region of the Lactobacillus gasseri temperate phage phi adh covering a repressor gene and cognate promoters. Gene. 210:1998;67-70.
22. Esposito D., Scocca J. J. Identification of an HP1 phage protein required for site-specific excision. Mol. Microbiol. 13:1994;685-695.
23. Foley S., Lucchini S., Zwahlen M. C., Brüssow H. A short noncoding viral DNA element showing characteristics of a replication origin confers bacteriophage resistance to Streptococcus thermophilus. Virology. 250:1998;377-387.
24. Fuhrman J. A. Marine viruses and their biogeochemical and ecological effects. Nature. 399:1999;541-548.
25. Gemski P. J., Baron L. S., Yamamoto N. Formation of hybrids between coliphage lambda and Salmonella phage P22 with a Salmonella typhimurium hybrid sensitive to these phages. Proc. Natl. Acad. Sci. USA. 69:1972;3110-3114.
26. Hatfull G. F., Sarkis G. J. DNA sequence, structure and gene expression of mycobacteriophage L5: A phage system for mycobacterial genetics. Mol. Microbiol. 7:1993;395-405.
27. Hendrix R. W., Smith M. C., Burns R. N., Ford M. E., Hatfull G. F. Evolutionary relationships among diverse bacteriophages and prophages: All the world's a phage. Proc. Natl. Acad. Sci. USA. 96:1999;2192-2197.
28. Huang X. Q., Hardison R. C., Miller W. A space-efficient algorithm for local similarities. Comput. Appl. Biosci. 6:1990;373-381.
29. Jongeneel C. V., Bouvier J., Bairoch A. A unique signature identifies a family of zinc-dependent metallopeptidases. FEBS Lett. 242:1989;211-214.
30. Kaneko J., Kimura T., Narita S., Tomita T. Complete nucleotide sequence and molecular characterization of the temperate staphylococcal bacteriophage PVL carrying Panton-Valentine leukocidin genes. Gene. 215:1998;57-67.
31. Kodaira K. I., Oki M., Kakikawa M., Watanabe N., Hirakawa M., Yamada K., Taketo A. Genome structure of the Lactobacillus temperate phage phi g1e: The whole genome sequence and the putative promoter/repressor system. Gene. 187:1997;45-53.
32. Lipman D. J., Pearson W. R. Rapid and sensitive protein similarity searches. Science. 227:1985;1435-1441.
33. Lucchini S., Desiere F., Brüssow H. The structural gene module in Streptococcus thermophilus bacteriophage phi Sfi11 shows a hierarchy of relatedness to Siphoviridae from a wide range of bacterial hosts. Virology. 246:1998;63-73.
34. Lucchini S., Desiere F., Brüssow H. The genetic relationship between virulent and temperate Streptococcus thermophilus bacteriophages: Whole genome comparison of cos-site phages Sfi19 and Sfi21. Virology. 260:1999a;232-243.
35. Lucchini S., Desiere F., Brüssow H. Comparative genomics of Streptococcus thermophilus phage species supports a modular evolution theory. J. Virol. 73:1999b;8647-8656.
36. Madsen P. L., Hammer K. Temporal transcription of the lactococcal temperate phage TP901-1 and DNA sequence of the early promoter region. Microbiology. 144:1998;2203-2215.
37. Maniloff J., Ackermann H. W. Taxonomy of bacterial viruses: Establishment of tailed virus genera and the order Caudovirales. Arch. Virol. 143:1998;2051-2063.
38. Nesper J., Blass J., Fountoulakis M., Reidl J. Characterization of the major control region of Vibrio cholerae bacteriophage K139: Immunity, exclusion, and integration. J. Bacteriol. 181:1999;2902-2913.
39. Neve H., Zenz K. I., Desiere F., Koch A., Heller K. J., Brüssow H. Comparison of the lysogeny modules from the temperate Streptococcus thermophilus bacteriophages TP-J34 and Sfi21: Implications for the modular theory of phage evolution. Virology. 241:1998;61-72.
40. Skowronek K., Baranowski S. The relationship between HP1 and S2 bacteriophages of Haemophilus influenzae. Gene. 196:1997;139-144.
41. Stanley E., Fitzgerald G. F., Le Marrec C., Fayard B., van Sinderen D. Sequence analysis and characterization of phi O1205, a temperate bacteriophage infecting Streptococcus thermophilus CNRZ1205. Microbiology. 143:1997;3417-3429.
42. Thompson J. D., Higgins D. G., Gibson T. J. Improved sensitivity of profile searches through the use of sequence weights and gap excision. Comput. Appl. Biosci. 10:1994;19-29.
43. van Sinderen D., Karsens H., Kok J., Terpstra P., Ruiters M. H., Venema G., Nauta A. Sequence analysis and molecular characterization of the temperate lactococcal bacteriophage r1t. Mol. Microbiol. 19:1996;1343-1355.