Comparative sequence analysis of the DNA packaging, head, and tail morphogenesis modules in the temperate cos-site Streptococcus thermophilus bacteriophage Sfi21

Virology

Volumn 260, Issue 2, 1999, Pages 244-253

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

^a NESTLÉ RESEARCH CENTER   (Switzerland)

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIOPHAGE DNA;

AMINO ACID SEQUENCE; ARTICLE; BACTERIOPHAGE; DNA SEQUENCE; GRAM POSITIVE BACTERIUM; LACTOCOCCUS; NONHUMAN; NUCLEOTIDE SEQUENCE; OPEN READING FRAME; POLYMERASE CHAIN REACTION; PRIORITY JOURNAL; STAPHYLOCOCCUS; STREPTOCOCCUS THERMOPHILUS;

STREPTOCOCCUS THERMOPHILUS;

EID: 0033178790     PISSN: 00426822     EISSN: None     Source Type: Journal    
DOI: 10.1006/viro.1999.9830     Document Type: Article

References (45)

1. Ackermann H. W. Tailed bacteriophages: The order Caudovirales. Adv. Virus Res. 51:1999;135-201.
2. 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.
3. Becker B., de la Fuente N., Gassel M., Gunther D., Tavares P., Lurz R., Trautner T. A., Alonso J. C. Head morphogenesis genes of the Bacillus subtilis bacteriophage SPP1. J. Mol. Biol. 268:1997;822-839.
4. Ben-Bassat A., Bauer K., Chang S. Y., Myambo K., Boosman A., Chang S. Processing of the initiation methionine from proteins: Properties of the Escherichia coli methionine aminopeptidase and its gene structure. J. Bacteriol. 169:1987;751-757.
5. 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. 233:1997;136-148.
6. Brüssow H. Webster R., Granoff A., Encyclopedia of Virology. 1999;Academic Press, London.
7. Brüssow H., Bruttin A. Characterization of a temperate Streptococcus thermophilus bacteriophage and its genetic relationship with lytic phages. Virology. 212:1995;632-640.
8. 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.
9. Casjens S., Hendrix R. Comments on the arrangement of the morphogenetic genes of bacteriophage lambda. J. Mol. Biol. 90:1974;20-25.
10. Chandry P. S., Moore S. C., Boyce J. D., Davidson B. E., Hillier A. J. Analysis of the DNA sequence, gene expression, origin of replication and modular structure of the Lactococcus lactis lytic bacteriophage sk1. Mol. Microbiol. 26:1997;49-64.
11. Cole S. T., Brosch R., Parkhill J., Garnier T., Churcher C., Harris D., Gordon S. V., Eiglmeier K., Gas S., Barry C. E., Tekaia F., Badcock K., Basham D., Brown D., Chillingworth T., Connor R., Davies R., Devlin K., Feltwell T., Gentles S., Hamlin N., Holroyd S., Hornsby T., Jagels K., Barrell B. G. Deciphering the biology of Mycobacterium tuberculosis from the complete genome sequence. Nature. 393:1998;537-544.
12. Conway J. F., Duda R. L., Cheng N., Hendrix R. W., Steven A. C. Proteolytic and conformational control of virus capsid maturation: The bacteriophage HK97 system. J. Mol. Biol. 253:1995;86-99.
13. Daveran-Mingot M. L., Campo N., Ritzenthaler P., Le Bourgeois P. A natural large chromosomal inversion in Lactococcus lactis is mediated by homologous recombination between two insertion sequences. J. Bacteriol. 180:1998;4834-4842.
14. 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.
15. Doolittle R. F. Similar amino acid sequences: Chance or common ancestry. Science. 214:1981;149-159.
16. Dove W. F. Hershey A. D., The Bacteriophage Lambda. 1971;297-312 Cold Spring Harbor Laboratory, Cold Spring Harbor.
17. Duda R. L., Hempel J., Michel H., Shabanowitz J., Hunt D., Hendrix R. W. Structural transitions during bacteriophage HK97 head assembly. J. Mol. Biol. 247:1995;618-635.
18. Ellis D. M., Dean D. H. Nucleotide sequence of the cohesive single-stranded ends of Bacillus subtilis temperate bacteriophage phi 105. J. Virol. 55:1985;513-515.
19. Eppler K., Wyckoff E., Goates J., Parr R., Casjens S. Nucleotide sequence of the bacteriophage P22 genes required for DNA packaging. Virology. 183:1991;519-538.
20. Esposito D., Fitzmaurice W. P., Benjamin R. C., Goodman S. D., Waldman A. S., Scocca J. J. The complete nucleotide sequence of bacteriophage HP1 DNA. Nucleic Acids Res. 24:1996;2360-2368.
21. 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.
22. Garcia P., Alonso J. C., Suarez J. E. Molecular analysis of the cos region of the Lactobacillus casei bacteriophage A2: Gene product 3, gp3, specifically binds to its downstream cos region. Mol. Microbiol. 23:1997;505-514.
23. Hendrix R. W., Duda R. L. Bacteriophage HK97 head assembly: A protein ballet. Adv. Virus Res. 50:1998;235-288.
24. 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.
25. Henikoff S., Henikoff J. G., Alford W. J., Pietrokovski S. Automated construction and graphical presentation of protein blocks from unaligned sequences. Gene. 163:1995;GC17-GC26.
26. Janzen T., Kleinschmidt J., Neve H., Geis A. Sequencing and characterization of pST1, a cryptic plasmid from Streptococcus thermophilus. FEMS Microbiol. Lett. 74:1992;175-180.
27. Kaneko J., Kimura T., Narita S., Tomita T. Complete nucleotide sequence and molecular characterization of the temperate staphylococcal bacteriophage phiPVL carrying Panton-Valentine leukocidin genes. Gene. 215:1998;57-67.
28. Kinner E., Pocta D., Stroer S., Schmieger H. Sequence analysis of cohesive ends of the actinophage RP3 genome and construction of a transducible shuttle vector. FEMS Microbiol. Lett. 118:1994;283-289.
29. Lakshmidevi G., Davidson B. E., Hillier A. J. Molecular characterization of promoters of the Lactococcus lactis subsp. cremoris temperate bacteriophage BK5-T and identification of a phage gene implicated in the regulation of promoter activity. Appl. Environ. Microbiol. 56:1990;934-942.
30. Larbi D., Decaris B., Simonet J. M. Different bacteriophage resistance mechanisms in Streptococcus salivarius subsp. thermophilus. J. Dairy Res. 59:1992;349-357.
31. 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.
32. 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.
33. Lucchini S., Desiere F., Brüssow H. Comparative genomics of Streptococcus thermophilus phage species supports a modular evolution theory. J. Virol. 1999b.
34. Maniloff J., Ackermann H. W. Taxonomy of bacterial viruses: Establishment of tailed virus genera and the order Caudovirales. Arch. Virol. 143:1998;2051-2063.
35. Maurizi M. R., Clark W. P., Kim S. H., Gottesman S. Clp P represents a unique family of serine proteases. J. Biol. Chem. 265:1990;12546-12552.
36. Mercenier A. Molecular genetics of Streptococcus thermophilus. FEMS Microbiol. Rev. 7:1990;61-77.
37. Pearson W. R., Lipman D. J. Improved tools for biological sequence comparison. Proc. Natl. Acad. Sci. USA. 85:1988;2444-2448.
38. Pfister P., Wasserfallen A., Stettler R., Leisinger T. Molecular analysis of Methanobacterium phage psiM2. Mol. Microbiol. 30:1998;233-244.
39. Platteeuw C., Simons G., de Vos W. M. Use of the Escherichia coli beta-glucuronidase (gusA) gene as a reporter gene for analyzing promoters in lactic acid bacteria. Appl. Environ. Microbiol. 60:1994;587-593.
40. Smith M. C., Burns R. N., Wilson S. E., Gregory M. A. The complete genome sequence of the Streptomyces temperate phage phiC31: Evolutionary relationships to other viruses. Nucleic Acids Res. 27:1999;2145-2155.
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. Takemaru K., Mizuno M., Sato T., Takeuchi M., Kobayashi Y. Complete nucleotide sequence of a skin element excised by DNA rearrangement during sporulation in Bacillus subtilis. Microbiology. 141:1995;323-327.
43. Thompson J. D., Higgins D. G., Gibson T. J. CLUSTAL W: Improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res. 22:1994;4673-4680.
44. Tremblay D. M., Moineau S. Complete genomic sequence of the lytic bacteriophage DT1 of Streptococcus thermophilus. Virology. 255:1999;63-76.
45. Vlcek C., Paces V., Maltsev N., Paces J., Haselkorn R., Fonstein M. Sequence of a 189-kb segment of the chromosome of Rhodobacter capsulatus SB1003. Proc. Natl. Acad. Sci. USA. 94:1997;9384-9388.