Complete nucleotide sequence and molecular characterization of two lytic Staphylococcus aureus phages: 44AHJD and P68

FEMS Microbiology Letters

Volumn 219, Issue 2, 2003, Pages 275-283

  Vybiral, Dietmar ^a   Takáč, Marian ^a   Loessner, Martin ^b   Witte, Angela ^a   Von Ahsen, Uwe ^c   Bläsi, Udo ^a  

^a Vienna Biocenter   (Austria)

^b TECHNICAL UNIVERSITY OF MUNICH   (Germany)

^c INTERCELL AG   (Austria)

Author keywords

Lytic phage; Nucleotide sequence; Staphylococcus aureus

Indexed keywords

BACTERIAL PROTEIN; DNA FRAGMENT; DNA POLYMERASE; DOUBLE STRANDED DNA; GENE PRODUCT;

ARTICLE; BACTERIOPHAGE; CONTROLLED STUDY; DNA PROTEIN COMPLEX; DNA REPLICATION; DNA SEQUENCE; ELECTROPHORESIS; GENOME; GENOME SIZE; LYSIS; NONHUMAN; NUCLEOTIDE SEQUENCE; OPEN READING FRAME; OPERON; PRIORITY JOURNAL; PROMOTER REGION; SEQUENCE ANALYSIS; STAPHYLOCOCCUS AUREUS; STRUCTURAL GENE;

CAUDOVIRALES; PODOVIRIDAE; STAPHYLOCOCCUS; STAPHYLOCOCCUS AUREUS; STAPHYLOCOCCUS PHAGE 44AHJD;

EID: 0037469628     PISSN: 03781097     EISSN: None     Source Type: Journal    
DOI: 10.1016/S0378-1097(03)00028-4     Document Type: Article

References (38)

1. Carlton R.M. Phage therapy: Past history and future prospects. Arch. Immunol. Ther. Exp. 47:1999;267-274.
2. Matic I. Bacteriophages and virulence evolution. Trends Microbiol. 7:1999;433.
3. Kaneko J., Kimura T., Narita S., Tomita T., Kamio Y. Complete nucleotide sequence and molecular characterization of the temperate staphylococcal bacteriophage φPVL carrying Panton-Valentine leukocidin genes. Gene. 215:1998;57-67.
4. Yamaguchi T., Hayashi T., Takami H., Nakasone K., Ohnishi M., Nakayama K., Yamada S., Komatsuzawa H., Sugai M. Phage conversion of exfoliative toxin A production in Staphylococcus aureus. Mol. Microbiol. 38:2000;694-705.
5. Narita S., Kaneko J., Chiba J., Piemont Y., Jarraud S., Etienne J., Kamio Y. Phage conversion of Panton-Valentine leukocidin in Staphylococcus aureus: molecular analysis of a PVL-converting phage, φSLT. Gene. 268:2001;195-206.
6. Ito J. Bacteriophage φ29 terminal protein: Its association with the 5′-termini of the φ29 genome. J. Virol. 28:1978;895-904.
7. Ewing B., Green P. Basecalling of automated sequencer traces using phred. II. Error probabilities. Genome Res. 8:1998;186-194.
8. Staden R. The Staden Sequence Analysis Package. Mol. Biotechnol. 5:1996;233-241.
9. Lukashin A.V., Borodovsky M. GeneMark.hmm: new solutions for gene finding. Nucleic Acids Res. 26:1998;1107-1115.
10. Pearson W.R., Lipman D.J. Improved tools for biological sequence comparison. Proc. Natl. Acad. Sci. USA. 85:1988;2444-2448.
11. 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.
12. Rognes T., Seeberg E. Six-fold speed-up of Smith-Waterman sequence database searches using parallel processing on common microprocessors. Bioinformatics. 16:2000;699-706.
13. Altschul S.F., Madden T.L., Schäffer A.A., Zhang J., Zhang Z., Miller W., Lipman D.J. Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res. 25:1997;3389-3402.
14. Bairoch A., Bucher P., Hofmann K. The PROSITE database, its status in 1997. Nucleic Acids Res. 25:1997;217-221.
15. Sonnhammer E.L., Kahn D. Modular arrangement of proteins as inferred from analysis of similarity. Protein Sci. 3:1994;482-492.
16. Sonnhammer E.L., Eddy S.R., Durbin R. Pfam: a comprehensive database of protein families based on seed alignments. Proteins. 28:1997;405-420.
17. Eddy S.R. Profile hidden Markov models. Bioinformatics. 14:1998;755-763.
18. Thompson J.D., Higgins D.G., Gipson T.J. CLUSTAL W: improving the sensitivity of progressive multiple sequence alignments through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res. 22:1994;4673-4680.
19. Ackermann H.W. Tailed bacteriophages: the order Caudovirales. Adv. Virus Res. 51:1998;135-201.
20. Meijer W.J.J., Horcajadas J.A., Salas M. φ29 family of phages. Microbiol. Mol. Biol. Rev. 65:2001;261-287.
21. Bayer M.G., Heinrichs J.H., Cheung A.L. The molecular architecture of the sar locus in Staphylococcus aureus. J. Bacteriol. 178:1996;4563-4570.
22. Manna A.C., Bayer M.G., Cheung A.L. Transcriptional analysis of different promoters in the sar locus in Staphylococcus aureus. J. Bacteriol. 180:1998;3828-3836.
23. A-RNA polymerase-dependent promoters. J. Mol. Biol. 286:1999;683-693.
24. Mikkonen M., Raisanen L., Alatossava T. The early gene region completes the nucleotide sequence of Lactobacillus delbrueckii subsp. lactis phage LL-H. Gene. 175:1996;49-57.
25. Matsumoto K., Takano H., Kim C.I., Hirokawa H. Primary structure of bacteriophage M2 DNA polymerase: Conserved segments within protein-priming DNA polymerases and DNA polymerase I of Escherichia coli. Gene. 84:1989;247-255.
26. Paces V., Vlcek C., Urbanek P., Hostomsky Z. Nucleotide sequence of the major early region of Bacillus subtilis phage PZA, a close relative of φ29. Gene. 38:1985;45-56.
27. Yoshikawa H., Ito J. Nucleotide sequence of the major early region of bacteriophage φ29. Gene. 17:1982;323-335.
28. Pecenkova T., Benes V., Paces J., Vlcek C., Paces V. Bacteriophage B103: complete DNA sequence of its genome and relationship to other Bacillus phages. Gene. 199:1997;157-163.
29. Paces V., Vlcek C., Urbanek P. Nucleotide sequence of the late region of Bacillus subtilis phage PZA, a close relative of φ29. Gene. 44:1986;107-114.
30. Garvey K.J., Saedi M.S., Ito J. The complete sequence of Bacillus phage φ29 gene 16: a protein required for the genome encapsidation reaction. Gene. 40:1985;311-316.
31. Guo P., Peterson C., Anderson D. Prohead and DNA-gp3-dependent ATPase activity of the DNA packaging protein gp16 of bacteriophage φ29. J. Mol. Biol. 197:1987;229-236.
32. Martin A.C., Lopez R., Garcia P. Analysis of the complete nucleotide sequence and functional organization of the genome of Streptococcus pneumoniae bacteriophage Cp-1. J. Virol. 70:1996;3678-3687.
33. Garcia J.A., Mendez E., Salas M. Cloning, nucleotide sequence and high level expression of the gene coding for the connector protein of Bacillus subtilis phage φ29. Gene. 30:1984;87-98.
34. Vlcek C., Paces V. Nucleotide sequence of the late region of Bacillus phage φ29 completes the 19285-bp sequence of the φ29 genome: Comparison with the homologous sequence of phage PZA. Gene. 46:1986;215-225.
35. Juhala R.J., Ford M.E., Duda R.L., Youlton A., Hatfull G.F., Hendrix R.W. Genomic sequences of bacteriophages HK97 and HK022: pervasive genetic mosaicism in the lambdoid bacteriophages. J. Mol. Biol. 299:2000;27-51.
36. Loessner M.J., Gaeng S., Wendlinger G., Maier S.K., Scherer S. The two-component lysis system of Staphylococcus aureus bacteriophage Twort: a large TTG-start holin and an associated amidase endolysin. FEMS Microbiol. Lett. 162:1998;265-274.
37. Loessner M.J., Gaeng S., Scherer S. Evidence for a holin-like protein gene fully embedded out of frame in the endolysine gene of Staphylococcus aureus bacteriophage 187. J. Bacteriol. 181:1999;4452-4460.
38. Young R., Bläsi U. Holins: form and function in bacteriophage lysis. FEMS Microbiol. Rev. 8:1995;120-128.