Abstract
The Lactococcus lactis temperate bacteriophage BK5-T is a type phage in the lactococcal phage classification (A. W. Jarvis, G. F. Fitzgerald, M. Mata, A. Mercenier, H. Neve, I. B. Powell, C. Ronda, M. Saxelin, and M. Teuber, Intervirology 32:2-9, 1991). The nucleotide sequence of 18,935 bp of the genome of BK5-T was determined and analyzed for the presence of open reading frames and other structural features. Thirty-two open reading frames longer than 60 codons were identified, and these appeared to be grouped into at least seven transcriptional units. A search of the nucleotide sequence for restriction sites identified a small number of discrepancies with the previously published physical map of the BK5-T genome (G. Lakshmidevi, B. E. Davidson, and A. J. Hillier, Appl. Environ. Microbiol. 54:1039-1045, 1988). Subsequent analysis of restriction digests of BK5-T DNA which were heated prior to electrophoresis indicated that BK5-T DNA was not terminally redundant as previously reported but contained cohesive ends.
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- Alatossava T., Klaenhammer T. R. Molecular Characterization of Three Small Isometric-Headed Bacteriophages Which Vary in Their Sensitivity to the Lactococcal Phage Resistance Plasmid pTR2030. Appl Environ Microbiol. 1991 May;57(5):1346–1353. doi: 10.1128/aem.57.5.1346-1353.1991. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Bardowski J., Ehrlich S. D., Chopin A. Tryptophan biosynthesis genes in Lactococcus lactis subsp. lactis. J Bacteriol. 1992 Oct;174(20):6563–6570. doi: 10.1128/jb.174.20.6563-6570.1992. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Birnboim H. C., Doly J. A rapid alkaline extraction procedure for screening recombinant plasmid DNA. Nucleic Acids Res. 1979 Nov 24;7(6):1513–1523. doi: 10.1093/nar/7.6.1513. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Boyce J. D., Davidson B. E., Hillier A. J. Identification of prophage genes expressed in lysogens of the Lactococcus lactis bacteriophage BK5-T. Appl Environ Microbiol. 1995 Nov;61(11):4099–4104. doi: 10.1128/aem.61.11.4099-4104.1995. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Boyce J. D., Davidson B. E., Hillier A. J. Spontaneous deletion mutants of the Lactococcus lactis temperate bacteriophage BK5-T and localization of the BK5-T attP site. Appl Environ Microbiol. 1995 Nov;61(11):4105–4109. doi: 10.1128/aem.61.11.4105-4109.1995. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Chandry P. S., Davidson B. E., Hillier A. J. Temporal transcription map of the Lactococcus lactis bacteriophage sk1. Microbiology. 1994 Sep;140(Pt 9):2251–2261. doi: 10.1099/13500872-140-9-2251. [DOI] [PubMed] [Google Scholar]
- Chandry P. S., Moore S. C., Davidson B. E., Hillier A. J. Analysis of the cos region of the Lactococcus lactis bacteriophage sk1. Gene. 1994 Jan 28;138(1-2):123–126. doi: 10.1016/0378-1119(94)90793-5. [DOI] [PubMed] [Google Scholar]
- Chang A. C., Cohen S. N. Construction and characterization of amplifiable multicopy DNA cloning vehicles derived from the P15A cryptic miniplasmid. J Bacteriol. 1978 Jun;134(3):1141–1156. doi: 10.1128/jb.134.3.1141-1156.1978. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Chen J. D., Morrison D. A. Construction and properties of a new insertion vector, pJDC9, that is protected by transcriptional terminators and useful for cloning of DNA from Streptococcus pneumoniae. Gene. 1988 Apr 15;64(1):155–164. doi: 10.1016/0378-1119(88)90489-1. [DOI] [PubMed] [Google Scholar]
- Cohen S. N., Chang A. C., Hsu L. Nonchromosomal antibiotic resistance in bacteria: genetic transformation of Escherichia coli by R-factor DNA. Proc Natl Acad Sci U S A. 1972 Aug;69(8):2110–2114. doi: 10.1073/pnas.69.8.2110. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Coveney J. A., Fitzgerald G. F., Daly C. Detailed characterization and comparison of four lactic streptococcal bacteriophages based on morphology, restriction mapping, DNA homology, and structural protein analysis. Appl Environ Microbiol. 1987 Jul;53(7):1439–1447. doi: 10.1128/aem.53.7.1439-1447.1987. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Davidson B. E., Powell I. B., Hillier A. J. Temperate bacteriophages and lysogeny in lactic acid bacteria. FEMS Microbiol Rev. 1990 Sep;7(1-2):79–90. doi: 10.1111/j.1574-6968.1990.tb04880.x. [DOI] [PubMed] [Google Scholar]
- Godon J. J., Chopin M. C., Ehrlich S. D. Branched-chain amino acid biosynthesis genes in Lactococcus lactis subsp. lactis. J Bacteriol. 1992 Oct;174(20):6580–6589. doi: 10.1128/jb.174.20.6580-6589.1992. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Hanahan D. Studies on transformation of Escherichia coli with plasmids. J Mol Biol. 1983 Jun 5;166(4):557–580. doi: 10.1016/s0022-2836(83)80284-8. [DOI] [PubMed] [Google Scholar]
- Huggins A. R., Sandine W. E. Incidence and properties of temperate bacteriophages induced from lactic streptococci. Appl Environ Microbiol. 1977 Jan;33(1):184–191. doi: 10.1128/aem.33.1.184-191.1977. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Ingham C. J., Smith M. C. Transcription map of the early region of the Streptomyces bacteriophage phi C31. Gene. 1992 Dec 1;122(1):77–84. doi: 10.1016/0378-1119(92)90034-m. [DOI] [PubMed] [Google Scholar]
- Jarvis A. W. DNA-DNA Homology Between Lactic Streptococci and Their Temperate and Lytic Phages. Appl Environ Microbiol. 1984 May;47(5):1031–1038. doi: 10.1128/aem.47.5.1031-1038.1984. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Jarvis A. W., Fitzgerald G. F., Mata M., Mercenier A., Neve H., Powell I. B., Ronda C., Saxelin M., Teuber M. Species and type phages of lactococcal bacteriophages. Intervirology. 1991;32(1):2–9. doi: 10.1159/000150179. [DOI] [PubMed] [Google Scholar]
- Lakshmidevi G., Davidson B. E., Hillier A. J. Circular Permutation of the Genome of a Temperate Bacteriophage from Streptococcus cremoris BK5. Appl Environ Microbiol. 1988 Apr;54(4):1039–1045. doi: 10.1128/aem.54.4.1039-1045.1988. [DOI] [PMC free article] [PubMed] [Google Scholar]
- 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. 1990 Apr;56(4):934–942. doi: 10.1128/aem.56.4.934-942.1990. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Lee J. W., Edwards C. W., Hulett F. M. Identification of four unique clones encoding 10 kDa proteins from Bacillus that cause phenotypic complementation of a phoA mutant strain of Escherichia coli. J Gen Microbiol. 1991 Mar;137(3):667–677. doi: 10.1099/00221287-137-3-667. [DOI] [PubMed] [Google Scholar]
- Ludwig W., Seewaldt E., Kilpper-Bälz R., Schleifer K. H., Magrum L., Woese C. R., Fox G. E., Stackebrandt E. The phylogenetic position of Streptococcus and Enterococcus. J Gen Microbiol. 1985 Mar;131(3):543–551. doi: 10.1099/00221287-131-3-543. [DOI] [PubMed] [Google Scholar]
- Marinus M. G., Carraway M., Frey A. Z., Brown L., Arraj J. A. Insertion mutations in the dam gene of Escherichia coli K-12. Mol Gen Genet. 1983;192(1-2):288–289. doi: 10.1007/BF00327681. [DOI] [PubMed] [Google Scholar]
- Moineau S., Pandian S., Klaenhammer T. R. Restriction/Modification systems and restriction endonucleases are more effective on lactococcal bacteriophages that have emerged recently in the dairy industry. Appl Environ Microbiol. 1993 Jan;59(1):197–202. doi: 10.1128/aem.59.1.197-202.1993. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Oda Y., Nakayama R., Kuroda A., Sekiguchi J. Molecular cloning, sequence analysis, and characterization of a new cell wall hydrolase, CwlL, of Bacillus licheniformis. Mol Gen Genet. 1993 Nov;241(3-4):380–388. doi: 10.1007/BF00284691. [DOI] [PubMed] [Google Scholar]
- Pearson W. R., Lipman D. J. Improved tools for biological sequence comparison. Proc Natl Acad Sci U S A. 1988 Apr;85(8):2444–2448. doi: 10.1073/pnas.85.8.2444. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Powell I. B., Davidson B. E. Characterization of streptococcal bacteriophage c6A. J Gen Virol. 1985 Dec;66(Pt 12):2737–2741. doi: 10.1099/0022-1317-66-12-2737. [DOI] [PubMed] [Google Scholar]
- Prevots F., Mata M., Ritzenthaler P. Taxonomic differentiation of 101 lactococcal bacteriophages and characterization of bacteriophages with unusually large genomes. Appl Environ Microbiol. 1990 Jul;56(7):2180–2185. doi: 10.1128/aem.56.7.2180-2185.1990. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Relano P., Mata M., Bonneau M., Ritzenthaler P. Molecular characterization and comparison of 38 virulent and temperate bacteriophages of Streptococcus lactis. J Gen Microbiol. 1987 Nov;133(11):3053–3063. doi: 10.1099/00221287-133-11-3053. [DOI] [PubMed] [Google Scholar]
- Reyrolle J., Chopin M. C., Letellier F., Novel G. Lysogenic strains of lactic Acid streptococci and lytic spectra of their temperate bacteriophages. Appl Environ Microbiol. 1982 Feb;43(2):349–356. doi: 10.1128/aem.43.2.349-356.1982. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Schouler C., Ehrlich S. D., Chopin M. C. Sequence and organization of the lactococcal prolate-headed bIL67 phage genome. Microbiology. 1994 Nov;140(Pt 11):3061–3069. doi: 10.1099/13500872-140-11-3061. [DOI] [PubMed] [Google Scholar]
- Shimizu-Kadota M., Sakurai T. Prophage Curing in Lactobacillus casei by Isolation of a Thermoinducible Mutant. Appl Environ Microbiol. 1982 Jun;43(6):1284–1287. doi: 10.1128/aem.43.6.1284-1287.1982. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Shimizu-Kadota M., Sakurai T., Tsuchida N. Prophage Origin of a Virulent Phage Appearing on Fermentations of Lactobacillus casei S-1. Appl Environ Microbiol. 1983 Feb;45(2):669–674. doi: 10.1128/aem.45.2.669-674.1983. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Staden R. Automation of the computer handling of gel reading data produced by the shotgun method of DNA sequencing. Nucleic Acids Res. 1982 Aug 11;10(15):4731–4751. doi: 10.1093/nar/10.15.4731. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Staden R. Computer methods to locate signals in nucleic acid sequences. Nucleic Acids Res. 1984 Jan 11;12(1 Pt 2):505–519. doi: 10.1093/nar/12.1part2.505. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Staden R. Measurements of the effects that coding for a protein has on a DNA sequence and their use for finding genes. Nucleic Acids Res. 1984 Jan 11;12(1 Pt 2):551–567. doi: 10.1093/nar/12.1part2.551. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Staden R. Searching for patterns in protein and nucleic acid sequences. Methods Enzymol. 1990;183:193–211. doi: 10.1016/0076-6879(90)83014-z. [DOI] [PubMed] [Google Scholar]
- Terzaghi B. E., Sandine W. E. Improved medium for lactic streptococci and their bacteriophages. Appl Microbiol. 1975 Jun;29(6):807–813. doi: 10.1128/am.29.6.807-813.1975. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Turner D. H., Sugimoto N., Jaeger J. A., Longfellow C. E., Freier S. M., Kierzek R. Improved parameters for prediction of RNA structure. Cold Spring Harb Symp Quant Biol. 1987;52:123–133. doi: 10.1101/sqb.1987.052.01.017. [DOI] [PubMed] [Google Scholar]
- Yanisch-Perron C., Vieira J., Messing J. Improved M13 phage cloning vectors and host strains: nucleotide sequences of the M13mp18 and pUC19 vectors. Gene. 1985;33(1):103–119. doi: 10.1016/0378-1119(85)90120-9. [DOI] [PubMed] [Google Scholar]
- d'Aubenton Carafa Y., Brody E., Thermes C. Prediction of rho-independent Escherichia coli transcription terminators. A statistical analysis of their RNA stem-loop structures. J Mol Biol. 1990 Dec 20;216(4):835–858. doi: 10.1016/s0022-2836(99)80005-9. [DOI] [PubMed] [Google Scholar]
- van de Guchte M., Kok J., Venema G. Gene expression in Lactococcus lactis. FEMS Microbiol Rev. 1992 Feb;8(2):73–92. doi: 10.1111/j.1574-6968.1992.tb04958.x. [DOI] [PubMed] [Google Scholar]
