Biochemical Quantitation of PM2 Phage DNA as a Substrate for Endonuclease Assay

  • Joo, Yoo-Jin (Laboratory of Biochemistry, School of Life Sciences & Biotechnology, and BioInstitute, Korea University) ;
  • Kim, Hee-Ju (Laboratory of Biochemistry, School of Life Sciences & Biotechnology, and BioInstitute, Korea University) ;
  • Lee, Jae-Yung (Department of Biology, Mokpo National University) ;
  • Kim, Joon (Laboratory of Biochemistry, School of Life Sciences & Biotechnology, and BioInstitute, Korea University)
  • Published : 2004.06.01

Abstract

Bacteriophage PM2 has a closed circular form of double stranded DNA as a genome. This DNA from the phage is a useful source for nick-circle endonuclease assay in the fmol range. Due to difficulties in the maintenance of viral infectivity, storage conditions of the phage should be considered for the puri-fication of PM2 DNA. The proper condition for a short-term storage of less than 2 months is to keep the PM2 phage at 4$^{\circ}C$; whereas the proper condition for a long-term storage of the PM2 phage for over 2 months is to keep it under liquid nitrogen in 7.5 % glycerol. The optimal conditions for a high yield of phage progeny were also considered with the goal to achieve a successful PM2 DNA preparation. A MOI(Multiplicity Of Infection) of 0.03, in which the OD$\sub$600/ of the host bacteria was between 0.3 and 0.5, turned out to be optimal for the mass production of PM2 phage with a burst size of about 214. Considerations of PM2 genome size, and the concentrations and radiospecific activities of purified PM2 DNA, are required to measure the endonuclease activity in the fmol range. This study reports the proper quantitation of radioactivity and the yield of purified DNA based on these conditions.

Keywords

References

  1. J. Virol. v.30 In vivo assembly of a biological membrane of defined size, shape. and lipid, composition Brewer, G.J.
  2. Int. J. Syst. Bacteriol. v.28 no.2 Two new species of Alteromonas: Alteromonas espejiana and Alteromonas undina Chan, K.Y.;L. Baumann;M.M Garaz;P. Baumann https://doi.org/10.1099/00207713-28-2-217
  3. J. Bacteriol. v.95 Properties and characterization of the host bacterium of bacteriophage PM2 Espejo, R.T.;E.S. Canelo
  4. Int. J. Syst. Bacteriol. v.45 Phylogenetic analysis of the genera Alteomonas, Shewanella, and Moritella using genes coding for small-subunit tRNA sequences and division of the genus Alteromonos into two genera, Alteromonas(emended) and Pseudomonas gen, nov. and proposal of twelve new species combinations Gauthier, G.;M. Gauthier;R. Christen https://doi.org/10.1099/00207713-45-4-755
  5. Carcinogenesis v.17 Biological consequences of DNA damage introduced in bacteriophage PM2 DNA by hydrogen peroxide-mediated free radical reactions Gille, J.J.P.;N.M. Wientjes;M.V.M Lafleur;H. Joerje;J. Retel https://doi.org/10.1093/carcin/17.1.5
  6. Eur. J. BioChem. v.68 Structure and synthesis of a lipid-containing bacteriophage. Purification, chemical composition, and partial sequences of the structural proteins Hinnen, R.;R. Chassin;R. Schafer;R.M Franklin;H. Hitz;D. Schafer https://doi.org/10.1111/j.1432-1033.1976.tb10772.x
  7. Antonie Van Leeuwenhoek v.83 no.3 New preparation of PM2 phage DNA and an endonuclease assay for a singlestrand break Jung, S.O.;C.K. Auh;J.C Ryu;J. Kim https://doi.org/10.1023/A:1023357432335
  8. J. Biol. Chem. v.264 Purification and characterization of UV endonucleases Ⅰand Ⅱ from murine plasmacytoma cells Kim, J;S. Linn
  9. J. Biol. Chem. v.270 Implication of mammalian ribosomal protein S3 in the processing of DNA damage Kim, J;L.S. Chubatsu;A. Admon;J. Stahl;R. Fellous;S. Linn https://doi.org/10.1074/jbc.270.23.13620
  10. Proc. Natl. Acad. Sci. USA v.76 Enzymatic insertion of purine bases into depurinated DNA in vitro Livneh Z.;D. Elad;J. Sperling https://doi.org/10.1073/pnas.76.3.1089
  11. Natl. Acad. Sci. USA v.76 Endonucleolytic activity directed toward 8-(2-hydroxy-2-propyl) purines in doublestranded DNA Livneh Z.;D. Elad;J. Sperling; https://doi.org/10.1073/pnas.76.11.5500
  12. Virology v.262 The complete genome sequence of PM2, the first lipid-containing bacterial virus to be isolated Mannisto, R.H.;H.M. Kivela;L. Paulin;D.H. Bamford;J.K.H. Bamford https://doi.org/10.1006/viro.1999.9837