Specific identification of Orthopoxviruses in oligonucleotides micro-chips


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Abstract

A method for describing the Orthopoxviruses that are pathogenic both to man and animals is described in the article. The method is based on hybridization of a fluorescently labelled amplified DNA sample with oligonucleotides, which were immobilized in a microchip. Species-specific regions within the crmB gene encoding a viral analogue of the tumor necrosis factor receptor, i.e. an important gene determining the pathogenicity of the mentioned Orthopoxviruses type, were used as a target for identification. The identification procedure takes around 6 hours and does not demand any costly equipment (a portable fluorescent microscope can be used).

References

  1. Маренникова С. С., Щелкунов С. Н. Патогенные для человека ортопоквирусы. - М., 1998.
  2. Bavykin S. G., Akowski J. P., Zakhariev V. M. et al. Portable system for microbial sample preparation and oligonucleotide microarray analysis // Appl. Environ. Microbiol. - 2001. - Vol. 67. - P. 922-928.
  3. Cunnion К. М. Tumor necrosis factor receptors encoded by poxviruses // Mol. Genet. Metab. - 1999. - Vol. 67. - P. 278- 282.
  4. Drobyshev A., Mologina N., Shick V. et al. Sequence analysis by hybridization with oligonucleotide microchip: identification of beta-thalassemia mutations // Gene. - 1997. - Vol. 188. - P. 45-52.
  5. Esposito J., Condit R., Obijeski J. The preparation of orthopoxvirus DNA // J. Virol. Meth. - 1981.-Vol. 2. - P. 175-179.
  6. Fenner F. The biological characters of several strain of vaccinia, cowpox, and rabbitpox viruses // Virology. - 1958. - Vol. 5. - P. 502-509.
  7. Fotin A., Drobyshev A., Proudnikov D. et al. Parallel thermodynamic anallysis of duplexes on oligodeoxy ribonucleotide microchips // Nucl. Acids Res. - 1998. -Vol. 6. - P. 1515-1521.
  8. Ibrahim M. S., Esposito J. J., Juhrling P. В., Lofts R. S. The potential of 5'-nuclease PCR for detecting a single-base polymorphism in orthopoxvirus // Mol. Cell. Probes. - 1997. - Vol. 11. - P. 143-147.
  9. Loparev V. N., Massung R. F., Esposito J. J., Meyer H. Detection and differentiation of old world orthopoxviruses: restriction fragment lengh polymorphism of the crmB gene region // J. Clin. Microbiol. - 2001. - Vol. 39. - P. 94-100.
  10. Marennikova S. S., Nagieva F. G., Matsevich G. R. et al. Monoclonal antibodies to monkeypox virus: preparation and application // Acta Virol. - 1988. - Vo. 32. - P. 19-26.
  11. Meyer H., Pfeffer M., Rziha H. J. Sequence alterations within and downstream of the A-type inclusion protein genes allow differentiation of orthopoxvirus species by polymerase chain reaction // J. Gen. Virol. - 1994. - Vol. 75. - P. 1975-1981.
  12. Mikhalovich V., Lapa S., Gryadunov D. et al. Identification of Mycobacterium tuberculosis strains resistant to rifampin by hybridization, PCR, and ligase detection reaction on oligonucleotide microchips // J. Clin. Microbiol. - 2001. - Vol. 39. - P. 2531-2540.
  13. Mukinda V. В., Mweta G., Kilundu M. et al. Re-emergence of human monkeypox in Zaire in 1996. Monkeypox Epidemiologic Working Group // Lancet. - 1997. - Vol. 349. - P. 1449-1450.
  14. Praudnikov D., Timofeev E., Mirzabekov A. D. Immobilization of DN in polyacrylamide gel for the manufacture of DNA and DNA-oligonucleotide microchips // Anal. Biochem. - 1998. -Vol.259.- P. 34-41.
  15. Resenchuk S. M., Blinov V. M. Alignment Service: creation and processing of alignment sequences of unlimited length // Cornput. Appl. Biosci. - 1995. - Vol. 11. - P. 7-11.
  16. Shchelkunov S. N., Resenchuk S. M., Totmenin A. V. etal. Comparison of the genetic maps of variola and vaccinia viruses // FEBS Lett. - 1993. - Vol. 327. - P. 321-324.
  17. Shchelkunov S. N., Safronov P. F., Totmenin A. V. et al. The genomic sequence analysis of the left and right species-specific terminal region of a cowpox vims strain reveals unique sequences and a cluster of intact ORFs for immunomodulatory and host range proteins // Virology. - 1998. - Vol. 243. - P. 432-460.
  18. Shchelkunov S. N., Totmenin A. V., Loparev V. N. et al. Alasrtim smallpox variola minor virus genome DNA sequences // Ibid. - 2000. - Vol. 266. - P. 361-386.
  19. Shchelkunov S. N., Totmenin A. V., Babkin I. V. et al. Human monkepox and smallpox viruses: genomic comparison // FEBS Lett. - 2001. - Vol. 509. - P. 66-70.

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Copyright (c) 2003 Mikheev M.V., Lapa S.A., Shchelkunov S.N., Chikova A.K., Mikhailovich V.M., Sobolev A.Y., Babkin I.V., Gryadunov D.A., Bulavkina M.A., Guskov A.A., Sokunova E.В., Kochneva G.V., Blinov V.M., Sandakhchiev L.S., Zasedatelev A.S., Mirzabekov A.D.

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