Journal of Microbiology and Biotechnology

The Korean Society for Microbiology and Biotechnology (한국미생물·생명공학회)
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RT-PCR-Based Detection of Six Garlic Viruses and Their Phylogenetic Relationships

  • PARK KWANG-SOOK (Department of Microbiology and Institute for Viral Diseases, Division of Brain Korea 21 Project for Biomedical Science, College of Medicine, Korea University) ;
  • BAE YOUNG-JOO (Laboratory of Genetics, Department of Life Science, College of Natural Science, Ewha Womans University) ;
  • JUNG EUN-JEONG (Laboratory of Genetics, Department of Life Science, College of Natural Science, Ewha Womans University) ;
  • KANG SOON-JA (Department of Science Education, College of Education, Ewha Womans University)
  • Published : 2005.10.01
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Abstract

Six viruses of the genera Carlavirus (Garlic mosaic virus, GarMV, and Garlic latent virus, GarLV), Allexivirus (Garlic virus X, GarV-X, and Garlic mite-borne filamentous virus, GarMbFV) and Potyvirus (Leek yellow stripe virus, LYSV, and Onion yellow dwarf virus, OYDV) from Korean garlic plants with mosaic symptoms were simultaneously detected by multiplex RT-PCR and subsequently sequenced. An immunocapture RT-PCR for the detection of GarLV, LYSV, and OYDV was also performed. The coat protein phylogenetic analysis of the garlic viruses showed that the Korean isolates were most closely related to the isolates from China, Japan, Brazil, and Argentina. This study is the first report for the differentiation of six garlic viruses in Korea by simultaneous detection using multiplex RT-PCR.

Keywords

References

  1. Bertolini, E., A. Olmos, M. C. Martinez, M. T Gorris, and M. Cambra. 2001. Single-step multiplex RT-PCR for simultaneous and colourimetric detection of six RNA viruses in olive trees. J. Virol. Methods 96: 33-41 https://doi.org/10.1016/S0166-0934(01)00313-5
  2. Chen, J., J. Chen, and M. J. Adams. 2001. Molecular characterization of a complex mixture of viruses in garlic with mosaic symptoms in China. Arch. Virol. 146: 1841-1853 https://doi.org/10.1007/s007050170037
  3. Chen, J., J. Chen, and M. J. Adams. 2001. A universal PCR primer to detect members of the Potyviridae and its use to examine the taxonomic status of several members of the family. Arch. Virol. 146: 757-766 https://doi.org/10.1007/s007050170144
  4. Chen, J., J. Chen, and M. J. Adams. 2002. Characterization of some Carla- and potyviruses from bulb crops in China. Brief report. Arch. Virol. 147: 419-428 https://doi.org/10.1007/s705-002-8330-y
  5. Chen, J., H. Y. Zheng, J. F. Antoniw, M. J. Adams, J. P. Chen, and L. Lin. 2004. Detection and classification of allexiviruses from garlic in China. Arch. Virol. 149: 435-445 https://doi.org/10.1007/s00705-003-0234-2
  6. Ito, T, H. leki, and K. Ozaki. 2002. Simultaneous detection of six citrus viroids and Apple stem grooving virus from citrus plants by multiplex reverse transcription polymerase chain reaction. J. Virol. Methods 106: 235-239 https://doi.org/10.1016/S0166-0934(02)00147-7
  7. Jacobi, V., G. D. Bachand, R. C. Hamelin, and J. D. Castello. 1998. Development of a multiplex immunocapture RT-PCR assay for detection and differentiation of tomato and tobacco mosaic tobamoviruses. J. Virol. Methods 74: 167-178 https://doi.org/10.1016/S0166-0934(98)00086-X
  8. Kim, H. S. and T. J. Crow. 2002. Identification and phylogeny of the human endogenous retrovirus HERV-WLTR family in human brain cDNA library and Xq21.3 region. J. Microbiol. Biotechnol. 12: 508-513
  9. Kwak, B. Y., B. J. Kwon, C. H. Kweon, and D. H. Shon. 2003. Detection of Fusarium species by enzyme-linked immunosorbent assay using monoclonal antibody. J. Microbiol. Biotechnol. 13: 794-799
  10. Le Gall-Recule, G., F. Zwingelstein, Y. Portejoie, and G. Le Gall. 2001. Immunocapture-RT-PCR assay for detection and molecular epidemiology studies of rabbit haemorrhagic disease and European brown hare syndrome viruses. J. Virol. Methods 97: 49-57 https://doi.org/10.1016/S0166-0934(01)00336-6
  11. Lee, J. H., S. W Nam, and Y. T. Kim. 2003. Isolation of cDNA for gonadotropin of Flounder (Paralichthys olivaceus) and its expressions in adult tissues. J. Microbiol. Biotechnol. 13: 710-716
  12. Lee, S. P. and Y. S. Lee. 2002. Development of rapid molecular detection marker for Colletotrichum spp. in leaf and fruit tissues of sweet persimmon. J. Microbiol. Biotechnol. 12: 989-992
  13. Mekuria, G., S. A. Ramesh, E. Alberts, T. Bertozzi, M. Wirthensohn, G. Collins, and M. Sedgley. 2003. Comparison of ELISA and RT-PCR for the detection of Prunus necrotic ring spot virus and prune dwarf virus in almond (Prunus dulcis). J. Virol. Methods 114: 65-69 https://doi.org/10.1016/j.jviromet.2003.08.014
  14. Menzel, W., W. Jelkmann, and E. Maiss. 2002. Detecion of four apple viruses by multiplex RT-PCR assays with coamplification of plant mRNA as internal control. J. Virol. Methods 99: 81-92 https://doi.org/10.1016/S0166-0934(01)00381-0
  15. Meunier, A., J. Schmit, A. Stas, N. Kutluk, and C. Bragard. 2003. Multiplex reverse transcription-PCR for simultaneous detection of Beet Necrotic Yellow Vein Virus, Beet Soilborne Virus and Beet Virus Q and their vector Polymyxa betae KESKIN on sugar beet. Appl. Environ. Microbiol. 69: 2356-2360 https://doi.org/10.1128/AEM.69.4.2356-2360.2003
  16. Nie, X. and R. P. Singh. 2000. Detection of multiple potato viruses using an oligo (dT) as a common cDNA primer in multiplex RT-PCR. J. Virol. Methods 86: 179-185 https://doi.org/10.1016/S0166-0934(00)00140-3
  17. Nie, X. and R. Singh. 2003. Specific differentiation of recombinant $PVY^{N:O}$ and $PVY^{NTN}$ isolates by multiplex RT-PCR. J. Virol. Methods 113: 69-77 https://doi.org/10.1016/S0166-0934(03)00221-0
  18. Park, K. S., J. J. Lee, D. S. Suh, S. H. Yeau, and S. J. Kang. 2002. Analysis of genetic variation and co-transcription of mitochondrial DNA in garlic (Allium sativum L.). Korean J. Genet. 24: 41-49
  19. Sefc, K. M., W. Leonhardt, and H. Steinkellner. 2000. Partial sequence identification of grapevine-Ieafroll-associated virus-1 and development of a highly sensitive IC-RT-PCR detection method. J. Virol. Methods 86: 101-106 https://doi.org/10.1016/S0166-0934(00)00135-X
  20. Song, S. I., J. T. Song, C. H. Kim, J. S. Lee, and Y. D. Choi. 1998. Molecular characterization of the garlic virus X genome. J. Gen. Virol. 79: 155-159 https://doi.org/10.1099/0022-1317-79-1-155
  21. Swafford, D. L. 1998. PAUP* Phylogenetic Analysis Under Parsimony (* and Other Methods). Version 4.0 Sinauer Associates Sunderland, MA, U.S.A
  22. Thompson, J. D., D. G. Higgins, and T. J. Gibson. 1994. CLUSTAL W: Improving the sensitivity of progressive multIple sequ.ence alignment through sequencing weighting, position-specIfic gap penalties and weight matrix choice. Nucleic Acids Res. 22: 4673-4680 https://doi.org/10.1093/nar/22.22.4673
  23. Thompson, J. R., S. Wetzel, M. M. Klerks, D. Vaskova, C. D. Schoen, J. Spak, and W Jelkmann. 2003. Multiplex RT-PCR detection of four aphid-borne strawberry viruses in Fragaria spp. in combination with a plant mRNA specific internal control. J. Virol. Methods 111: 85-93 https://doi.org/10.1016/S0166-0934(03)00164-2
  24. Tsuneyoshi, T., T. Matsumi, K. T. Natsuaki, and S. Sumi. 1998. Nucleotide sequence analysis of virus isolates indicates the presence of three potyviruse species in Allium plants. Arch. Virol. 143: 97-113 https://doi.org/10.1007/s007050050271
  25. Tsuneyoshi, T., T. Matsumi, T. C. Deng, I. Sako, and S. Sumi. 1998. Differentiation of Allium carlaviruses isolated from different parts of the world based on the viral coat protein sequence. Arch. Virol. 143: 1093-1107 https://doi.org/10.1007/s007050050358
  26. Wetzel, T., R. Jardak, L. Meunier, A. Ghorbel, G. M. Reustle, and G. Krczal. 2002. Simultaneous RT-PCR detection and differentiation of arabis mosaic and grapevine fanleaf nepoviruses in grapevines with a single pair of primers. J. Virol. Methods 101: 63-69 https://doi.org/10.1016/S0166-0934(01)00422-0