1887

Journal of General Virology header logo

Volume 87, Issue 8

Orchid fleck virus is a rhabdovirus with an unusual bipartite genome Free

Abstract

Orchid fleck virus (OFV) has an unusual bipartite negative-sense RNA genome with clear sequence similarities to those of nucleorhabdoviruses. The OFV genome consists of two single-stranded RNA molecules, RNA1 and RNA2 that are 6413 and 6001 nt long, respectively, with open reading frame (ORF) information in the complementary sense. RNA1 encodes 49 (ORF1), 26 (ORF2), 38 (ORF3), 20 (ORF4) and 61 kDa (ORF5) proteins, and RNA2 encodes a single protein of 212 kDa (ORF6). ORF1, ORF5 and ORF6 proteins had significant similarities (21–38 % identity) to the nucleocapsid protein (N), glycoprotein (G) and polymerase (L) gene products, respectively, of other rhabdoviruses, especially nucleorhabdoviruses, whereas ORF2, ORF3 and ORF4 proteins had no significant similarities to other proteins in the international databases. Similarities between OFV and rhabdoviruses were also found in the sequence complementarity at both termini of each RNA segment (the common terminal sequences are 3′-UGUGUC---GACACA-5′), the conserved intergenic sequences and in being negative sense. It was proposed that a new genus in the family of the order should be established with OFV as its prototype member and type species.

  • Received:
  • Accepted:
  • Published Online:
SGM
Loading

Article metrics loading...

/content/journal/jgv/10.1099/vir.0.81811-0
2006-08-01
2024-04-19
Loading full text...

Full text loading...

/deliver/fulltext/jgv/87/8/2413.html?itemId=/content/journal/jgv/10.1099/vir.0.81811-0&mimeType=html&fmt=ahah

References

  1. Barik S., Banerjee A. K. 1992; Phosphorylation by cellular casein kinase II is essential for transcriptional activity of vesicular stomatitis virus phosphoprotein P. Proc Natl Acad Sci U S A 89:6570–6574 [CrossRef]
     [Google Scholar]
  2. Begtrup J. 1972; Structure of a bacilliform virus in Dendrobium as revealed by negative staining. Phytopathol Z 75:268–273 [CrossRef]
     [Google Scholar]
  3. Blanchfield A. L., Mackenzie A. M., Gibbs A., Kondo H., Tamada T., Wilson C. R. 2001; Identification of Orchid fleck virus by reverse transcriptase-polymerase chain reaction and analysis of isolate relationships. J Phytopathol 149:713–718 [CrossRef]
     [Google Scholar]
  4. Calisher C. H., Carstens E. B., Christian P., Mahy B. W. J., Mayo M. A., Shope R. E. 2000; Unassigned viruses. In Virus Taxonomy, Seventh Report of the International Committee on Taxonomy of Viruses pp  995–1008 Edited by van Regenmortel M. H. V., Fauquet C. M., Bishop D. H. L., Carstens E. B., Estes M. K., Lemon S. M., Maniloff J., Mayo M. A., McGeoch D. J., Pringle C. R., Wickner R. B. San Diego: Academic Press;
     [Google Scholar]
  5. Chagas C. M., Kitajima E. W., Rodrigues J. C. V. 2003; Coffee ringspot virus vectored by Brevipalpus phoenicis (Acari: Tenuipalpidae) in coffee. Exp Appl Acarol 30:203–213 [CrossRef]
     [Google Scholar]
  6. Chang M. U., Arai K., Doi Y., Yora K. 1976; Morphology and intracellular appearance of orchid fleck virus. Ann Phytopathol Soc Jpn 42:156–167 [CrossRef]
     [Google Scholar]
  7. Choi T. J., Wagner J. D., Jackson A. O. 1994; Sequence analysis of the trailer region of sonchus yellow net virus genomic RNA. Virology 202:33–40 [CrossRef]
     [Google Scholar]
  8. Dietzgen R. G., Callaghan B., Wetzel T., Dale J. L. 2006; Completion of the genome sequence of Lettuce necrotic yellows virus , type species of the genus Cytorhabdovirus . Virus Res 118:16–22 [CrossRef]
     [Google Scholar]
  9. Doi Y., Chang M. U., Yora K. 1977; Orchid fleck virus. CMI/AAB Descriptions of Plant Viruses, no. 183
     [Google Scholar]
  10. Gibbs A., Mackenzie A., Blanchfield A., Cross P., Wilson C., Kitajima E. W., Nightingale M., Clements M. 2000; Viruses of orchids in Australia; their identification, biology and control. Aust Orchid Rev 65:10–21
     [Google Scholar]
  11. Heaton L. A., Hillman B. I., Hunter B. G., Zuidema D., Jackson A. O. 1989; Physical map of the genome of sonchus yellow net virus, a plant rhabdovirus with six genes and conserved gene junction sequences. Proc Natl Acad Sci U S A 86:8665–8668 [CrossRef]
     [Google Scholar]
  12. Huang Y., Zhao H., Luo Z., Chen X., Fang R. X. 2003; Novel structure of the genome of Rice yellow stunt virus : identification of the gene 6-encoded virion protein. J Gen Virol 84:2259–2264 [CrossRef]
     [Google Scholar]
  13. Huang Y. W., Geng Y. F., Ying X. B., Chen X. Y., Fang R. X. 2005; Identification of a movement protein of rice yellow stunt rhabdovirus. J Virol 79:2108–2114 [CrossRef]
     [Google Scholar]
  14. Jackson A. O., Dietzgen R. G., Goodin M. M., Bragg J. N., Deng M. 2005; Biology of plant rhabdoviruses. Annu Rev Phytopathol 43:623–660 [CrossRef]
     [Google Scholar]
  15. Jayakar H. R., Jeetendra E., Whitt M. A. 2004; Rhabdovirus assembly and budding. Virus Res 106:117–132 [CrossRef]
     [Google Scholar]
  16. Kitajima E. W., Blumenschein A., Costa A. S. 1974; Rodlike particles associated with ringspot symptoms in several orchid species in Brazil. Phytopathol Z 81:280–286 [CrossRef]
     [Google Scholar]
  17. Kitajima E. W., Kondo H., Mackenzie A., Rezende J. A. M., Gioria R., Gibbs A., Tamada T. 2001; Comparative cytopathology and immunocytochemistry of Japanese, Australian and Brazilian isolates of orchid fleck virus. J Gen Plant Pathol 67:231–237 [CrossRef]
     [Google Scholar]
  18. Kitajima E. W., Chagas C. M., Rodrigues J. C. V. 2003; Brevipalpus -transmitted plant virus and virus-like diseases: cytopathology and some recent cases. Exp Appl Acarol 30:135–160 [CrossRef]
     [Google Scholar]
  19. Kondo H., Matsumoto J., Maeda T., Inouye N. 1995; Host range and some properties of orchid fleck virus isolated from oriental Cymbidium in Japan. Bull Res Inst Bioresour Okayama Univ 3:151–161 (in Japanese with English abstract
    [Google Scholar]
  20. Kondo H., Maeda T., Tamada T. 2003; Orchid fleck virus: Brevipalpus californicus mite transmission, biological properties and genome structure. Exp Appl Acarol 30:215–223 [CrossRef]
     [Google Scholar]
  21. Lesemann D., Doraiswamy S. 1975; Bullet-shaped virus-like particles in chlorotic and necrotic leaf lesions of orchids. Phytopathol Z 83:27–39 [CrossRef]
     [Google Scholar]
  22. Luo Z. L., Fang R. X. 1998; Structure analysis of the rice yellow stunt rhabdovirus glycoprotein gene and its mRNA. Arch Virol 143:2453–2459 [CrossRef]
     [Google Scholar]
  23. Miranda G. J., Azzam O., Shirako Y. 2000; Comparison of nucleotide sequences between northern and southern Philippine isolates of rice grassy stunt virus indicates occurrence of natural genetic reassortment. Virology 266:26–32 [CrossRef]
     [Google Scholar]
  24. Page R. D. M. 1996; treeview: an application to display phylogenetic trees on personal computers. Comput Appl Biosci 12:357–358
     [Google Scholar]
  25. Poch O., Sauvaget L., Delarue M., Tordo N. 1989; Identification of four conserved motifs among the RNA-dependent polymerase encoding elements. EMBO J 8:3867–3874
     [Google Scholar]
  26. Poch O., Blumberg B. M., Bougueleret L., Tordo N. 1990; Sequence comparison of five polymerases (L proteins) of unsegmented negative-stranded RNA viruses: theoretical assignment of functional domain. J Gen Virol 71:1153–1162 [CrossRef]
     [Google Scholar]
  27. Redinbaugh M. G., Hogenhout S. A. 2005; Plant rhabdoviruses. Curr Top Microbiol Immunol 292:143–163
     [Google Scholar]
  28. Reed S. E., Tsai C. W., Willie K. J., Redinbaugh M. G., Hogenhout S. A. 2005; Shotgun sequencing of the negative-sense RNA genome of the rhabdovirus Maize mosaic virus . J Virol Methods 129:91–96 [CrossRef]
     [Google Scholar]
  29. Revill P., Trinh X., Dale J., Harding R. 2005; Taro vein chlorosis virus: characterization and variability of a new nucleorhabdovirus. J Gen Virol 86:491–499 [CrossRef]
     [Google Scholar]
  30. Rodrigues J. C. V., Kitajima E. W., Childers C. C., Chagas C. M. 2003; Citrus leprosis virus vectored by Brevipalpus phoenicis (Acari: Tenuipalpidae) on citrus in Brazil. Exp Appl Acarol 30:161–179 [CrossRef]
     [Google Scholar]
  31. Sasaya T., Ishikawa K., Koganezawa H. 2001; Nucleotide sequence of the coat protein gene of Lettuce big-vein virus . J Gen Virol 82:1509–1515
     [Google Scholar]
  32. Sasaya T., Ishikawa K., Koganezawa H. 2002; The nucleotide sequence of RNA1 of Lettuce big-vein virus , genus Varicosavirus , reveals its relation to nonsegmented negative-strand RNA viruses. Virology 297:289–297 [CrossRef]
     [Google Scholar]
  33. Sasaya T., Kusaba S., Ishikawa K., Koganezawa H. 2004; Nucleotide sequence of RNA2 of Lettuce big-vein virus and evidence for a possible transcription termination/initiation strategy similar to that of rhabdoviruses. J Gen Virol 85:2709–2717 [CrossRef]
     [Google Scholar]
  34. Schnell M. J., Conzelmann K. K. 1995; Polymerase activity of in vitro mutated rabies virus L protein. Virology 214:522–530 [CrossRef]
     [Google Scholar]
  35. Schnell M. J., Buonocore L., Kretzschmar E., Johnson E., Rose J. K. 1996; Foreign glycoproteins expressed from recombinant vesicular stomatitis viruses are incorporated efficiently into virus particles. Proc Natl Acad Sci U S A 93:11359–11365 [CrossRef]
     [Google Scholar]
  36. Tanno F., Nakatsu A., Toriyama S., Kojima M. 2000; Complete nucleotide sequence of Northern cereal mosaic virus and its genome organization. Arch Virol 145:1373–1384 [CrossRef]
     [Google Scholar]
  37. Thompson J. D., Higgins D. G., Gibson T. J. 1994; clustal w: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res 22:4673–4680 [CrossRef]
     [Google Scholar]
  38. Tsai C. W., Redinbaugh M. G., Willie K. J., Reed S., Goodin M., Hogenhout S. A. 2005; Complete genome sequence and in planta subcellular localization of maize fine streak virus proteins. J Virol 79:5304–5314 [CrossRef]
     [Google Scholar]
  39. Walker P. J., Kongsuwan K. 1999; Deduced structural model for animal rhabdovirus glycoproteins. J Gen Virol 80:1211–1220
     [Google Scholar]
  40. Wetzel T., Dietzgen R. G., Dale J. L. 1994; Genomic organization of lettuce necrotic yellows rhabdovirus. Virology 200:401–412 [CrossRef]
     [Google Scholar]
  41. Wunner W. H., Calisher C. H., Dietzgen R. G. & 8 other authors 1995; Family Rhabdoviridae . In Virus Taxonomy, Sixth Report of the International Committee on Taxonomy of Viruses pp  275–288 Edited by Murphy F. A., Fauquet C. M., Bishop D. H. L., Ghabrial S. A., Jarvis A. W., Martelli G. P., Mayo M. A., Summers M. D. Vienna: Springer;
     [Google Scholar]
  42. Ziemiecki A., Peters D. 1976; The proteins of sowthistle yellow vein virus: characterization and location. J Gen Virol 32:369–381 [CrossRef]
     [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/jgv/10.1099/vir.0.81811-0
Loading
Orchid fleck virus is a rhabdovirus with an unusual bipartite genome
J. Gen. Virol. 87, 2413 (2006); https://doi.org/10.1099/vir.0.81811-0
/content/journal/jgv/10.1099/vir.0.81811-0
/content/journal/jgv/10.1099/vir.0.81811-0
Loading

Data & Media loading...

Supplements

Supplementary material 1

PDF

Most cited Most Cited RSS feed

This is a required field
Please enter a valid email address
Approval was a Success
Invalid data
An Error Occurred
Approval was partially successful, following selected items could not be processed due to error