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Analyses of the complete sequence of the genome of wheat Eqlid mosaic virus, a novel species in the genus Tritimovirus

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Abstract

The complete nucleotide sequence of the genome of wheat Eqlid mosaic virus (WEqMV) (excluding the poly A tail) comprised 9636 nucleotides including 5′ and 3′ noncoding regions of 137 and 172 nt, respectively. It contained a single ORF coding for a polyprotein of 3,109 amino acid residues and had a deduced genome organization typical of members of the family Potyviridae and with proteinase cleavage sites very similar to those of the members of the genus Tritimovirus. Pairwise and multiple alignments and phylogenetic analysis showed that WEqMV is a distinct species in the genus Tritimovirus. WEqMV and Wheat streak mosaic virus (WSMV) shared the greatest nucleotide sequence identity in the NIb and HC-Pro cistrons (63.2% and 60.8%, respectively) and the lowest sequence identity in the P1 and CP cistrons (51.2% and 51.1%, respectively). Sequence identity for the complete genome of WEqMV and WSMV was 56.8% at the nucleotide level and 50.7% at the amino acid level. WEqMV had 57.2% nucleotide identity and 50.6% amino acid identity with Oat necrotic mottle virus and 52.5% nucleotide identity and 45.5% amino acid identity with Brome streak mosaic virus. The relationship of WEqMV with other members of the family Potyviridae was more distant. Structural analysis of WEqMV protein showed presence of potential transmembrane helices in 6k1, 6k2, and P3 proteins.

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References

  1. F. Rabenstein, J. Schubert, Genus Rymovirus. in Virus and Virus Diseases of Poaceae, (INRA Publication, Paris, 2004), pp. 395–401

  2. S.N. Salm, M.E.C. Rey, E.P. Rybicki, Arch. Virol. 141, 2237–2242 (1996). doi:https://doi.org/10.1007/BF01718229

    Article  CAS  Google Scholar 

  3. D.C. Stenger, J.S. Hall, L.R. Choi, R. French, Phytopathology 88, 782–787 (1998). doi:https://doi.org/10.1094/PHYTO.1998.88.8.782

    Article  CAS  Google Scholar 

  4. D.C. Stenger, R. French, Arch. Virol. 149, 633–640 (2004). doi:https://doi.org/10.1007/s00705-003-0237-z

    Article  CAS  Google Scholar 

  5. K. Izadpanah, R. Kamran, in Proc. 12th Iran Plant Protec. Cong., 1995, p. 29

  6. M. Masumi, M. Rastegar, A. Zare, D.-E. Lesemann, F. Ebrahim-Nesbat, K. Izadpanah, Parasitica 61(1), 101–104 (2005)

    Google Scholar 

  7. M. Masumi, K. Izadpanah, Iran. J. Plant Pathol. 38, 35–37 (2002)

    Google Scholar 

  8. P. Froussard, Nucleic Acids Res. 20, 2900 (1992). doi:https://doi.org/10.1093/nar/20.11.2900

    Article  CAS  Google Scholar 

  9. R. Kalender, Fast PCR: A program for fast design of PCR primer, DNA and protein manipulation (Version 2.5.59). Institute of Biotechnology, University of Helsinki (2003)

  10. J.D. Thompson, T.J. Gibson, F. Plewniak, F. Jeanmougin, D.G. Higgins, Nucleic Acids Res. 24, 4876–4882 (1997). doi:https://doi.org/10.1093/nar/25.24.4876

    Article  Google Scholar 

  11. N. Saitou, M. Nei. Mol. Biol. Evol. 4, 406–425 (1987)

    CAS  Google Scholar 

  12. J. Felsenstein, G.A. Churchill, Mol. Biol. Evol. 13, 93–104 (1996)

    Article  CAS  Google Scholar 

  13. R.D.M. Page, Comput. Appl. Biosci. 12, 357–358 (1996)

    CAS  Google Scholar 

  14. B. Roast, R. Casadio, P. Fariselli, C. Sander, Protein Sci. 4, 521–533 (1995)

    Article  Google Scholar 

  15. E.L. Sonnhammer, G. von Heijne, A. Krogh, Sixth international conference on intelligent systems for molecular biology (ISMB 98), 1998, pp. 175–182

  16. A. Lupas, Methods Enzymol. 266, 513–525 (1996)

    Article  CAS  Google Scholar 

  17. M.J. Adams, J.F. Antoniw, Arch. Virol. 149, 113–135 (2004)

    CAS  PubMed  Google Scholar 

  18. M.J. Adams, J.F. Antoniw, F. Beaudoin, Mol. Plant Pathol. 6, 471–487 (2005). doi:https://doi.org/10.1111/j.1364-3703.2005.00296.x

    Article  CAS  Google Scholar 

  19. J. Badge, D.J. Robinson, A.A. Brunt, G.D. Foster, J. Gen. Virol. 78, 253–257 (1997)

    Article  CAS  Google Scholar 

  20. M. Masumi, K. Izadpanah, D.-E. Lesemann, in Proc. 14th Iran Plant Protec. Cong., vol. II, 2000a, p. 20

  21. A. Lupas, Curr. Opin. Struct. Biol. 7, 388–393 (1997). doi:https://doi.org/10.1016/S0959-440X(97)80056-5

    Article  CAS  Google Scholar 

  22. W.Y. Chung, W.A. Miller, J.F. Atkins, A.E. Firth, Proc. Natl. Acad. Sci. USA 105, 5897–5902 (2008). doi:https://doi.org/10.1073/pnas.0800468105

    Article  CAS  Google Scholar 

  23. M. Masumi, K. Izadpanah, F. Ebrahim-Nesbat, in Proc. 14th Iran Plant Protec. Cong., vol. II, 2000b, p. 231

  24. M. Hema, J. Joseph, K. Gopinath, P. Sreenivasulu, H.S. Savithri, Arch. Virol. 144, 479–490 (1999). doi:https://doi.org/10.1007/s007050050519

    Article  CAS  Google Scholar 

  25. C. Fauquet, A. Mayo, Arch. Virol. 144, 1249–1273 (1999). doi:https://doi.org/10.1007/s007050050584

    Article  CAS  Google Scholar 

  26. E. Johansen, O.F. Rasmussen, M. Heide, B. Borkhardt, J. Gen. Virol. 72, 2625–2632 (1991). doi:https://doi.org/10.1099/0022-1317-72-11-2625

    Article  CAS  Google Scholar 

  27. Y. Takimoto, T. Hibi, Virology 332, 199–205 (2005). doi:https://doi.org/10.1016/j.virol.2004.11.026

    Article  Google Scholar 

  28. S. Gazzarrini, M. Kang, S. Epimashko, J.L. Van Etten, J. Dainty, G. Teil et al., Proc. Natl. Acad. Sci. USA 103, 5355–5360 (2006). doi:https://doi.org/10.1073/pnas.0600848103

    Article  CAS  Google Scholar 

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Acknowledgment

This research was partially supported by funds from Center of Excellence in Plant Virology and the Iranian Chapter of TWAS (ISMO).

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Authors and Affiliations

  1. Plant Virology Research Center, College of Agriculture, Shiraz University, Shiraz, Iran

    M. Rastegar, K. Izadpanah, M. Masumi, M. Siampour, A. Zare & A. Afsharifar

  2. Fars Agricultural and Natural Resources Research Center, Shiraz, Iran

    M. Masumi

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  1. M. Rastegar
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  2. K. Izadpanah
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  3. M. Masumi
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Correspondence to K. Izadpanah.

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Rastegar, M., Izadpanah, K., Masumi, M. et al. Analyses of the complete sequence of the genome of wheat Eqlid mosaic virus, a novel species in the genus Tritimovirus . Virus Genes 37, 212–217 (2008). https://doi.org/10.1007/s11262-008-0252-y

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