Sequence variability, recombination analysis, and specific detection of the W strain of Plum pox virus

Phytopathology

Volumn 101, Issue 8, 2011, Pages 980-985

  Glasa, Miroslav ^a   Malinowski, Tadeusz ^b   Predajňa, Lukáš ^a   Pupola, Neda ^c   Dekena, Dzintra ^d   Michalczuk, Lech ^b   Candresse, Thierry ^e  

^a INSTITUTE OF VIROLOGY   (Slovakia)

^b RESEARCH INSTITUTE OF POMOLOGY AND FLORICULTURE   (Poland)

^c Latvia University of Agriculture   (Latvia)

^d Pure Horticultural Research Centre   (Latvia)

^e UNIVERSITÉ DE BORDEAUX   (France)

Author keywords

Diversity; Winona

Indexed keywords

RECOMBINANT PROTEIN; VIRUS PROTEIN;

AMINO ACID SEQUENCE; ARTICLE; EVOLUTION; GENE EXPRESSION REGULATION; GENETIC REASSORTMENT; GENETIC VARIABILITY; GENETICS; ISOLATION AND PURIFICATION; METABOLISM; MOLECULAR GENETICS; MOSAIC VIRUS; NUCLEOTIDE SEQUENCE; PHYLOGENY; VIRUS GENOME;

AMINO ACID SEQUENCE; BIOLOGICAL EVOLUTION; GENE EXPRESSION REGULATION, VIRAL; GENETIC VARIATION; GENOME, VIRAL; MOLECULAR SEQUENCE DATA; PHYLOGENY; PLUM POX VIRUS; REASSORTANT VIRUSES; RECOMBINANT PROTEINS; VIRAL PROTEINS;

NIA; PLUM POX VIRUS; POTYVIRUS;

EID: 80051705859     PISSN: 0031949X     EISSN: None     Source Type: Journal    
DOI: 10.1094/PHYTO-12-10-0334     Document Type: Article

References (35)

1. Atreya, P. L., Lopez-Moya, J. J., Chu, M., Atreya, C. D., and Pirone, T. P. 1995. Mutational analysis of the coat protein N-terminal amino acids involved in potyvirus transmission by aphids. J. Gen. Virol. 76:265-270.
2. Cambra, M., Capote, N., Myrta, A., and Llacer, G. 2006. Plum pox virus and the estimated costs associated with Sharka disease. Bull. OEPP/EPPO Bull. 36:202-204. (Pubitemid 44892400)
3. Candresse, T., and Cambra, M. 2006. Causal agent of Sharka disease: historical perspective and current status of Plum pox virus strains. Bull. OEPP/EPPO Bull. 36:239-246. (Pubitemid 44892406)
4. Candresse, T., Cambra, M., Dallot, S., Lanneau, M., Asensio, M., Gorris, M. T., Revers, F., Macquaire, G., Olmos, A., Boscia, D., Quiot, J. B., and Dunez, J. 1998. Comparison of monoclonal antibodies and polymerase chain reaction assays for the typing of isolates belonging to the D and M serotypes of Plum pox potyvirus. Phytopathology 88:198-204. (Pubitemid 28155919)
5. Cervera, M. T., Riechmann, J. L., Martin, M. T., and Garcia, J. A. 1993. 3' Terminal sequence of the plum pox virus PS and o6 isolates: Evidence for RNA recombination within the potyvirus group. J. Gen. Virol. 74:329-334. (Pubitemid 23092884)
6. Croft, H., Malinowski, T., Krizbai, L., Mikec, I., Kajic, V., Reed, C., Varga, A., and James, D. 2008. Use of Luminex xMAP-derived Bio-Plex bead-based suspension array for specific detection of PPV W and characterization of epitopes on the coat protein of the virus. J. Virol. Methods 153:203-213.
7. Elena, S. F., Agudelo-Romero, P., Carrasco, P., Codoner, F. M., Martin, S., Torres-Barcelo, C., and Sanjuan, R. 2008. Experimental evolution of plant RNA viruses. Heredity 100:478-483. (Pubitemid 351574182)
8. Garcia-Arenal, F., Fraile, A., and Malpica, J. M. 2001. Variability and genetic structure of plant virus populations. Annu. Rev. Phytopathol. 39:157-186. (Pubitemid 32965183)
9. Garcia-Arenal, F., Fraile, A., and Malpica, J. M. 2003. Variation and evolution of plant virus populations. Int. Microbiol. 6:225-232. (Pubitemid 37524234)
10. Garcia, J. A., and Cambra, M. 2007. Plum pox virus and Sharka disease. Plant Viruses 1:69-79.
11. Glasa, M., and Candresse, T. 2005. Partial sequence analysis of an atypical Turkish isolate provides further information on the evolutionary history of Plum pox virus (PPV). Virus Res. 108:199-206. (Pubitemid 40170349)
12. Glasa, M., Marie-Jeanne, V., Labonne, G., Subr, Z., Kudela, O., and Quiot, J. B. 2002. A natural population of recombinant Plum pox virus is stable and competitive under field conditions. Eur. J. Plant Pathol. 108:843-853. (Pubitemid 36035332)
13. Glasa, M., Palkovics, L., Kominek, P., Labonne, G., Pittnerova, S., Kudela, O., Candresse, T., and Subr, Z. 2004. Geographically and temporally distant natural recombinant isolates of Plum pox virus (PPV) are genetically very similar and form a unique PPV subgroup. J. Gen. Virol. 85:2671-2681. (Pubitemid 39214363)
14. James, D., and Varga, A. 2005. Nucleotide sequence analysis of Plum pox virus isolate W3174: Evidence of a new strain. Virus Res. 110:143-150. (Pubitemid 40544556)
15. Kumar, S., Dudley, J., Nei, M., and Tamura, K. 2008. MEGA: A biologistcentric software for evolutionary analysis of DNA and protein sequences. Brief. Bioinf. 9:299-306. (Pubitemid 351890826)
16. Levy, L., Damsteegt, V., and Welliver, R. 2000. First report of Plum pox virus (Sharka disease) in Prunus persica in the United States. Plant Dis. 84:202.
17. Librado, P., and Rozas, J. 2009. DnaSP v5: A software for comprehensive analysis of DNA polymorphism data. Bioinformatics 25:1451-1452.
18. López-Moya, J. J., Fernandez-Fernandez, M. R., Cambra, M., and García, J. A. 2000. Biotechnological aspects of Plum pox virus. J. Biotechnol. 76:121-136.
19. Mavrodieva, V., Mock, R., and Levy, L. 2006. Molecular characterization of PPV isolates from plum germplasm illegally imported from Ukraine. Page 112 in: Book of Abstracts, 20th International Symposium on Virus and Virus-like Diseases of Temperate Fruit Crops Antalya, Turkey.
20. Mavrodieva, V., Negi, S., James, D., and Levy, L. 2010. Sequence variability among isolates of strain W of Plum pox virus (PPV) influences identification. Page 14 in: Book of Abstracts, International Symposium on Plum pox virus, Sofia, Bulgaria.
21. Moury, B., Desbiez, C., Jacquemond, M., and Lecoq, H. 2006. Genetic diversity of plant virus populations: Towards hypothesis testing in molecular epidemiology. Adv. Virus Res. 67:49-87. (Pubitemid 44486114)
22. Myrta, A., Varga, A., and James, D. 2006. The complete genome sequence of an El Amar isolate of Plum pox virus (PPV) and its phylogenetic relationship to other PPV strains. Arch. Virol. 151:1189-1198. (Pubitemid 43806819)
23. Nemchinov, L., and Hadidi, A. 1996. Characterization of the sour cherry strain of Plum pox virus. Phytopathology 86:575-580. (Pubitemid 26312270)
24. Posada, D. 2002. Evaluation of methods for detecting recombination from DNA sequences: Empirical data. Mol. Biol. Evol. 19:708-717. (Pubitemid 34521302)
25. Revers, F., Le Gall, O., Candresse, T., Le Romancer, M., and Dunez, J. 1996. Frequent occurrence of recombinant potyvirus isolates. J. Gen. Virol. 77:1953-1965. (Pubitemid 26278779)
26. Reyes, F., Fiore, N., Reyes, M. A., Sepulveda, P., Paredes, V., and Prieto, H. 2003. Biological behavior and partial molecular characterization of six Chilean isolates of Plum pox virus. Plant Dis. 87:15-20. (Pubitemid 36072876)
27. Roosinck, M. J. 1997. Mechanism of plant virus evolution. Annu. Rev. Phytopathol. 35:191-205.
28. Serce, C. U., Candresse, T., Svanella-Dumas, L., Krizbai, L., Gazela, M., and Caglayan, K. 2009. Further characterization of a new recombinant group of Plum pox virus isolates, PPV-T, found in orchards in the Ankara province of Turkey. Virus Res. 142:121-126.
29. Sheleva, A., Nemova, E., and Chirkov, S. 2010. Detection of an unusual isolate of Plum pox virus in plum (Prunus nigra). Page 16 in: Book of Abstracts, International Symposium on Plum pox virus, Sofia, Bulgaria.
30. Thompson, D., McCann, M., MacLeod, M., Lye, D., Green, M., and James, D. 2001. First report of Plum pox potyvirus in Ontario, Canada. Plant Dis. 85:97.
31. Thompson, D., Varga, A., De Costa, H., Birch, C., Glasa, M., and James, D. 2009. First report of Plum pox virus recombinant strain on Prunus spp. in Canada. Plant Dis. 93:674.
32. Urcuqui-Inchima, S., Haenni, A. L., and Bernardi, F. 2001. Potyvirus proteins: A wealth of functions. Virus Res. 74:157-175. (Pubitemid 32168202)
33. Weiller, G. F. 1998. Phylogenetic profiles: A graphical method for detecting genetic recombinations in homologous sequences. Mol. Biol. Evol. 15:326-335. (Pubitemid 28113689)
34. Wetzel, T., Candresse, T., Ravelonandro, M., Delbos, R. P., Mazyad, H., Aboul-Ata, A. E., and Dunez, J. 1991. Nucleotide sequence of the 3'- terminal region of the RNA of the El Amar strain of plum pox potyvirus. J. Gen. Virol. 72:1741-1746.
35. Worobey, M., and Holmes, E. C. 1999. Evolutionary aspects of recombination in RNA viruses. J. Gen. Virol. 80:2535-2543. (Pubitemid 29458613)