Molecular resolution of a complex of potyviruses infecting solanaceous crops at the centre of origin in Peru

References

1. Adam G., Schönfelder M., Vetten H. J., Lesemann D. E. 1995; Wild potato mosaic potyvirus as causal agent of a tomato disease in Germany. Proceedings of the 8th Conference on Virus Diseases of Vegetables Prague, Czech Republic: pp  15–21
   [Google Scholar]
2. Aleman M. E., Marcos J. F., Brugidou C., Beachy R. N., Fauquet C. 1996; The complete nucleotide sequence of yam mosaic virus (Ivory Coast isolate) genomic RNA. Arch Virol 141:1259–1278
   [Google Scholar]
3. Aleman-Verdaguer M. E., Goudou-Urbino C., Dubern J., Beachy R. N., Fauquet C. 1997; Analysis of the sequence diversity of the P1, HC, P3, NIb and CP genomic regions of several yam mosaic potyvirus isolates: implications for the intraspecies molecular diversity of potyviruses. J Gen Virol 78:1253–1264
   [Google Scholar]
4. Allison R. F., Dougherty W. G., Parks T. D., Willis L., Johnston R. E., Kelly M., Armstrong F. B. 1985; Biochemical analysis of the capsid protein gene and capsid protein of tobacco etch virus: N-terminal amino acids are located on the virion's surface. Virology 147:309–316
   [Google Scholar]
5. Alvarez V., Fernandez-Northcote E. N. 1996; Natural occurrence of Peru tomato virus potato strain (PTV-p) in Bolivian native potato cultivars. In Abstracts of the 13th Triennal Conference of the European Association for Potato Research pp  116–117 Wageningen: European Association for Potato Research;
   [Google Scholar]
6. Barker H. 1997; Extreme resistance to potato virus V in clones of Solanum tuberosum that are also resistant to potato viruses Y and A: evidence for a locus conferring broad-spectrum potyvirus resistance. Theor Appl Genet 95:1258–1262
   [Google Scholar]
7. Berger P. H., Wyatt S. D., Shiel P. J., Silbernagel M. J., Druffel K., Mink G. I. 1997; Phylogenetic analysis of the Potyviridae with emphasis on legume-infecting potyviruses. Arch Virol 142:1979–1999
   [Google Scholar]
8. Blanco-Urgoiti B., Sánchez F., Pérez de San Román C., Dopazo J., Ponz F. 1998; Potato virus Y group C isolates are a homogeneous pathotype but two different genetic strains. J Gen Virol 79:2037–2042
   [Google Scholar]
9. Boonham N., Hims M., Barker I., Spence N. 1999; Potato virus Y from petunia can cause symptoms of potato tuber necrotic ringspot disease (PTNRSD. Eur J Plant Pathol 105:617–621
   [Google Scholar]
10. Dayhoff M. O., Schwartz R. M., Orcutt B. C. 1978; A model for evolutionary change in proteins. In Atlas of Protein Sequence and Structure Washington, DC: National Biochemistry Research Foundation;
    [Google Scholar]
11. De Bokx J. A., Huttinga H. 1981; Potato virus Y. CMI/AAB Descriptions of Plant Viruses , no. 242
    [Google Scholar]
12. De Bokx J. A., Kratcanova B., Maat D. Z. 1975; Some properties of a deviating strain of potato virus Y. Potato Res 18:38–51
    [Google Scholar]
13. Domier L. L., Franklin K. M., Shahabuddin M. 7 other authors 1986; The nucleotide sequence of tobacco vein mottling virus RNA. Nucleic Acids Res 14:5417–5430
    [Google Scholar]
14. Fauquet C. M., Bisaro D. M., Briddon R. W., Brown J. K., Harrison B. D., Rybicki E. P., Stenger D. C., Stanley J. 2003; Revision of taxonomic criteria for species demarcation in the family Geminiviridae , and an updated list of begomovirus species. Arch Virol 148:405–421
    [Google Scholar]
15. Feldman J. M., Gracia O. 1977; Pepper severe mosaic virus: a new potyvirus from pepper in Argentina. Phytopathology 89:146–156
    [Google Scholar]
16. Felsenstein J. 1993 phylip: phylogeny inference package, version 3.57c Department of Genetics, University of Washington; Seattle, WA, USA:
    [Google Scholar]
17. Fernandez-Northcote E. N., Fulton R. W. 1980; Detection and characterization of Peru tomato virus strains infecting pepper and tomato in Peru. Phytopathology 70:315–320
    [Google Scholar]
18. Fribourg C. E. 1979; Host plant reactions, some properties, and serology of Peru tomato virus. Phytopathology 69:441–445
    [Google Scholar]
19. Fribourg C. E., Fernandez-Northcote E. N. 1982; Peru tomato virus. CMI/AAB Descriptions of Plant Viruses, no. 255
    [Google Scholar]
20. Fribourg C. E., Nakashima J. 1984; Characterization of a new potyvirus from potato. Phytopathology 74:1363–1369
    [Google Scholar]
21. Fütterer J., Hohn T. 1996; Translation in plants – rules and exceptions. Plant Mol Biol 32:159–189
    [Google Scholar]
22. García-Arenal F., Fraile A., Malpica J. M. 2001; Variability and genetic structure of plant virus populations. Annu Rev Phytopathol 39:157–186
    [Google Scholar]
23. Gébre-Sélassié K., Marchoux G., Delecolle B., Pochard E. 1985; Variabilité naturelle des souches du virus Y de la pomme de terre dans les cultures de piment du sud-est de la France. Agronomie 5:621–630
    [Google Scholar]
24. Glais L., Kerlan C., Robaglia C. 2002; Variability and evolution of Potato virus Y , the type species of the Potyvirus genus. In Plant Viruses as Molecular Pathogens pp  225–253 Edited by Khan J. A., Dijkstra J. New York: Haworth Press;
    [Google Scholar]
25. Haldeman-Cahill R., Darós J.-A., Carrington J. C. 1998; Secondary structures in the capsid protein coding sequence and 3′ nontranslated region involved in amplification of the tobacco etch virus genome. J Virol 72:4072–4079
    [Google Scholar]
26. Hancock J. F. 1993 Plant Evolution and the Origin of Crop Species Englewood Cliffs, NJ: Prentice Hall;
    [Google Scholar]
27. Hawkes J. G. 1990 The Potato: Evolution, Biodiversity and Genetic Resources Washington, DC: Smithsonian Institution;
    [Google Scholar]
28. Inoue-Nagata A. K., Fonseca M. E. N., Resende R. O., Boiteux L. S., Monte D. C., Dusi A. N., De Ávila A. C., Van der Vlugt R. A. A. 2002; Pepper yellow mosaic virus , a new potyvirus in sweetpepper, Capsicum annuum . Arch Virol 147:849–855
    [Google Scholar]
29. Jeffries C. K. 1998 Potato . FAO/IPGRI Technical Guidelines for the Safe Movement of Germplasm, no. 19 Rome: Food and Agriculture Organization of the United Nations/International Plant Genetic Resource Institute;
    [Google Scholar]
30. Johansen E., Rasmussen O. F., Heide M., Borkhardt B. 1991; The complete nucleotide sequence of pea seed-borne mosaic virus RNA. J Gen Virol 72:2625–2632
    [Google Scholar]
31. Jones R. A. C. 1981; The ecology of viruses infecting wild and cultivated potatoes in the Andean region of South America. In Pests, Pathogens and Vegetation pp  89–107 Edited by Thresh J. M. London: Pitman;
    [Google Scholar]
32. Jones R. A. C. 1987; Problems associated with potyviruses in potato certification – field inspection and serological testing. EPPO Bull 17:61–67
    [Google Scholar]
33. Jones R. A. C. 1990; Strain group specific and virus specific hypersensitive reactions to infection with potyviruses in potato cultivars. Ann Appl Biol 117:93–105
    [Google Scholar]
34. Jones R. A. C., Fribourg C. E. 1979; Host plant reactions, some properties, and serology of wild potato mosaic virus. Phytopathology 69:446–449
    [Google Scholar]
35. Jones R. A. C., Fribourg C. E. 1986; Potato virus V. CMI/AAB Descriptions of Plant Viruses, no. 316
    [Google Scholar]
36. Kekarainen T., Merits A., Oruetxebarria I., Rajamäki M. L., Valkonen J. P. T. 1999; Comparison of the complete sequences of five different isolates of Potato virus A (PVA), genus Potyvirus . Arch Virol 144:2355–2366
    [Google Scholar]
37. Kyle M. M. 1993 Resistance to Viral Diseases of Vegetables Portland, OR: Timber Press;
    [Google Scholar]
38. Maiss E., Timpe U., Brisske A., Jelkmann W., Casper R., Himmler G., Mattanovich D., Katinger H. W. 1989; The complete nucleotide sequence of plum pox virus RNA. J Gen Virol 70:513–524
    [Google Scholar]
39. Mathews D. H., Sabina J., Zuker M., Turner D. H. 1999; Expanded sequence dependence of thermodynamic parameters improves prediction of RNA secondary structure. J Mol Biol 288:911–940
    [Google Scholar]
40. 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. (editors) 1995; Virus Taxonomy . Sixth Report of the International Committee on Taxonomy of Viruses Vienna & New York: Springer;
    [Google Scholar]
41. Ochoa C. M. 1999 Las papas de Sudamérica: Perú Lima, Perú: Centro International de La Papa (CIP)/International Potato Center;
    [Google Scholar]
42. Onshima K., Yamaguchi Y., Hirota R. 10 other authors 2002; Molecular evolution of Turnip mosaic virus : evidence of host adaptation, genetic recombination and geographical spread. J Gen Virol 83:1511–1521
    [Google Scholar]
43. Oruetxebarria I., Valkonen J. P. T. 2001; Analysis of the P1 gene sequences and the 3′-terminal sequences and secondary structures of the single-stranded RNA genome of Potato virus V . Virus Genes 22:333–341
    [Google Scholar]
44. Oruetxebarria I., Kekarainen T., Spetz C., Valkonen J. P. T. 2000; Molecular characterization of Potato virus V genomes from Europe indicates limited spaciotemporal strain differentiation. Phytopathology 90:437–444
    [Google Scholar]
45. Purcifull D. E., Zitter T. A., Hiebert E. 1975; Morphology, host range, and serological relationships of pepper mottle virus. Phytopathology 65:559–562
    [Google Scholar]
46. Rabinowicz P. D., Bravo-Almonacid F. F., Mentaberry A. N. 1993; cDNA sequence of the pepper severe mosaic virus coat protein gene. Plant Physiol 103:1023
    [Google Scholar]
47. Rajamäki M., Merits A., Rabenstein F., Andrejeva J., Paulin L., Kekarainen T., Kreuze J. F., Forster R. L. S., Valkonen J. P. T. 1998; Biological, serological and molecular differences among isolates of potato A potyvirus. Phytopathology 88:311–321
    [Google Scholar]
48. Raymer W. B., Kahn R. P., Hikida H. R., Waterworth H. E. 1972; A new tomato virus from Peru. Phytopathology 62:784
    [Google Scholar]
49. Riechmann J. L., Laín S., Garcia J. A. 1992; Highlights and prospects of potyvirus molecular biology. J Gen Virol 73:1–16
    [Google Scholar]
50. Robaglia C., Durand-Tardif M., Tronchet M., Boudazin G., Astier-Manifacier S., Casse-Delbart F. 1989; Nucleotide sequence of potato virus Y (N Strain) genomic RNA. J Gen Virol 70:935–947
    [Google Scholar]
51. Saitou N., Nei N. 1987; The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4:406–425
    [Google Scholar]
52. Salazar L. F. 1971; Una raza del virus “Y” de la papa en el Peru. Fitopatologia 4:26–33
    [Google Scholar]
53. Shukla D. D., Ward C. W., Brunt A. A. 1994 The Potyviridae Cambridge, UK: CAB International;
    [Google Scholar]
54. Singh M., Singh R. P. 1996; Nucleotide sequence and genome organization of a Canadian isolate of the common strain of potato virus Y (PVY^o). Can J Plant Pathol 18:209–214
    [Google Scholar]
55. Smartt J., Simmonds N. W. 1995 Evolution of Crop Plants , 2nd edn. New York: Longman;
    [Google Scholar]
56. Spetz C., Valkonen J. P. T. 2003; Genomic sequence of Wild potato mosaic virus as compared to the genomes of other potyviruses. Arch Virol 148:373–380
    [Google Scholar]
57. Stevenson W. R., Loria R., Franc G. D., Weingartner D. P. (editors) 2001 Compendium of Potato Diseases St Paul, MN: American Phytopathological Society;
    [Google Scholar]
58. Teycheney P. Y., Aaziz R., Dinant S., Salánki K., Tourneur C., Balázs E., Jacquemond M., Tepfer M. 2000; Synthesis of (−)-strand RNA from the 3′ untranslated region of plant viral genomes expressed in transgenic plants upon infection with related viruses. J Gen Virol 81:1121–1126
    [Google Scholar]
59. Thole V., Dalmay T., Burgyan J., Balazs E. 1993; Cloning and sequencing of potato virus Y (Hungarian isolate) genomic RNA. Gene 123:149–156
    [Google Scholar]
60. Thompson J. D., Gibson T. J., Plewniak F., Jeanmougin F., Higgins D. G. 1997; The ClustalX windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res 24:4876–4882
    [Google Scholar]
61. Tordo M. V., Chachulska A. M., Fakhfakh H., Le Romancer M., Robaglia C., Astier-Manifacier S. 1995; Sequence polymorphism in the 5′ NTR and in the P1 coding region of potato virus Y genomic RNA. J Gen Virol 76:939–949
    [Google Scholar]
62. Valkonen J. P. T., Jones R. A. C., Slack S. A., Watanabe K. N. 1996; Resistance specificities to viruses in potato: standardization of nomenclature. Plant Breed 115:433–438
    [Google Scholar]
63. Vance V. B., Moore D., Turpen T. H., Bracker A., Hollowell V. C. 1992; The complete nucleotide sequence of pepper mottle virus genomic RNA: comparison of the encoded polyprotein with those of other sequenced potyviruses. Virology 191:19–30
    [Google Scholar]
64. Van der Vlugt R. A., Leunissen J., Goldbach R. 1993; Taxonomic relationships between distinct potato virus Y isolates based on detailed comparisons of the viral coat proteins and 3′ non-translated regions. Arch Virol 131:361–375
    [Google Scholar]
65. Van Regenmortel M. H. V., Fauquet C. M., Bishop D. H. L. 8 other editors 2000 Virus Taxonomy: Seventh Report of the International Committee on Taxonomy of Viruses San Diego: Academic Press;
    [Google Scholar]
66. Warren C. E., Murphy J. F. 2003; The complete nucleotide sequence of Pepper mottle virus -Florida RNA. Arch Virol 148:189–197
    [Google Scholar]