Abstract
The coat protein (CP) gene of 75 South African Potato virus Y (PVY) isolates was amplified using reverse-transcriptase polymerase chain reaction (RT-PCR). The resulting cDNA products were cloned and sequenced. These sequences were used to identify the strains to which the isolates belonged. Some, when compared to reference sequences, belonged to the PVYN and PVYO strains. A number of isolates were found to demonstrate significant homology to PVYN strains from China. A large number of South African isolates possessed CP sequences showing evidence of recombination between PVYN and PVYO strains, similar to those of PVYNTN isolates. Multiplex RT-PCR analysis allowed further differentiation of PVYO isolates and revealed that the majority were of the PVYN-Wilga strain. It was deduced that the most likely way in which these isolates reached South Africa was via the importation of infected material.
Similar content being viewed by others
References
Boonham N, Walsh K, Hims M, Preston S, North P, Barker I (2002) Biological and sequence comparisons of Potato virus Y isolates associated with potato tuber necrotic ringspot disease. Plant Pathol 51:117–126
Boonham N, Walsh K, Preston S, North J, Smith P, Barker I (2002) The detection of tuber necrotic isolates of potato virus Y and the accurate discrimination of PVYO, PVYN and PVYC strains using RT-PCR. J Virol Methods 102:103–112
Brunt AA (2001) Potyviruses. In: Loebenstein G, Berger PH, Brunt AA, Lawson RH (eds) Virus and virus-like diseases of potatoes and production of seed-potatoes. Kluwer, Dordrecht, pp 77–86
Coetsee J (2005) Virusse bedreig hele aartappelbedryf. Landbouweekblad 61637:44–45
De Bokx JA (1981) Potato virus Y. In: CMI/AAB Descriptions of plant viruses. 37:242. Downloaded from the worldwide web: www.dpvweb.net/dprv/showdpv.php?dpvno=242
Delgado-Sanchez S, Grogan RG (1970) Potato virus Y. In: CMI/AAB Description of plant viruses. 37, CMI/AAB, Kew, Surrey, England, p 4
Glais L, Kerlan C, Tribodet M, Marie-Jeanne Tordo V, Robaglia C, Astier-Manifacier S (1996) Molecular characterization of Potato virus Y N isolates by PCR-RFLP. Eur J Plant Pathol 102:655–662
Jones DR, Baker RHA (2007) Introduction of non-native plant pathogens into Great Britain, 1970–2004. Plant Pathol 56:891–910
Khan JA, Dijkstra J (2002) Plant viruses as molecular pathogens. Food products press, The Haworth Press, NY
La Notte P, Minafra A, Saldarelli P (1997) A spot-PCR technique for the detection of phloem-limited grapevine viruses. J Virol Methods 66:103–108
Li N, Wang X, Zhou G, Dong J (2006) Molecular variability of the coat protein gene of Potato virus Y from tobacco in China. Acta Virol 50:107–113
Lole KS, Bollinger RC, Paranjape RS, Gadkari D, Kulkarni SS, Novak NG, Ingersoll R, Sheppard HW, Ray SC (1999) Full-length human immunodeficiency virus type 1 genomes from subtype C-infected seroconverters in India, with evidence of intersubtype recombination. J Virol 73:152–160
Lorenzen JH, Meacham T, Berger PH, Shiel PJ, Crosslin JM, Hamm PB, Kopp H (2006) Whole genome characterization of Potato virus Y isolates collected in the western USA and their comparison to isolates from Europe and Canada. Arch Virol 151:1055–1074
Lorenzen JH, Piche LM, Gudmestad NC, Meacham T, Shiel P (2006) A multiplex PCR assay to characterize Potato virus Y isolates and identify strain mixtures. Plant Dis 90:935–940
Ohshima K, Tomitaka Y, Wood JT, Minematsu Y, Kajiyama H, Tomimura K, Gibbs AJ (2007) Patterns of recombination in turnip mosaic virus genomic sequences indicate hotspots of recombination. J Gen Virol 88:298–315
Piche LM, Singh RP, Nie X, Gudmestad NC (2004) Diversity among Potato virus Y isolates obtained from potatoes grown in the United States. Phytopath 94:1368–1375
Pieterse B (2005) A new variant of PVY in South Africa. Available at http://www.potatoes.co.za/home.asp?pid = 219
Revers F, Le Gall O, Candresse T, Le Romancer M, Dunez J (1996) Frequent occurrence of recombinant potyvirus isolates. J Gen Virol 77:1953–1965
Salaman RN (1930) Virus diseases of potato: streak. Nature 126:241
Schubert J, Fomitcheva V, Sztangret-Wiśniewska J (2007) Differentiation of Potato virus Y strains using improved sets of diagnostic PCR-primers. J Virol Methods 140:66–74
Singh RP, Valkonen JPT, Gray SM, Boonham N, Jones RAC, Kerlan C, Schubert J (2008) Discussion paper: The naming of Potato virus Y strains infecting potato. Arch Virol 154:1–13
Stenger DC, French R (2009) Wheat streak mosaic virus genotypes introduced to Argentina are closely related to isolates from the American Pacific Northwest and Australia. Arch Virol 154:331–336
Stenger DC, Seifers DL, French R (2002) Patterns of polymorphism in Wheat streak mosaic virus: sequence space explored by a clade of closely related viral genotypes rivals that between the most divergent strains. Virol 302:58–70
Swofford DL (2003) PAUP*: phylogenetic analysis using parsimony (* and other methods). Version 4. Sinauer Associates, Sunderland
Tomimura K, Špak J, Katis N, Jenner CE, Walsh JA, Gibbs AJ, Ohshima K (2004) Comparisons of the genetic structure of populations of Turnip mosaic virus in West and East Africa. Virol 330:408–423
Acknowledgments
The authors wish to thank Emcee Gagiano, Anél Espach and Marieta Botha for cultivation and distribution of plant material. The financial support of Potatoes South Africa is gratefully acknowledged.
Author information
Authors and Affiliations
Corresponding author
Rights and permissions
About this article
Cite this article
Visser, J.C., Bellstedt, D.U. An assessment of molecular variability and recombination patterns in South African isolates of Potato virus Y . Arch Virol 154, 1891–1900 (2009). https://doi.org/10.1007/s00705-009-0525-3
Received:
Accepted:
Published:
Issue Date:
DOI: https://doi.org/10.1007/s00705-009-0525-3