Whole genome characterization of Potato virus Y isolates collected in the western USA and their comparison to isolates from Europe and Canada
- 7 February 2006
- journal article
- research article
- Published by Springer Science and Business Media LLC in Archiv für die gesamte Virusforschung
- Vol. 151 (6), 1055-1074
- https://doi.org/10.1007/s00705-005-0707-6
Abstract
Potato virus Y (PVY) is a serious potato pathogen that affects potato seed and commercial production crops. In recent decades, novel PVY strains have been described that cause necrotic symptoms on tobacco foliage and/or potato tubers. The major PVY strains that affect potato include PVYO and PVYN, which have distinct serotypes that can be differentiated by immunoassay. Other economically important strain variants are derived from recombination events, including variants that cause tuber necrotic symptoms (PVYNTN) and PVYO serotypes that cause tobacco veinal necrosis (PVYN-W, PVYN:O). Although the PVYNTN and PVYN-W variants were first reported in Europe, apparently similar strains have been appearing in North America. Confirmation of the existence of these recombinant strains in North America is important, as is whether they spread from a common source or were derived by independent recombination. Whole genome sequencing can be used to positively identify strain variants and begin to address the issue of origins. Symptomology, serology, RT-PCR, and partial sequencing of the coat protein region were used to identify isolates of the PVYNTN, PVYN, PVYNA-N, and PVYN:O for whole-genome sequencing. Sequencing confirmed the presence of PVYNTN and PVYN isolates that were >99% identical to European sequences deposited in GenBank in the 1990’s. Sequences of the PVYNA-N and PVYN:O types were 99.0% and 99.5% identical to known sequences, respectively. There was no indication that recombinant strains PVYNTN or PVYN:O had different parental origins than recombinant strains previously sequenced. This is the first confirmation by whole-genome sequencing that “European”-type strain variants of PVYN and PVYNTN are present in North America, and the first reported full-length sequence of a tuber necrotic isolate of PVYN:O.Keywords
This publication has 51 references indexed in Scilit:
- Serological and molecular detection of tobacco veinal necrosis isolates ofPotato virus Y (PVYN) from potatoes grown in the Western United StatesAmerican Journal of Potato Research, 2005
- RDP2: recombination detection and analysis from sequence alignmentsBioinformatics, 2004
- Tobacco veinal necrosis determinants are unlikely to be located within the 5′ and 3′ terminal sequences of the potato virus Y genomeArchiv für die gesamte Virusforschung, 1997
- A strain-type clustering of potato virus Y based on the genetic distance between isolates calculated by RFLP analysis of the amplified coat protein geneArchiv für die gesamte Virusforschung, 1996
- Nucleotide sequence and genome organization of a Canadian isolate of the common strain of potato virus Y (PVY°)Canadian Journal of Plant Pathology, 1996
- Production of monoclonal antibodies for detection and identification of strains of potato virus YCanadian Journal of Plant Pathology, 1996
- Characteristics of a resistance-breaking isolate of potato virus Y causing potato tuber necrotic ringspot diseaseEuropean Journal of Plant Pathology, 1994
- Biological characterisation of various geographical isolates of potato virus Y inducing superficial necrosis on potato tubersPlant Pathology, 1994
- Cloning and sequencing of potato virus Y (Hungarian isolate) genomic RNAGene, 1993
- Comparison and Differentiation of Potyvirus Isolates and Identification of Strain-, Virus-, Subgroup-specific and Potyvirus Group-common Epitopes Using Monoclonal AntibodiesJournal of General Virology, 1991