title: A new approach for the simultaneous differentiation of biological and geographical strains of Potato virus Y by uniplex and multiplex RT-PCR.
abstract: Two strains of Potato virus Y (PVY), the common (PVY(O)) and the tobacco veinal necrosis (PVY(N)) have been known for decades. More recently, a tuber ringspot necrosis (PVY(NTN)), and several recombinants of PVY(O) and PVY(N) (designated here as PVY(N:O)) have been described. Further, the PVY(N) group of strains have been assigned to two geographical subgroups of European (EU) PVY(N/NTN) and the North American (NA) PVY(N/NTN). The evolution of new PVY(N) strains, has complicated the diagnosis, which requires a combination of bioassay, serological and molecular assays. To simplify the identification and differentiation of various PVY(N) strain groups, a competitive (single antisense and multiple sense primers) reverse transcription-polymerase chain reaction (RT-PCR) was used, making use of minor differences in the variable region part of the PVY genome. Specifically, primers based on small variations in nucleotide stretches of P1 gene permitted a broad range separation of PVY(O) and PVY(N) groups and the specific detection of strain subgroups. The primer pairs designed for identifying PVY(O), EU-PVY(N/NTN), NA-PVY(N) and NA-PVY(NTN) are described. Primer pairs can be used in a uniplex (single pair of primer) or multiplex (duplex, tetraplex or pentaplex) competitive RT-PCR, allowing simultaneous testing for any combination of PVY(O), EU-PVY(N/NTN), NA-PVY(N) and NA-PVY(NTN).
authors.affiliation: Potato Research Centre, Agriculture and Agri-Food Canada, P.O. Box 20280, Fredericton, NB, Canada E3B 4Z7.
authors.forename: Xianzhou
authors.initials: X
authors.lastname: Nie
authors.forename: Rudra P
authors.initials: RP
authors.lastname: Singh
mesh_terms: D017931:DNA Primers; D017800:Potyvirus / Q000145:classification* / Q000235:genetics / Q000302:isolation & purification; D012367:RNA, Viral / Q000032:analysis; D020133:Reverse Transcriptase Polymerase Chain Reaction; D013997:Time Factors
chemical_list: D017931:DNA Primers; D012367:RNA, Viral