Oligonucleotide microarray-based detection and genotyping of Plum pox virus

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dc.authoridNegri, Rodolfo/0000-0002-4806-7090
dc.contributor.authorPasquini, Graziella
dc.contributor.authorBarba, Marina
dc.contributor.authorHadidi, Ahmed
dc.contributor.authorFaggioli, Francesco
dc.contributor.authorNegri, Rodolfo
dc.contributor.authorSobol, Iris
dc.contributor.authorTiberini, Antonio
dc.date.accessioned2024-09-18T20:15:11Z
dc.date.available2024-09-18T20:15:11Z
dc.date.issued2008
dc.departmentHatay Mustafa Kemal Üniversitesien_US
dc.description.abstractPlum pox virus (PPV) is the most damaging viral pathogen of stone fruits. The detection and identification of its strains are therefore of critical importance to plant quarantine and certification programs. Existing methods to screen strains of PPV suffer from significant limitations such as the simultaneous detection and genotyping of several strains of PPV in samples infected with different isolates of the virus. A genomic strategy for PPV screening based on the viral nucleotide sequence was developed to enable the detection and genotyping of the virus from infected plant tissue or biological samples. The basis of this approach is a long 70-mer oligonucleotide DNA microarray capable of simultaneously detecting and genotyping PPV strains. Several 70-mer oligonucleotide probes were specific for the detection and genotyping of individual PPV isolates to their strains. Other probes were specific for the detection and identification of two or three PPV strains. One probe (universal), derived from the genome highly conserved 3' non-translated region, detected all individual strains of PPV. This universal PPV probe, combined with probes specific for each known strain, could be used for new PPV strain discovery. Finally, indirect fluorescent labeling of cDNA with cyanine after cDNA synthesis enhanced the sensitivity of the virus detection without the use of the PCR amplification step. The PPV microarray detected and identified efficiently the PPV strains in PPV-infected peach, apricot and Nicotiana benthamiana leaves. This PPV detection method is versatile, and enables the simultaneous detection of plant pathogens. (C) 2007 Elsevier B.V. All rights reserved.en_US
dc.identifier.doi10.1016/j.jviromet.2007.08.019
dc.identifier.endpage126en_US
dc.identifier.issn0166-0934
dc.identifier.issn1879-0984
dc.identifier.issue1en_US
dc.identifier.pmid17920703en_US
dc.identifier.scopus2-s2.0-37049030618en_US
dc.identifier.scopusqualityQ2en_US
dc.identifier.startpage118en_US
dc.identifier.urihttps://doi.org/10.1016/j.jviromet.2007.08.019
dc.identifier.urihttps://hdl.handle.net/20.500.12483/9496
dc.identifier.volume147en_US
dc.identifier.wosWOS:000252686300016en_US
dc.identifier.wosqualityQ2en_US
dc.indekslendigikaynakWeb of Scienceen_US
dc.indekslendigikaynakScopusen_US
dc.indekslendigikaynakPubMeden_US
dc.language.isoenen_US
dc.publisherElsevieren_US
dc.relation.ispartofJournal of Virological Methodsen_US
dc.relation.publicationcategoryMakale - Uluslararası Hakemli Dergi - Kurum Öğretim Elemanıen_US
dc.rightsinfo:eu-repo/semantics/closedAccessen_US
dc.subjectdiagnosisen_US
dc.subjectgenotypingen_US
dc.subjectmicroarraysen_US
dc.subject70-mer oligonucleotide probeen_US
dc.subjectPlum pox virusen_US
dc.subjectPPV strainsen_US
dc.subjectPPV-Den_US
dc.subjectPPV-Men_US
dc.subjectPPV-Cen_US
dc.subjectPPV-EAen_US
dc.titleOligonucleotide microarray-based detection and genotyping of Plum pox virusen_US
dc.typeArticleen_US

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