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Prune dwarf virus (PDV), a pathogen of stone fruit trees worldwide, shows a great variability in its biological, serological and molecular properties. The coat protein sequences of ten PDV variants from different stone fruit tree species in Turkey were determined. The sequence for each variant was 657 nucleotides in length. The phylogenetic analyses of the sequences of the Turkish variants and of additional sequences of other PDV variants from international databases indicate the existence of four groups of PDV variants: one contains cherry variants that differs in group specific conserved amino acids; a second contains one apricot and cherry variants, most members of the group being Turkish variants; a third contains mixed variants from cherry, peach, plum trees and an almond tree; and a fourth contains only variants from almond trees. Based on their hosts, we propose the nomenclature of these groups as cherry I, cherry II, mixed and almond groups, respectively.

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Apple mosaic virus (ApMV) is one of the most important diseases limiting the production of hazelnut and apple in Turkey and the objectives of this research were to determine the convenient and reliable method for RNA isolation and also to determine primer pair for real time polymerase chain reaction (RT-PCR) detection of coat protein gene for Turkish ApMV isolates. Apple mosaic virus isolates were collected in 2007 to 2010 and the presence of the pathogen was detected by double antibody sandwich enzyme-linked immunosorbent assay (DAS-ELISA) and RT-PCR tests. Six different RNA extraction protocols and three primer pairs were applied in RT-PCR amplifications and 44 hazelnut and 15 apple ApMV isolates were obtained. All of the amplicons were subjected to enzymatic digestion with restriction endonuclease enzymes and phylogenetic analysis were performed according to the digestion profiles.

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