Although more than 40 viruses infect Rubus spp., the most common one in Turkiye is Idaeovirus rubi (raspberry bushy dwarf virus) (RBDV). Besides raspberries, RBDV can infect blackberries and some hybrid berry fruits, causing stunting, yellowing of leaves, crumbly fruits, and sometimes latent infections. The first aim of this study was investigating of Rubus plants grown in the surveyed provinces and exhibiting virus-like symptoms for the presence of new emerging viruses such as strawberry necrotic shock virus (SNSV: Ilarvirus), blackberry chlorotic ringspot virus) (BCRV: Ilarvirus), black raspberry necrosis virus (Sadwavirus rubi: BRNV), blackberry yellow vein associated virus (Crinivirus rubi: BYVaV), raspberry leaf mottle virus (Closterovirus macularubi: RLMV) and already known viruses such as tomato ringspot virus (Nepovirus lycopersici: ToRSV) and tobacco ringspot virus (Nepovirus nicotianae :TRSV) by RT-PCR analysis. Second aim is whole genome analysis of Turkish RBDV isolates using high-throughput sequencing (HTS) and Sanger sequencing techniques. Survey studies were conducted in Hatay, Ankara, Bursa, Yalova, Bartın, Samsun, Isparta, Muğla and Rize provinces, and 26.7% of the 303 samples collected were found to be infected with RBDV, while no other viruses were detected. Nine RBDV-positive blackberry samples from Hatay province were pooled and subjected to virion-associated nucleic acid (VANA-HTS) method. Following HTS analysis, the complete genomes of Turkish RBDV isolates were determined. Several specific primer pairs were designed according to HTS results and the amlpicons were directly sequenced.
