Browsing by Subject "rubus yellow net virus"

Raspberry is prone to virus infections but diversity and occurrence of different raspberry viruses in Finland is still largely unknown. The purpose of this thesis work was to reveal which viruses are troubling raspberry varieties that are part of Finnish raspberry genetic resources and have been maintained in vivo on the field. The study also examines and compares siRNA diagnostics to traditional PCR method in detection of raspberry viruses. PCR, cloning, and traditional Sanger sequencing are used to get more detailed information of the virus strains, and scratch the surface of phylogenetic diversity of raspberry viruses that were detected in this study. siRNA detection of was accurate and effective with Black raspberry necrosis virus (BRNV), Raspberry bushy dwarf virus (RBDV) and Rubus yellow net virus (RYNV), but VirusDetect program couldn’t find Raspberry vein chlorosis virus (RVCV) that was positive in Velvet analysis and molecular diagnostics. Sequencing and phylogenetic analysis revealed RYNV strain that was like Canadian isolate (KF241951.1). Many new Badnavirus-like sequences were detected, but possible integration of Badnaviruses into raspberry genome was not excluded in this study. BRNV isolates were closely related to previously detected Finnish BRNV isolates. RVCV isolates grouped to three clades where RVCV from sample 21 was the most similar to formerly sequenced Scottish isolate (FN812699.2). Multiple viral infections were detected in one sample amongst these raspberry varieties, which may indicate different kinds of virus-virus interactions. The most important finding of this study was that RYNV and RVCV are present in Finland. Secondly all the detected raspberry viruses are genetically diverse and multiple infections of detected virus species are common.