20.500.12556/RUL-136449 Small RNA sequencing and multiplex RT-PCR for diagnostics of grapevine viruses and virus-like organisms Metagenomic approaches used for virus diagnostics allow for rapid and accurate detection of all viral pathogens in the plants. In order to investigate the occurrence of viruses and virus-like organisms infecting grapevine from the Ampelographic collection Kromberk in Slovenia, we used Ion Torrent small RNA sequencing (sRNA-seq) and the VirusDetect pipeline to analyze the sRNA-seq data. The used method revealed the presence of: Grapevine leafroll-associated virus 1 (GLRaV-1), Grapevine leafroll-associated virus 2 (GLRaV-2), Grapevine leafroll-associated virus 3 (GLRaV-3), Grapevine rupestris stem pitting-associated virus (GRSPaV), Grapevine fanleaf virus (GFLV) and its satellite RNA (satGFLV), Grapevine fleck virus (GFkV), Grapevine rupestris vein feathering virus (GRVFV), Grapevine Pinot gris virus (GPGV), Grapevine satellite virus (GV-Sat), Hop stunt viroid (HSVd), and Grapevine yellow speckle viroid 1 (GYSVd-1). Multiplex reverse transcription-polymerase chain reaction (mRT-PCR) was developed for validation of sRNA-seq predicted infections, including various combinations of viruses or viroids and satellite RNA. mRT-PCR could further be used for rapid and cost-effective routine molecular diagnosis, including widespread, emerging, and seemingly rare viruses, as well as viroids which testing is usually overlooked. Vitis vinifera L. grapevine virome metagenomic analysis viruses sRNA-seq molecular diagnostics mRT-PCR vinska trta virusne bolezni virusi viroidi molekularna diagnostika metagenomska analiza true false true Angleški jezik Slovenski jezik Članek v reviji 2022-05-04 14:50:20 2022-05-04 14:50:25 2023-05-16 03:32:37 0000-00-00 00:00:00 2022 0 0 11 str. iss. 5, art. 921 Vol. 14 2022 0000-00-00 Zaloznikova Objavljeno NiDoloceno 0000-00-00 0000-00-00 0000-00-00 577.2 1999-4915 10.3390/v14050921 106521859 viruses-14-00921-v4.pdf viruses-14-00921-v4.pdf 1 B0B1AD0A6395B209DB765FC1BD362BFC db703bc04bd06d71c01a0f8469a2bcc7ecdb42c7418c7c0baf946d6b2ea5b95b 685aa372-f30a-11ed-a314-00155dcfd717 https://repozitorij.uni-lj.si/Dokument.php?lang=slv&id=168821 https://www.mdpi.com/1999-4915/14/5/921 0 acb73f38-cba8-11ec-8aca-00155dcfd717 https://repozitorij.uni-lj.si/Dokument.php?lang=slv&id=156112 Biotehniška fakulteta 0 0 0