Viruses (2021) 13 (12 - 2432)

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Emiliya Navrotskaya, Elena Porotikova, Eugeniya Yurchenko, Zsuzsanna Nagyne Galbacs, Eva Varallyay and Svetlana Vinogradova (2021)
High-throughput sequencing of small RNAs for diagnostics of grapevine viruses and viroids in Russia
Viruses 13 (12 - 2432)
Abstract: The use of high-throughput sequencing (HTS) technology has led to significant progress in the identification of many viruses and their genetic variants. In this study, we used the HTS platform to sequence small RNAs (sRNAs) of grapevine to study the virome. Isolation of RNA was performed using symptomatic grapevines collected from commercial vineyards in Krasnodar Krai in 2017–2018. To determine the viromes of vineyards, we used an integrated approach that included a bioinformatic analysis of the results of sRNA HTS and the molecular method RT-PCR, which made it possible to identify 13 viruses and 4 viroids. Grapevine leafroll-associated virus 4 (GLRaV-4), Grapevine Syrah Virus-1 (GSyV-1), Raspberry bushy dwarf virus (RBDV), Australian grapevine viroid (AGVd), and Grapevine yellow speckle viroid 2 (GYSVd-2) were identified for the first time in Russia. Out of 38 samples analyzed, 37 had mixed infections with 4–11 viruses, indicating a high viral load. Analysis of the obtained sequences of fragments of virus genomes made it possible to identify recombination events in GLRaV-1, GLRaV-2, GLRaV-3, GLRaV-4, GVT, GPGV, GRSPaV, GVA, and GFLV. The obtained results indicate a wide spread of the viruses and a high genetic diversity in the vineyards of Krasnodar Krai and emphasize the urgent need to develop and implement long-term strategies for the control of viral grapevine diseases.
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Research topic(s) for pests/diseases/weeds:
surveys/sampling/distribution


Pest and/or beneficial records:

Beneficial Pest/Disease/Weed Crop/Product Country Quarant.


Grapevine leafroll-associated virus 3 Grapevine (Vitis) Russia (Eur.)
Grapevine leafroll-associated virus 2 Grapevine (Vitis) Russia (Eur.)
Nepovirus foliumflabelli Grapevine (Vitis) Russia (Eur.)
Idaeovirus rubi Grapevine (Vitis) Russia (Eur.)
Maculavirus vitis Grapevine (Vitis) Russia (Eur.)
Grapevine rupestris stem pitting-associated virus Grapevine (Vitis) Russia (Eur.)
Grapevine virus A Grapevine (Vitis) Russia (Eur.)
Hop stunt viroid Grapevine (Vitis) Russia (Eur.)
Grapevine yellow speckle viroid 1 Grapevine (Vitis) Russia (Eur.)
Australian grapevine viroid Grapevine (Vitis) Russia (Eur.)
Grapevine leafroll-associated virus 1 Grapevine (Vitis) Russia (Eur.)
Grapevine rupestris vein feathering virus Grapevine (Vitis) Russia (Eur.)
Grapevine leafroll-associated virus 4 Grapevine (Vitis) Russia (Eur.)
Grapevine yellow speckle viroid 2 Grapevine (Vitis) Russia (Eur.)
Marafivirus syrahense Grapevine (Vitis) Russia (Eur.)
Grapevine Pinot gris virus Grapevine (Vitis) Russia (Eur.)
Grapevine virus T Grapevine (Vitis) Russia (Eur.)