High-throughput sequencing of Potato virus M from tomato in Slovakia reveals a divergent variant of the virus
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AuthorGlasa, Miroslav; Soltys, Katarína; Predajna, Lukás; Sihelská, Nina; Budis, Jaroslav; Mrkvová, Michaela; Kraic, Ján; Mihálik, Daniel; Ruiz-García, Ana Belén
Cita bibliográficaGlasa, M., Šoltys, K., Predajňa, L., Sihelská, N., Budiš, J., Mrkvová, M., ... & Ruiz-García, A. B. (2019). High-throughput sequencing of Potato virus M from tomato in Slovakia reveals a divergent variant of the virus. Plant Protection Science, 55(3), 159-166.
High-throughput sequencing (HTS) analysis of tomato (Solanum lycopersicum) samples revealed the presence of Potato virus M (PVM) in this crop in Slovakia. Full-length genomes of three PVM isolates were obtained using both HTS and Sanger sequencing validation. While two isolates (T40 and T50) were shown to belong to major Group I, a divergent T20 isolate was phylogenetically unrelated to any known PVM variant, potentially representing a new phylogenetic group. Despite a relatively high intraspecies diversity (17.3 ± 0.3%), no evidence of recombination was detected in the dataset of available complete PVM sequences. Conventional screening of tomato plants in Slovakia using ELISA and RT-PCR further confirmed a frequent occurrence of PVM in this host. Developed RT-PCR showed its polyvalence to detect the PVM Group I isolates, however, in silico analysis of primer binding sites indicated its compromised use for Group II isolates. Our results further pinpoint the significance of HTS for unbiased unveiling of virus diversity and a need for continual optimisation of molecular detection tools.