High-throughput sequencing of Potato virus M from tomato in Slovakia reveals a divergent variant of the virus
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...
| Main Authors: | , , , , , , , , |
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| Format: | Artículo |
| Language: | Inglés |
| Published: |
Czech Academy of Agricultural Sciences
2020
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| Subjects: | |
| Online Access: | http://hdl.handle.net/20.500.11939/6471 https://www.agriculturejournals.cz/web/pps.htm?type=article&id=144_2018-PPS |
| Summary: | 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. |
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