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...
| Autores principales: | , , , , , , , , |
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| Formato: | Artículo |
| Lenguaje: | Inglés |
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Czech Academy of Agricultural Sciences
2020
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| Acceso en línea: | http://hdl.handle.net/20.500.11939/6471 https://www.agriculturejournals.cz/web/pps.htm?type=article&id=144_2018-PPS |
| _version_ | 1855492090659602432 |
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| author | Glasa, Miroslav Soltys, Katarína Predajna, Lukas Sihelská, Nina Budis, Jaroslav Mrkvová, Michaela Kraic, Ján Mihálik, Daniel Ruiz-García, Ana B. |
| author_browse | Budis, Jaroslav Glasa, Miroslav Kraic, Ján Mihálik, Daniel Mrkvová, Michaela Predajna, Lukas Ruiz-García, Ana B. Sihelská, Nina Soltys, Katarína |
| author_facet | Glasa, Miroslav Soltys, Katarína Predajna, Lukas Sihelská, Nina Budis, Jaroslav Mrkvová, Michaela Kraic, Ján Mihálik, Daniel Ruiz-García, Ana B. |
| author_sort | Glasa, Miroslav |
| collection | ReDivia |
| description | 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. |
| format | Artículo |
| id | ReDivia6471 |
| institution | Instituto Valenciano de Investigaciones Agrarias (IVIA) |
| language | Inglés |
| publishDate | 2020 |
| publishDateRange | 2020 |
| publishDateSort | 2020 |
| publisher | Czech Academy of Agricultural Sciences |
| publisherStr | Czech Academy of Agricultural Sciences |
| record_format | dspace |
| spelling | ReDivia64712025-04-25T14:47:11Z High-throughput sequencing of Potato virus M from tomato in Slovakia reveals a divergent variant of the virus Glasa, Miroslav Soltys, Katarína Predajna, Lukas Sihelská, Nina Budis, Jaroslav Mrkvová, Michaela Kraic, Ján Mihálik, Daniel Ruiz-García, Ana B. Potato Virus M Full-length genome RT-PCR Phylogenetical diversity H20 Plant diseases Solanum lycopersicum Carlaviruses 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. 2020-05-27T08:55:52Z 2020-05-27T08:55:52Z 2019 article publishedVersion Glasa, 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. 1212-2580 http://hdl.handle.net/20.500.11939/6471 10.17221/144/2018-PPS https://www.agriculturejournals.cz/web/pps.htm?type=article&id=144_2018-PPS en Atribución-NoComercial-SinDerivadas 3.0 España http://creativecommons.org/licenses/by-nc-nd/3.0/es/ Czech Academy of Agricultural Sciences electronico |
| spellingShingle | Potato Virus M Full-length genome RT-PCR Phylogenetical diversity H20 Plant diseases Solanum lycopersicum Carlaviruses Glasa, Miroslav Soltys, Katarína Predajna, Lukas Sihelská, Nina Budis, Jaroslav Mrkvová, Michaela Kraic, Ján Mihálik, Daniel Ruiz-García, Ana B. High-throughput sequencing of Potato virus M from tomato in Slovakia reveals a divergent variant of the virus |
| title | High-throughput sequencing of Potato virus M from tomato in Slovakia reveals a divergent variant of the virus |
| title_full | High-throughput sequencing of Potato virus M from tomato in Slovakia reveals a divergent variant of the virus |
| title_fullStr | High-throughput sequencing of Potato virus M from tomato in Slovakia reveals a divergent variant of the virus |
| title_full_unstemmed | High-throughput sequencing of Potato virus M from tomato in Slovakia reveals a divergent variant of the virus |
| title_short | High-throughput sequencing of Potato virus M from tomato in Slovakia reveals a divergent variant of the virus |
| title_sort | high throughput sequencing of potato virus m from tomato in slovakia reveals a divergent variant of the virus |
| topic | Potato Virus M Full-length genome RT-PCR Phylogenetical diversity H20 Plant diseases Solanum lycopersicum Carlaviruses |
| url | http://hdl.handle.net/20.500.11939/6471 https://www.agriculturejournals.cz/web/pps.htm?type=article&id=144_2018-PPS |
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