High-Throughput Sequencing Facilitates Discovery of New Plant Viruses in Poland
Viruses cause epidemics on all major crops of agronomic importance, and a timely and accurate identification is essential for control. High throughput sequencing (HTS) is a technology that allows the identification of all viruses without prior knowledge on the targeted pathogens. In this paper, we u...
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| Format: | Article |
| Language: | English |
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MDPI AG
2020-06-01
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| Series: | Plants |
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| Online Access: | https://www.mdpi.com/2223-7747/9/7/820 |
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| author | Julia Minicka Aleksandra Zarzyńska-Nowak Daria Budzyńska Natasza Borodynko-Filas Beata Hasiów-Jaroszewska |
| author_facet | Julia Minicka Aleksandra Zarzyńska-Nowak Daria Budzyńska Natasza Borodynko-Filas Beata Hasiów-Jaroszewska |
| author_sort | Julia Minicka |
| collection | DOAJ |
| description | Viruses cause epidemics on all major crops of agronomic importance, and a timely and accurate identification is essential for control. High throughput sequencing (HTS) is a technology that allows the identification of all viruses without prior knowledge on the targeted pathogens. In this paper, we used HTS technique for the detection and identification of different viral species occurring in single and mixed infections in plants in Poland. We analysed various host plants representing different families. Within the 20 tested samples, we identified a total of 13 different virus species, including those whose presence has not been reported in Poland before: clover yellow mosaic virus (ClYMV) and melandrium yellow fleck virus (MYFV). Due to this new finding, the obtained sequences were compared with others retrieved from GenBank. In addition, cucurbit aphid-borne yellows virus (CABYV) was also detected, and due to the recent occurrence of this virus in Poland, a phylogenetic analysis of these new isolates was performed. The analysis revealed that CABYV population is highly diverse and the Polish isolates of CABYV belong to two different phylogenetic groups. Our results showed that HTS-based technology is a valuable diagnostic tool for the identification of different virus species originating from variable hosts, and can provide rapid information about the spectrum of plant viruses previously not detected in a region. |
| first_indexed | 2024-03-10T18:48:36Z |
| format | Article |
| id | doaj.art-a799c12614b6483a8d36f8ccdcbf9572 |
| institution | Directory Open Access Journal |
| issn | 2223-7747 |
| language | English |
| last_indexed | 2024-03-10T18:48:36Z |
| publishDate | 2020-06-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Plants |
| spelling | doaj.art-a799c12614b6483a8d36f8ccdcbf95722023-11-20T05:20:13ZengMDPI AGPlants2223-77472020-06-019782010.3390/plants9070820High-Throughput Sequencing Facilitates Discovery of New Plant Viruses in PolandJulia Minicka0Aleksandra Zarzyńska-Nowak1Daria Budzyńska2Natasza Borodynko-Filas3Beata Hasiów-Jaroszewska4Department of Virology and Bacteriology, Institute of Plant Protection–National Research Institute, Wegorka 20, 60-318 Poznan, PolandDepartment of Virology and Bacteriology, Institute of Plant Protection–National Research Institute, Wegorka 20, 60-318 Poznan, PolandDepartment of Virology and Bacteriology, Institute of Plant Protection–National Research Institute, Wegorka 20, 60-318 Poznan, PolandPlant Disease Clinic and Bank of Pathogens, Institute of Plant Protection–National Research Institute, Wegorka 20, 60-318 Poznan, PolandDepartment of Virology and Bacteriology, Institute of Plant Protection–National Research Institute, Wegorka 20, 60-318 Poznan, PolandViruses cause epidemics on all major crops of agronomic importance, and a timely and accurate identification is essential for control. High throughput sequencing (HTS) is a technology that allows the identification of all viruses without prior knowledge on the targeted pathogens. In this paper, we used HTS technique for the detection and identification of different viral species occurring in single and mixed infections in plants in Poland. We analysed various host plants representing different families. Within the 20 tested samples, we identified a total of 13 different virus species, including those whose presence has not been reported in Poland before: clover yellow mosaic virus (ClYMV) and melandrium yellow fleck virus (MYFV). Due to this new finding, the obtained sequences were compared with others retrieved from GenBank. In addition, cucurbit aphid-borne yellows virus (CABYV) was also detected, and due to the recent occurrence of this virus in Poland, a phylogenetic analysis of these new isolates was performed. The analysis revealed that CABYV population is highly diverse and the Polish isolates of CABYV belong to two different phylogenetic groups. Our results showed that HTS-based technology is a valuable diagnostic tool for the identification of different virus species originating from variable hosts, and can provide rapid information about the spectrum of plant viruses previously not detected in a region.https://www.mdpi.com/2223-7747/9/7/820virusvirus identificationhigh-throughput sequencingphylogenetic analysis |
| spellingShingle | Julia Minicka Aleksandra Zarzyńska-Nowak Daria Budzyńska Natasza Borodynko-Filas Beata Hasiów-Jaroszewska High-Throughput Sequencing Facilitates Discovery of New Plant Viruses in Poland Plants virus virus identification high-throughput sequencing phylogenetic analysis |
| title | High-Throughput Sequencing Facilitates Discovery of New Plant Viruses in Poland |
| title_full | High-Throughput Sequencing Facilitates Discovery of New Plant Viruses in Poland |
| title_fullStr | High-Throughput Sequencing Facilitates Discovery of New Plant Viruses in Poland |
| title_full_unstemmed | High-Throughput Sequencing Facilitates Discovery of New Plant Viruses in Poland |
| title_short | High-Throughput Sequencing Facilitates Discovery of New Plant Viruses in Poland |
| title_sort | high throughput sequencing facilitates discovery of new plant viruses in poland |
| topic | virus virus identification high-throughput sequencing phylogenetic analysis |
| url | https://www.mdpi.com/2223-7747/9/7/820 |
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