Occurrence and Distribution Patterns of Plum Tree Viruses and Genetic Diversity of Sharka Isolates in Bosnia and Herzegovina
In order to fill in a decade-long information gap regarding the biological, serological and molecular data for plum tree viruses in Bosnia and Herzegovina, a three-phase study combining symptom evaluation, and serological and molecular assays with high-throughput sequencing (HTS) technology was cond...
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MDPI AG
2022-08-01
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| Series: | Horticulturae |
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| Online Access: | https://www.mdpi.com/2311-7524/8/9/783 |
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| author | Arnela Okić Thierry Wetzel Shaheen Nourinejhad Zarghani Sébastien Massart Jasmin Grahić Fuad Gaši Almira Konjić Darko Vončina |
| author_facet | Arnela Okić Thierry Wetzel Shaheen Nourinejhad Zarghani Sébastien Massart Jasmin Grahić Fuad Gaši Almira Konjić Darko Vončina |
| author_sort | Arnela Okić |
| collection | DOAJ |
| description | In order to fill in a decade-long information gap regarding the biological, serological and molecular data for plum tree viruses in Bosnia and Herzegovina, a three-phase study combining symptom evaluation, and serological and molecular assays with high-throughput sequencing (HTS) technology was conducted. The most frequently observed symptoms were discolorations in the form of ring patterns, bands and irregular shapes, as well as vein banding. Sharka-associated symptoms in the form of ring patterns and semicircles were prevalent. A total of 468 plum tree samples were tested by ELISA for the presence of PPV, ApMV, PDV, PNRSV, PBNSPaV, ACLSV and MLRSV. An overall infection incidence of 51.9% was detected, with PPV being the most prevalent (48.7%), followed by PDV (2.99%), PNRSV (0.21%) and mixed infections of PPV+PDV (1.71%). RT-PCR-assisted strain typing in 45 samples revealed PPV-D as the most common strain (22.22%), followed by PPV-REC (6.66%). Mixed infections of PPV-D+PPV-REC were detected (6.66%). HTS enabled the recovery of a 9743 nts long sequence of PPV-D (PPV_O7/80, MW412433), which shared the highest nucleotide and amino acid identities with isolates S13 (LC375131) from Serbia, SVN1 (LC375132) from Slovenia and N9 (LC375129) from Bulgaria. The phylogenetic analysis of the whole genome placed the isolate of the D strain in a distinctive group with the Slovenian isolate SVN1 (LC375132). In addition, the (Cter)NIb/(Nter)CP fragment of a PPV-REC isolate (MW412434) obtained in this survey formed a separate group with previously known isolates from Bosnia and Herzegovina (BOS64Pl and BOS257Pl). |
| first_indexed | 2024-03-09T23:51:37Z |
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| id | doaj.art-73f9905cb871473fa2ead49d3b9b5d4d |
| institution | Directory Open Access Journal |
| issn | 2311-7524 |
| language | English |
| last_indexed | 2024-03-09T23:51:37Z |
| publishDate | 2022-08-01 |
| publisher | MDPI AG |
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| series | Horticulturae |
| spelling | doaj.art-73f9905cb871473fa2ead49d3b9b5d4d2023-11-23T16:33:33ZengMDPI AGHorticulturae2311-75242022-08-018978310.3390/horticulturae8090783Occurrence and Distribution Patterns of Plum Tree Viruses and Genetic Diversity of Sharka Isolates in Bosnia and HerzegovinaArnela Okić0Thierry Wetzel1Shaheen Nourinejhad Zarghani2Sébastien Massart3Jasmin Grahić4Fuad Gaši5Almira Konjić6Darko Vončina7Faculty of Agriculture and Food Sciences, University of Sarajevo, Zmaja od Bosne 8, 71000 Sarajevo, Bosnia and HerzegovinaDLR Rheinpfalz, Institute of Plant Protection, Breitenweg 71, 67435 Neustadt an der Weinstrasse, GermanyDivision Phytomedicine, Albrecht Thaer-Institute for Crop and Animal Sciences, Humboldt-Universität zu Berlin, 14195 Berlin, GermanyDepartment of Plant Pathology, Université de Liège (ULg) Gembloux Agro-Bio Tech, Passage des Déportés, 5030 Gembloux, BelgiumFaculty of Agriculture and Food Sciences, University of Sarajevo, Zmaja od Bosne 8, 71000 Sarajevo, Bosnia and HerzegovinaFaculty of Agriculture and Food Sciences, University of Sarajevo, Zmaja od Bosne 8, 71000 Sarajevo, Bosnia and HerzegovinaFaculty of Agriculture and Food Sciences, University of Sarajevo, Zmaja od Bosne 8, 71000 Sarajevo, Bosnia and HerzegovinaDepartment of Plant Pathology, Faculty of Agriculture, University of Zagreb, Svetošimunska cesta 25, 10000 Zagreb, CroatiaIn order to fill in a decade-long information gap regarding the biological, serological and molecular data for plum tree viruses in Bosnia and Herzegovina, a three-phase study combining symptom evaluation, and serological and molecular assays with high-throughput sequencing (HTS) technology was conducted. The most frequently observed symptoms were discolorations in the form of ring patterns, bands and irregular shapes, as well as vein banding. Sharka-associated symptoms in the form of ring patterns and semicircles were prevalent. A total of 468 plum tree samples were tested by ELISA for the presence of PPV, ApMV, PDV, PNRSV, PBNSPaV, ACLSV and MLRSV. An overall infection incidence of 51.9% was detected, with PPV being the most prevalent (48.7%), followed by PDV (2.99%), PNRSV (0.21%) and mixed infections of PPV+PDV (1.71%). RT-PCR-assisted strain typing in 45 samples revealed PPV-D as the most common strain (22.22%), followed by PPV-REC (6.66%). Mixed infections of PPV-D+PPV-REC were detected (6.66%). HTS enabled the recovery of a 9743 nts long sequence of PPV-D (PPV_O7/80, MW412433), which shared the highest nucleotide and amino acid identities with isolates S13 (LC375131) from Serbia, SVN1 (LC375132) from Slovenia and N9 (LC375129) from Bulgaria. The phylogenetic analysis of the whole genome placed the isolate of the D strain in a distinctive group with the Slovenian isolate SVN1 (LC375132). In addition, the (Cter)NIb/(Nter)CP fragment of a PPV-REC isolate (MW412434) obtained in this survey formed a separate group with previously known isolates from Bosnia and Herzegovina (BOS64Pl and BOS257Pl).https://www.mdpi.com/2311-7524/8/9/783plant virusesvirus surveysymptom evaluationgenetic diversityplum pox virusapple mosaic virus |
| spellingShingle | Arnela Okić Thierry Wetzel Shaheen Nourinejhad Zarghani Sébastien Massart Jasmin Grahić Fuad Gaši Almira Konjić Darko Vončina Occurrence and Distribution Patterns of Plum Tree Viruses and Genetic Diversity of Sharka Isolates in Bosnia and Herzegovina Horticulturae plant viruses virus survey symptom evaluation genetic diversity plum pox virus apple mosaic virus |
| title | Occurrence and Distribution Patterns of Plum Tree Viruses and Genetic Diversity of Sharka Isolates in Bosnia and Herzegovina |
| title_full | Occurrence and Distribution Patterns of Plum Tree Viruses and Genetic Diversity of Sharka Isolates in Bosnia and Herzegovina |
| title_fullStr | Occurrence and Distribution Patterns of Plum Tree Viruses and Genetic Diversity of Sharka Isolates in Bosnia and Herzegovina |
| title_full_unstemmed | Occurrence and Distribution Patterns of Plum Tree Viruses and Genetic Diversity of Sharka Isolates in Bosnia and Herzegovina |
| title_short | Occurrence and Distribution Patterns of Plum Tree Viruses and Genetic Diversity of Sharka Isolates in Bosnia and Herzegovina |
| title_sort | occurrence and distribution patterns of plum tree viruses and genetic diversity of sharka isolates in bosnia and herzegovina |
| topic | plant viruses virus survey symptom evaluation genetic diversity plum pox virus apple mosaic virus |
| url | https://www.mdpi.com/2311-7524/8/9/783 |
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