Discovery of Known and Novel Viruses in Wild and Cultivated Blueberry in Florida through Viral Metagenomic Approaches
Southern highbush blueberry (interspecific hybrids of <i>Vaccinium corymbosum</i> L.) is cultivated near wild <i>V. corymbosum</i> as well as closely related species in Florida, USA. The expansion of blueberry cultivation into new areas in Florida and deployment of new cultiv...
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| Format: | Article |
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MDPI AG
2021-06-01
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| Series: | Viruses |
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| Online Access: | https://www.mdpi.com/1999-4915/13/6/1165 |
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| author | Norsazilawati Saad James W. Olmstead Arvind Varsani Jane E. Polston Jeffrey B. Jones Svetlana Y. Folimonova Philip F. Harmon |
| author_facet | Norsazilawati Saad James W. Olmstead Arvind Varsani Jane E. Polston Jeffrey B. Jones Svetlana Y. Folimonova Philip F. Harmon |
| author_sort | Norsazilawati Saad |
| collection | DOAJ |
| description | Southern highbush blueberry (interspecific hybrids of <i>Vaccinium corymbosum</i> L.) is cultivated near wild <i>V. corymbosum</i> as well as closely related species in Florida, USA. The expansion of blueberry cultivation into new areas in Florida and deployment of new cultivars containing viruses can potentially increase the diversity of viruses in wild and cultivated <i>V. corymbosum</i>. In this study, viral diversity in wild and cultivated blueberries (<i>V. corymbosum</i>) is described using a metagenomic approach. RNA viromes from <i>V. corymbosum</i> plants collected from six locations (two cultivated and four wild) in North Central Florida were generated by high throughput sequencing (HTS) and analyzed using a bioinformatic analysis pipeline. <i>De novo</i> assembled contigs obtained from viromes of both commercial and wild sites produced sequences with similarities to plant virus species from a diverse range of families (<i>Amalgaviridae</i>, <i>Caulimoviridae</i>, <i>Endornaviridae</i>, <i>Ophioviridae</i>, <i>Phenuiviridae</i>, <i>and Virgaviridae</i>). In addition, this study has enabled the identification of blueberry latent virus (BlLV) and blueberry mosaic associated ophiovirus (BlMaV) for the first time in Florida, as well as a tentative novel tepovirus (blueberry virus T) (BlVT) in blueberry. To the best of our knowledge, this is the first study that compares viral diversity in wild and cultivated blueberry using a metagenomic approach. |
| first_indexed | 2024-03-10T10:18:30Z |
| format | Article |
| id | doaj.art-70a3fe2ef7794b4ea188054e150d72a1 |
| institution | Directory Open Access Journal |
| issn | 1999-4915 |
| language | English |
| last_indexed | 2024-03-10T10:18:30Z |
| publishDate | 2021-06-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Viruses |
| spelling | doaj.art-70a3fe2ef7794b4ea188054e150d72a12023-11-22T00:37:21ZengMDPI AGViruses1999-49152021-06-01136116510.3390/v13061165Discovery of Known and Novel Viruses in Wild and Cultivated Blueberry in Florida through Viral Metagenomic ApproachesNorsazilawati Saad0James W. Olmstead1Arvind Varsani2Jane E. Polston3Jeffrey B. Jones4Svetlana Y. Folimonova5Philip F. Harmon6Department of Plant Pathology, University of Florida, Gainesville, FL 32611, USAHorticultural Sciences Department, University of Florida, Gainesville, FL 32611, USAThe Biodesign Center of Fundamental and Applied Microbiomics, School of Life Sciences, Center for Evolution and Medicine, Arizona State University, 1001 S. McAllister Ave, Tempe, AZ 85287, USADepartment of Plant Pathology, University of Florida, Gainesville, FL 32611, USADepartment of Plant Pathology, University of Florida, Gainesville, FL 32611, USADepartment of Plant Pathology, University of Florida, Gainesville, FL 32611, USADepartment of Plant Pathology, University of Florida, Gainesville, FL 32611, USASouthern highbush blueberry (interspecific hybrids of <i>Vaccinium corymbosum</i> L.) is cultivated near wild <i>V. corymbosum</i> as well as closely related species in Florida, USA. The expansion of blueberry cultivation into new areas in Florida and deployment of new cultivars containing viruses can potentially increase the diversity of viruses in wild and cultivated <i>V. corymbosum</i>. In this study, viral diversity in wild and cultivated blueberries (<i>V. corymbosum</i>) is described using a metagenomic approach. RNA viromes from <i>V. corymbosum</i> plants collected from six locations (two cultivated and four wild) in North Central Florida were generated by high throughput sequencing (HTS) and analyzed using a bioinformatic analysis pipeline. <i>De novo</i> assembled contigs obtained from viromes of both commercial and wild sites produced sequences with similarities to plant virus species from a diverse range of families (<i>Amalgaviridae</i>, <i>Caulimoviridae</i>, <i>Endornaviridae</i>, <i>Ophioviridae</i>, <i>Phenuiviridae</i>, <i>and Virgaviridae</i>). In addition, this study has enabled the identification of blueberry latent virus (BlLV) and blueberry mosaic associated ophiovirus (BlMaV) for the first time in Florida, as well as a tentative novel tepovirus (blueberry virus T) (BlVT) in blueberry. To the best of our knowledge, this is the first study that compares viral diversity in wild and cultivated blueberry using a metagenomic approach.https://www.mdpi.com/1999-4915/13/6/1165metagenomicsviromesblueberryFlorida |
| spellingShingle | Norsazilawati Saad James W. Olmstead Arvind Varsani Jane E. Polston Jeffrey B. Jones Svetlana Y. Folimonova Philip F. Harmon Discovery of Known and Novel Viruses in Wild and Cultivated Blueberry in Florida through Viral Metagenomic Approaches Viruses metagenomics viromes blueberry Florida |
| title | Discovery of Known and Novel Viruses in Wild and Cultivated Blueberry in Florida through Viral Metagenomic Approaches |
| title_full | Discovery of Known and Novel Viruses in Wild and Cultivated Blueberry in Florida through Viral Metagenomic Approaches |
| title_fullStr | Discovery of Known and Novel Viruses in Wild and Cultivated Blueberry in Florida through Viral Metagenomic Approaches |
| title_full_unstemmed | Discovery of Known and Novel Viruses in Wild and Cultivated Blueberry in Florida through Viral Metagenomic Approaches |
| title_short | Discovery of Known and Novel Viruses in Wild and Cultivated Blueberry in Florida through Viral Metagenomic Approaches |
| title_sort | discovery of known and novel viruses in wild and cultivated blueberry in florida through viral metagenomic approaches |
| topic | metagenomics viromes blueberry Florida |
| url | https://www.mdpi.com/1999-4915/13/6/1165 |
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