The Plant Negative-Sense RNA Virosphere: Virus Discovery Through New Eyes
The use of high-throughput sequencing (HTS) for virus diagnostics, as well as the importance of this technology as a valuable tool for discovery of novel viruses has been extensively investigated. In this review, we consider the application of HTS approaches to uncover novel plant viruses with a foc...
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| Format: | info:ar-repo/semantics/artículo |
| Language: | Inglés |
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Frontiers Media
2020
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| Online Access: | http://hdl.handle.net/20.500.12123/8354 https://www.frontiersin.org/articles/10.3389/fmicb.2020.588427/full https://doi.org/10.3389/fmicb.2020.588427 |
| _version_ | 1855036020656963584 |
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| author | Bejerman, Nicolas Esteban Debat, Humberto Julio Dietzgen, Ralf Georg |
| author_browse | Bejerman, Nicolas Esteban Debat, Humberto Julio Dietzgen, Ralf Georg |
| author_facet | Bejerman, Nicolas Esteban Debat, Humberto Julio Dietzgen, Ralf Georg |
| author_sort | Bejerman, Nicolas Esteban |
| collection | INTA Digital |
| description | The use of high-throughput sequencing (HTS) for virus diagnostics, as well as the importance of this technology as a valuable tool for discovery of novel viruses has been extensively investigated. In this review, we consider the application of HTS approaches to uncover novel plant viruses with a focus on the negative-sense, single-stranded
RNA virosphere. Plant viruses with negative-sense and ambisense RNA (NSR) genomes belong to several taxonomic families, including Rhabdoviridae, Aspiviridae, Fimoviridae,
Tospoviridae, and Phenuiviridae. They include both emergent pathogens that infect a wide range of plant species, and potential endophytes which appear not to induce any visible symptoms. As a consequence of biased sampling based on a narrow focus on crops with disease symptoms, the number of NSR plant viruses identified so far represents only a fraction of this type of viruses present in the virosphere. Detection and molecular characterization of NSR viruses has often been challenging,
but the widespread implementation of HTS has facilitated not only the identification but also the characterization of the genomic sequences of at least 70 NSR plant
viruses in the last 7 years. Moreover, continuing advances in HTS technologies and bioinformatic pipelines, concomitant with a significant cost reduction has led to its use as a routine method of choice, supporting the foundations of a diverse array of novel applications such as quarantine analysis of traded plant materials and genetic
resources, virus detection in insect vectors, analysis of virus communities in individual plants, and assessment of virus evolution through ecogenomics, among others. The insights from these advancements are shedding new light on the extensive diversity of NSR plant viruses and their complex evolution, and provide an essential framework for
improved taxonomic classification of plant NSR viruses as part of the realm Riboviria. Thus, HTS-based methods for virus discovery, our ‘new eyes,’ are unraveling in real time the richness and magnitude of the plant RNA virosphere. |
| format | info:ar-repo/semantics/artículo |
| id | INTA8354 |
| institution | Instituto Nacional de Tecnología Agropecuaria (INTA -Argentina) |
| language | Inglés |
| publishDate | 2020 |
| publishDateRange | 2020 |
| publishDateSort | 2020 |
| publisher | Frontiers Media |
| publisherStr | Frontiers Media |
| record_format | dspace |
| spelling | INTA83542025-07-18T13:36:28Z The Plant Negative-Sense RNA Virosphere: Virus Discovery Through New Eyes Bejerman, Nicolas Esteban Debat, Humberto Julio Dietzgen, Ralf Georg HTS Virus De Las Plantas Plant Viruses Virus Discovery Plant NSR Viruses Virosphere Bioinformactics The use of high-throughput sequencing (HTS) for virus diagnostics, as well as the importance of this technology as a valuable tool for discovery of novel viruses has been extensively investigated. In this review, we consider the application of HTS approaches to uncover novel plant viruses with a focus on the negative-sense, single-stranded RNA virosphere. Plant viruses with negative-sense and ambisense RNA (NSR) genomes belong to several taxonomic families, including Rhabdoviridae, Aspiviridae, Fimoviridae, Tospoviridae, and Phenuiviridae. They include both emergent pathogens that infect a wide range of plant species, and potential endophytes which appear not to induce any visible symptoms. As a consequence of biased sampling based on a narrow focus on crops with disease symptoms, the number of NSR plant viruses identified so far represents only a fraction of this type of viruses present in the virosphere. Detection and molecular characterization of NSR viruses has often been challenging, but the widespread implementation of HTS has facilitated not only the identification but also the characterization of the genomic sequences of at least 70 NSR plant viruses in the last 7 years. Moreover, continuing advances in HTS technologies and bioinformatic pipelines, concomitant with a significant cost reduction has led to its use as a routine method of choice, supporting the foundations of a diverse array of novel applications such as quarantine analysis of traded plant materials and genetic resources, virus detection in insect vectors, analysis of virus communities in individual plants, and assessment of virus evolution through ecogenomics, among others. The insights from these advancements are shedding new light on the extensive diversity of NSR plant viruses and their complex evolution, and provide an essential framework for improved taxonomic classification of plant NSR viruses as part of the realm Riboviria. Thus, HTS-based methods for virus discovery, our ‘new eyes,’ are unraveling in real time the richness and magnitude of the plant RNA virosphere. Instituto de Patología Vegetal Fil: Bejerman, Nicolas Esteban. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Patología Vegetal; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas. Unidad de Fitopatología y Modelización Agrícola (UFYMA); Argentina Fil: Debat, Humberto Julio. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Patología Vegetal; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas. Unidad de Fitopatología y Modelización Agrícola (UFYMA); Argentina Fil: Dietzgen, Ralf G. University of Queensland. Queensland Alliance for Agriculture and Food Innovation; Australia 2020-12-01T16:16:09Z 2020-12-01T16:16:09Z 2020-09-16 info:ar-repo/semantics/artículo info:eu-repo/semantics/article info:eu-repo/semantics/publishedVersion http://hdl.handle.net/20.500.12123/8354 https://www.frontiersin.org/articles/10.3389/fmicb.2020.588427/full 1664-302X https://doi.org/10.3389/fmicb.2020.588427 eng info:eu-repo/semantics/openAccess http://creativecommons.org/licenses/by-nc-sa/4.0/ Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC BY-NC-SA 4.0) application/pdf Frontiers Media Frontiers in Microbiology 11: 588427 (2020) |
| spellingShingle | HTS Virus De Las Plantas Plant Viruses Virus Discovery Plant NSR Viruses Virosphere Bioinformactics Bejerman, Nicolas Esteban Debat, Humberto Julio Dietzgen, Ralf Georg The Plant Negative-Sense RNA Virosphere: Virus Discovery Through New Eyes |
| title | The Plant Negative-Sense RNA Virosphere: Virus Discovery Through New Eyes |
| title_full | The Plant Negative-Sense RNA Virosphere: Virus Discovery Through New Eyes |
| title_fullStr | The Plant Negative-Sense RNA Virosphere: Virus Discovery Through New Eyes |
| title_full_unstemmed | The Plant Negative-Sense RNA Virosphere: Virus Discovery Through New Eyes |
| title_short | The Plant Negative-Sense RNA Virosphere: Virus Discovery Through New Eyes |
| title_sort | plant negative sense rna virosphere virus discovery through new eyes |
| topic | HTS Virus De Las Plantas Plant Viruses Virus Discovery Plant NSR Viruses Virosphere Bioinformactics |
| url | http://hdl.handle.net/20.500.12123/8354 https://www.frontiersin.org/articles/10.3389/fmicb.2020.588427/full https://doi.org/10.3389/fmicb.2020.588427 |
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