Detection of plant viruses and disease management: relevance of genetic diversity and evolution
Plant viruses cause considerable economic losses and are a threat for sustainable agriculture. The frequent emergence of new viral diseases is mainly due to international trade, climate change, and the ability of viruses for rapid evolution. Disease control is based on two strategies: i) immunizatio...
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| Formato: | publishedVersion |
| Lenguaje: | Inglés |
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Frontiers Media
2020
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| Acceso en línea: | http://hdl.handle.net/20.500.11939/6564 https://www.frontiersin.org/articles/10.3389/fpls.2020.01092/full |
| _version_ | 1855032449562574848 |
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| author | Rubio, Luis Galipienso, Luis Ferriol, Inmaculada |
| author_browse | Ferriol, Inmaculada Galipienso, Luis Rubio, Luis |
| author_facet | Rubio, Luis Galipienso, Luis Ferriol, Inmaculada |
| author_sort | Rubio, Luis |
| collection | ReDivia |
| description | Plant viruses cause considerable economic losses and are a threat for sustainable agriculture. The frequent emergence of new viral diseases is mainly due to international trade, climate change, and the ability of viruses for rapid evolution. Disease control is based on two strategies: i) immunization (genetic resistance obtained by plant breeding, plant transformation, cross-protection, or others), and ii) prophylaxis to restrain virus dispersion (using quarantine, certification, removal of infected plants, control of natural vectors, or other procedures). Disease management relies strongly on a fast and accurate identification of the causal agent. For known viruses, diagnosis consists in assigning a virus infecting a plant sample to a group of viruses sharing common characteristics, which is usually referred to as species. However, the specificity of diagnosis can also reach higher taxonomic levels, as genus or family, or lower levels, as strain or variant. Diagnostic procedures must be optimized for accuracy by detecting the maximum number of members within the group (sensitivity as the true positive rate) and distinguishing them from outgroup viruses (specificity as the true negative rate). This requires information on the genetic relationships within-group and with members of other groups. The influence of the genetic diversity of virus populations in diagnosis and disease management is well documented, but information on how to integrate the genetic diversity in the detection methods is still scarce. Here we review the techniques used for plant virus diagnosis and disease control, including characteristics such as accuracy, detection level, multiplexing, quantification, portability, and designability. The effect of genetic diversity and evolution of plant viruses in the design and performance of some detection and disease control techniques are also discussed. High-throughput or next-generation sequencing provides broad-spectrum and accurate identification of viruses enabling multiplex detection, quantification, and the discovery of new viruses. Likely, this technique will be the future standard in diagnostics as its cost will be dropping and becoming more affordable. |
| format | publishedVersion |
| id | ReDivia6564 |
| institution | Instituto Valenciano de Investigaciones Agrarias (IVIA) |
| language | Inglés |
| publishDate | 2020 |
| publishDateRange | 2020 |
| publishDateSort | 2020 |
| publisher | Frontiers Media |
| publisherStr | Frontiers Media |
| record_format | dspace |
| spelling | ReDivia65642025-04-25T14:47:23Z Detection of plant viruses and disease management: relevance of genetic diversity and evolution Rubio, Luis Galipienso, Luis Ferriol, Inmaculada Loop-mediated isothermal amplification, Sequencing Multiplexing Sensitivity Diagnosis H20 Plant diseases Hybridizing PCR sensitivity Plant viruses cause considerable economic losses and are a threat for sustainable agriculture. The frequent emergence of new viral diseases is mainly due to international trade, climate change, and the ability of viruses for rapid evolution. Disease control is based on two strategies: i) immunization (genetic resistance obtained by plant breeding, plant transformation, cross-protection, or others), and ii) prophylaxis to restrain virus dispersion (using quarantine, certification, removal of infected plants, control of natural vectors, or other procedures). Disease management relies strongly on a fast and accurate identification of the causal agent. For known viruses, diagnosis consists in assigning a virus infecting a plant sample to a group of viruses sharing common characteristics, which is usually referred to as species. However, the specificity of diagnosis can also reach higher taxonomic levels, as genus or family, or lower levels, as strain or variant. Diagnostic procedures must be optimized for accuracy by detecting the maximum number of members within the group (sensitivity as the true positive rate) and distinguishing them from outgroup viruses (specificity as the true negative rate). This requires information on the genetic relationships within-group and with members of other groups. The influence of the genetic diversity of virus populations in diagnosis and disease management is well documented, but information on how to integrate the genetic diversity in the detection methods is still scarce. Here we review the techniques used for plant virus diagnosis and disease control, including characteristics such as accuracy, detection level, multiplexing, quantification, portability, and designability. The effect of genetic diversity and evolution of plant viruses in the design and performance of some detection and disease control techniques are also discussed. High-throughput or next-generation sequencing provides broad-spectrum and accurate identification of viruses enabling multiplex detection, quantification, and the discovery of new viruses. Likely, this technique will be the future standard in diagnostics as its cost will be dropping and becoming more affordable. 2020-07-22T12:09:13Z 2020-07-22T12:09:13Z 2020 publishedVersion Rubio, L., Galipienso, L., & Ferriol, I. (2020). Detection of plant viruses and disease management: relevance of genetic diversity and evolution. Frontiers in plant science, 11, 1092. http://hdl.handle.net/20.500.11939/6564 10.3389/fpls.2020.01092 https://www.frontiersin.org/articles/10.3389/fpls.2020.01092/full en_US info:eu-repo/grantAgreement/AEI/Plan Estatal de Investigación Científica y Técnica y de Innovación 2017-2020/RTA2017-00061-C03-02 Ministerio de Ciencia e Innovación, RTA2017-00061-C03-02 openAccess Frontiers Media electronico |
| spellingShingle | Loop-mediated isothermal amplification, Sequencing Multiplexing Sensitivity Diagnosis H20 Plant diseases Hybridizing PCR sensitivity Rubio, Luis Galipienso, Luis Ferriol, Inmaculada Detection of plant viruses and disease management: relevance of genetic diversity and evolution |
| title | Detection of plant viruses and disease management: relevance of genetic diversity and evolution |
| title_full | Detection of plant viruses and disease management: relevance of genetic diversity and evolution |
| title_fullStr | Detection of plant viruses and disease management: relevance of genetic diversity and evolution |
| title_full_unstemmed | Detection of plant viruses and disease management: relevance of genetic diversity and evolution |
| title_short | Detection of plant viruses and disease management: relevance of genetic diversity and evolution |
| title_sort | detection of plant viruses and disease management relevance of genetic diversity and evolution |
| topic | Loop-mediated isothermal amplification, Sequencing Multiplexing Sensitivity Diagnosis H20 Plant diseases Hybridizing PCR sensitivity |
| url | http://hdl.handle.net/20.500.11939/6564 https://www.frontiersin.org/articles/10.3389/fpls.2020.01092/full |
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