A novel viral lineage distantly related to herpesviruses discovered within fish genome sequence data
Pathogenic viruses represent a small fraction of viral diversity, and emerging diseases are frequently the result of crossspecies transmissions. Therefore, we need to develop high-throughput techniques to investigate a broader range of viral biodiversity across a greater number of species. This is e...
| Main Authors: | , |
|---|---|
| Format: | Journal article |
| Published: |
Oxford University Press
2017
|
| _version_ | 1797075191519510528 |
|---|---|
| author | Aswad, A Katzourakis, A |
| author_facet | Aswad, A Katzourakis, A |
| author_sort | Aswad, A |
| collection | OXFORD |
| description | Pathogenic viruses represent a small fraction of viral diversity, and emerging diseases are frequently the result of crossspecies transmissions. Therefore, we need to develop high-throughput techniques to investigate a broader range of viral biodiversity across a greater number of species. This is especially important in the context of new practices in agriculture that have arisen to tackle the challenges of global food security, including the rising number of marine and freshwater species that are used in aquaculture. In this study, we demonstrate the utility of combining evolutionary approaches with bioinformatics to mine non-viral genome data for viruses, by adapting methods from paleovirology. We report the discovery of a new lineage of dsDNA viruses that are associated with at least fifteen different species of fish. This approach also enabled us to simultaneously identify sequences that likely represent endogenous viral elements, which we experimentally confirmed in commercial salmon samples. Moreover, genomic analysis revealed that the endogenous sequences have co-opted PiggyBac-like transposable elements, possibly as a mechanism of intragenomic proliferation. The identification of novel viruses from genome data shows that our approach has applications in genomics, virology, and the development of best practices for aquaculture and farming. |
| first_indexed | 2024-03-06T23:46:53Z |
| format | Journal article |
| id | oxford-uuid:7138bd8c-f4db-4741-bcee-e50544937426 |
| institution | University of Oxford |
| last_indexed | 2024-03-06T23:46:53Z |
| publishDate | 2017 |
| publisher | Oxford University Press |
| record_format | dspace |
| spelling | oxford-uuid:7138bd8c-f4db-4741-bcee-e505449374262022-03-26T19:42:16ZA novel viral lineage distantly related to herpesviruses discovered within fish genome sequence dataJournal articlehttp://purl.org/coar/resource_type/c_dcae04bcuuid:7138bd8c-f4db-4741-bcee-e50544937426Symplectic Elements at OxfordOxford University Press2017Aswad, AKatzourakis, APathogenic viruses represent a small fraction of viral diversity, and emerging diseases are frequently the result of crossspecies transmissions. Therefore, we need to develop high-throughput techniques to investigate a broader range of viral biodiversity across a greater number of species. This is especially important in the context of new practices in agriculture that have arisen to tackle the challenges of global food security, including the rising number of marine and freshwater species that are used in aquaculture. In this study, we demonstrate the utility of combining evolutionary approaches with bioinformatics to mine non-viral genome data for viruses, by adapting methods from paleovirology. We report the discovery of a new lineage of dsDNA viruses that are associated with at least fifteen different species of fish. This approach also enabled us to simultaneously identify sequences that likely represent endogenous viral elements, which we experimentally confirmed in commercial salmon samples. Moreover, genomic analysis revealed that the endogenous sequences have co-opted PiggyBac-like transposable elements, possibly as a mechanism of intragenomic proliferation. The identification of novel viruses from genome data shows that our approach has applications in genomics, virology, and the development of best practices for aquaculture and farming. |
| spellingShingle | Aswad, A Katzourakis, A A novel viral lineage distantly related to herpesviruses discovered within fish genome sequence data |
| title | A novel viral lineage distantly related to herpesviruses discovered within fish genome sequence data |
| title_full | A novel viral lineage distantly related to herpesviruses discovered within fish genome sequence data |
| title_fullStr | A novel viral lineage distantly related to herpesviruses discovered within fish genome sequence data |
| title_full_unstemmed | A novel viral lineage distantly related to herpesviruses discovered within fish genome sequence data |
| title_short | A novel viral lineage distantly related to herpesviruses discovered within fish genome sequence data |
| title_sort | novel viral lineage distantly related to herpesviruses discovered within fish genome sequence data |
| work_keys_str_mv | AT aswada anovelvirallineagedistantlyrelatedtoherpesvirusesdiscoveredwithinfishgenomesequencedata AT katzourakisa anovelvirallineagedistantlyrelatedtoherpesvirusesdiscoveredwithinfishgenomesequencedata AT aswada novelvirallineagedistantlyrelatedtoherpesvirusesdiscoveredwithinfishgenomesequencedata AT katzourakisa novelvirallineagedistantlyrelatedtoherpesvirusesdiscoveredwithinfishgenomesequencedata |