A Virus in American Blackcurrant (Ribes americanum) with Distinct Genome Features Reshapes Classification in the Tymovirales
A novel virus with distinct genome features was discovered by high throughput sequencing in a symptomatic blackcurrant plant. The virus, tentatively named Ribes americanum virus A (RAVA), has distinct genome organization and molecular features bridging genera in the order Tymovirales. The genome con...
| Main Authors: | , , , , |
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| Format: | Article |
| Language: | English |
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MDPI AG
2018-08-01
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| Series: | Viruses |
| Subjects: | |
| Online Access: | http://www.mdpi.com/1999-4915/10/8/406 |
| _version_ | 1818432566935420928 |
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| author | Thanuja Thekke-Veetil Thien Ho Joseph D. Postman Robert R. Martin Ioannis E. Tzanetakis |
| author_facet | Thanuja Thekke-Veetil Thien Ho Joseph D. Postman Robert R. Martin Ioannis E. Tzanetakis |
| author_sort | Thanuja Thekke-Veetil |
| collection | DOAJ |
| description | A novel virus with distinct genome features was discovered by high throughput sequencing in a symptomatic blackcurrant plant. The virus, tentatively named Ribes americanum virus A (RAVA), has distinct genome organization and molecular features bridging genera in the order Tymovirales. The genome consists of 7106 nucleotides excluding the poly(A) tail. Five open reading frames were identified, with the first encoding a putative viral replicase with methyl transferase (MTR), AlkB, helicase, and RNA dependent RNA polymerase (RdRp) domains. The genome organization downstream of the replicase resembles that of members of the order Tymovirales with an unconventional triple gene block (TGB) movement protein arrangement with none of the other four putative proteins exhibiting significant homology to viral proteins. Phylogenetic analysis using replicase conserved motifs loosely placed RAVA within the Betaflexiviridae. Data strongly suggest that RAVA is a novel virus that should be classified as a species in a new genus in the Betaflexiviridae or a new family within the order Tymovirales. |
| first_indexed | 2024-12-14T16:07:15Z |
| format | Article |
| id | doaj.art-d24b49c9adb24722b0ccf2ff274c5bcd |
| institution | Directory Open Access Journal |
| issn | 1999-4915 |
| language | English |
| last_indexed | 2024-12-14T16:07:15Z |
| publishDate | 2018-08-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Viruses |
| spelling | doaj.art-d24b49c9adb24722b0ccf2ff274c5bcd2022-12-21T22:55:04ZengMDPI AGViruses1999-49152018-08-0110840610.3390/v10080406v10080406A Virus in American Blackcurrant (Ribes americanum) with Distinct Genome Features Reshapes Classification in the TymoviralesThanuja Thekke-Veetil0Thien Ho1Joseph D. Postman2Robert R. Martin3Ioannis E. Tzanetakis4Department of Plant Pathology, Division of Agriculture, University of Arkansas System, Fayetteville, AR 72701, USADepartment of Plant Pathology, Division of Agriculture, University of Arkansas System, Fayetteville, AR 72701, USANational Clonal Germplasm Repository, United States Department of Agriculture, Corvallis, OR 97333, USAHorticultural Crops Research Unit, United States Department of Agriculture, Corvallis, OR 97331, USADepartment of Plant Pathology, Division of Agriculture, University of Arkansas System, Fayetteville, AR 72701, USAA novel virus with distinct genome features was discovered by high throughput sequencing in a symptomatic blackcurrant plant. The virus, tentatively named Ribes americanum virus A (RAVA), has distinct genome organization and molecular features bridging genera in the order Tymovirales. The genome consists of 7106 nucleotides excluding the poly(A) tail. Five open reading frames were identified, with the first encoding a putative viral replicase with methyl transferase (MTR), AlkB, helicase, and RNA dependent RNA polymerase (RdRp) domains. The genome organization downstream of the replicase resembles that of members of the order Tymovirales with an unconventional triple gene block (TGB) movement protein arrangement with none of the other four putative proteins exhibiting significant homology to viral proteins. Phylogenetic analysis using replicase conserved motifs loosely placed RAVA within the Betaflexiviridae. Data strongly suggest that RAVA is a novel virus that should be classified as a species in a new genus in the Betaflexiviridae or a new family within the order Tymovirales.http://www.mdpi.com/1999-4915/10/8/406BetaflexiviridaeblackcurrantRibes americanum virus Acharacterizationdetection |
| spellingShingle | Thanuja Thekke-Veetil Thien Ho Joseph D. Postman Robert R. Martin Ioannis E. Tzanetakis A Virus in American Blackcurrant (Ribes americanum) with Distinct Genome Features Reshapes Classification in the Tymovirales Viruses Betaflexiviridae blackcurrant Ribes americanum virus A characterization detection |
| title | A Virus in American Blackcurrant (Ribes americanum) with Distinct Genome Features Reshapes Classification in the Tymovirales |
| title_full | A Virus in American Blackcurrant (Ribes americanum) with Distinct Genome Features Reshapes Classification in the Tymovirales |
| title_fullStr | A Virus in American Blackcurrant (Ribes americanum) with Distinct Genome Features Reshapes Classification in the Tymovirales |
| title_full_unstemmed | A Virus in American Blackcurrant (Ribes americanum) with Distinct Genome Features Reshapes Classification in the Tymovirales |
| title_short | A Virus in American Blackcurrant (Ribes americanum) with Distinct Genome Features Reshapes Classification in the Tymovirales |
| title_sort | virus in american blackcurrant ribes americanum with distinct genome features reshapes classification in the tymovirales |
| topic | Betaflexiviridae blackcurrant Ribes americanum virus A characterization detection |
| url | http://www.mdpi.com/1999-4915/10/8/406 |
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