Bioinformatic evidence for a stem-loop structure 5'-adjacent to the IGR-IRES and for an overlapping gene in the bee paralysis dicistroviruses
<p>Abstract</p> <p>The family <it>Dicistroviridae </it>(order <it>Picornavirales</it>) includes species that infect insects and other arthropods. These viruses have a linear positive-sense ssRNA genome of ~8-10 kb, which contains two long ORFs. The 5' O...
| Main Authors: | , , , |
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| Format: | Article |
| Language: | English |
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BMC
2009-11-01
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| Series: | Virology Journal |
| Online Access: | http://www.virologyj.com/content/6/1/193 |
| _version_ | 1818824747631247360 |
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| author | Jan Eric Wang Qing S Firth Andrew E Atkins John F |
| author_facet | Jan Eric Wang Qing S Firth Andrew E Atkins John F |
| author_sort | Jan Eric |
| collection | DOAJ |
| description | <p>Abstract</p> <p>The family <it>Dicistroviridae </it>(order <it>Picornavirales</it>) includes species that infect insects and other arthropods. These viruses have a linear positive-sense ssRNA genome of ~8-10 kb, which contains two long ORFs. The 5' ORF encodes the nonstructural polyprotein while the 3' ORF encodes the structural polyprotein. The dicistroviruses are noteworthy for the intergenic Internal Ribosome Entry Site (IGR-IRES) that mediates efficient translation initation on the 3' ORF without the requirement for initiator Met-tRNA. Acute bee paralysis virus, Israel acute paralysis virus of bees and Kashmir bee virus form a distinct subgroup within the <it>Dicistroviridae </it>family. In this brief report, we describe the bioinformatic discovery of a new, apparently coding, ORF in these viruses. The ORF overlaps the 5' end of the structural polyprotein coding sequence in the +1 reading frame. We also identify a potential 14-18 bp RNA stem-loop structure 5'-adjacent to the IGR-IRES. We discuss potential translation initiation mechanisms for the novel ORF in the context of the IGR-IRES and 5'-adjacent stem-loop.</p> |
| first_indexed | 2024-12-19T00:00:47Z |
| format | Article |
| id | doaj.art-53f1f71135df4a36b1d4f8c956d26075 |
| institution | Directory Open Access Journal |
| issn | 1743-422X |
| language | English |
| last_indexed | 2024-12-19T00:00:47Z |
| publishDate | 2009-11-01 |
| publisher | BMC |
| record_format | Article |
| series | Virology Journal |
| spelling | doaj.art-53f1f71135df4a36b1d4f8c956d260752022-12-21T20:46:27ZengBMCVirology Journal1743-422X2009-11-016119310.1186/1743-422X-6-193Bioinformatic evidence for a stem-loop structure 5'-adjacent to the IGR-IRES and for an overlapping gene in the bee paralysis dicistrovirusesJan EricWang Qing SFirth Andrew EAtkins John F<p>Abstract</p> <p>The family <it>Dicistroviridae </it>(order <it>Picornavirales</it>) includes species that infect insects and other arthropods. These viruses have a linear positive-sense ssRNA genome of ~8-10 kb, which contains two long ORFs. The 5' ORF encodes the nonstructural polyprotein while the 3' ORF encodes the structural polyprotein. The dicistroviruses are noteworthy for the intergenic Internal Ribosome Entry Site (IGR-IRES) that mediates efficient translation initation on the 3' ORF without the requirement for initiator Met-tRNA. Acute bee paralysis virus, Israel acute paralysis virus of bees and Kashmir bee virus form a distinct subgroup within the <it>Dicistroviridae </it>family. In this brief report, we describe the bioinformatic discovery of a new, apparently coding, ORF in these viruses. The ORF overlaps the 5' end of the structural polyprotein coding sequence in the +1 reading frame. We also identify a potential 14-18 bp RNA stem-loop structure 5'-adjacent to the IGR-IRES. We discuss potential translation initiation mechanisms for the novel ORF in the context of the IGR-IRES and 5'-adjacent stem-loop.</p>http://www.virologyj.com/content/6/1/193 |
| spellingShingle | Jan Eric Wang Qing S Firth Andrew E Atkins John F Bioinformatic evidence for a stem-loop structure 5'-adjacent to the IGR-IRES and for an overlapping gene in the bee paralysis dicistroviruses Virology Journal |
| title | Bioinformatic evidence for a stem-loop structure 5'-adjacent to the IGR-IRES and for an overlapping gene in the bee paralysis dicistroviruses |
| title_full | Bioinformatic evidence for a stem-loop structure 5'-adjacent to the IGR-IRES and for an overlapping gene in the bee paralysis dicistroviruses |
| title_fullStr | Bioinformatic evidence for a stem-loop structure 5'-adjacent to the IGR-IRES and for an overlapping gene in the bee paralysis dicistroviruses |
| title_full_unstemmed | Bioinformatic evidence for a stem-loop structure 5'-adjacent to the IGR-IRES and for an overlapping gene in the bee paralysis dicistroviruses |
| title_short | Bioinformatic evidence for a stem-loop structure 5'-adjacent to the IGR-IRES and for an overlapping gene in the bee paralysis dicistroviruses |
| title_sort | bioinformatic evidence for a stem loop structure 5 adjacent to the igr ires and for an overlapping gene in the bee paralysis dicistroviruses |
| url | http://www.virologyj.com/content/6/1/193 |
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