Characterization of untranslated regions of the salmonid alphavirus 3 (SAV3) genome and construction of a SAV3 based replicon
Salmonid alphavirus (SAV) causes disease in farmed salmonid fish and is divided into different genetic subtypes (SAV1-6). Here we report the cloning and characterization of the 5'- and 3'- untranslated regions (UTR) of a SAV3 isolated from Atlantic salmon in Norway. The sequences of the UT...
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ftpubmed:oai:pubmedcentral.nih.gov:2772843 2023-05-15T15:32:21+02:00 Characterization of untranslated regions of the salmonid alphavirus 3 (SAV3) genome and construction of a SAV3 based replicon Karlsen, Marius Villoing, Stephane Rimstad, Espen Nylund, Are 2009-10-27 http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2772843 http://www.ncbi.nlm.nih.gov/pubmed/19860871 https://doi.org/10.1186/1743-422X-6-173 en eng BioMed Central http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2772843 http://www.ncbi.nlm.nih.gov/pubmed/19860871 http://dx.doi.org/10.1186/1743-422X-6-173 Copyright © 2009 Karlsen et al; licensee BioMed Central Ltd. http://creativecommons.org/licenses/by/2.0 This is an Open Access article distributed under the terms of the Creative Commons Attribution License ( (http://creativecommons.org/licenses/by/2.0) ), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. CC-BY Short Report Text 2009 ftpubmed https://doi.org/10.1186/1743-422X-6-173 2013-09-02T18:32:47Z Salmonid alphavirus (SAV) causes disease in farmed salmonid fish and is divided into different genetic subtypes (SAV1-6). Here we report the cloning and characterization of the 5'- and 3'- untranslated regions (UTR) of a SAV3 isolated from Atlantic salmon in Norway. The sequences of the UTRs are very similar to those of SAV1 and SAV2, but single nucleotide polymorphisms are present, also in the 3' - conserved sequence element (3'-CSE). Prediction of the RNA secondary structure suggested putative stem-loop structures in both the 5'- and 3'-ends, similar to those of alphaviruses from the terrestrial environment, indicating that the general genome replication initiation strategy for alphaviruses is also utilized by SAV. A DNA replicon vector, pmSAV3, based upon a pVAX1 backbone and the SAV3 genome was constructed, and the SAV3 non-structural proteins were used to express a reporter gene controlled by the SAV3 subgenomic promoter. Transfection of pmSAV3 into CHSE and BF2 cell lines resulted in expression of the reporter protein, confirming that the cloned SAV3 replication apparatus and UTRs are functional in fish cells. Text Atlantic salmon PubMed Central (PMC) Norway Sav’ ENVELOPE(156.400,156.400,68.817,68.817) Virology Journal 6 1 |
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English |
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Short Report Karlsen, Marius Villoing, Stephane Rimstad, Espen Nylund, Are Characterization of untranslated regions of the salmonid alphavirus 3 (SAV3) genome and construction of a SAV3 based replicon |
topic_facet |
Short Report |
description |
Salmonid alphavirus (SAV) causes disease in farmed salmonid fish and is divided into different genetic subtypes (SAV1-6). Here we report the cloning and characterization of the 5'- and 3'- untranslated regions (UTR) of a SAV3 isolated from Atlantic salmon in Norway. The sequences of the UTRs are very similar to those of SAV1 and SAV2, but single nucleotide polymorphisms are present, also in the 3' - conserved sequence element (3'-CSE). Prediction of the RNA secondary structure suggested putative stem-loop structures in both the 5'- and 3'-ends, similar to those of alphaviruses from the terrestrial environment, indicating that the general genome replication initiation strategy for alphaviruses is also utilized by SAV. A DNA replicon vector, pmSAV3, based upon a pVAX1 backbone and the SAV3 genome was constructed, and the SAV3 non-structural proteins were used to express a reporter gene controlled by the SAV3 subgenomic promoter. Transfection of pmSAV3 into CHSE and BF2 cell lines resulted in expression of the reporter protein, confirming that the cloned SAV3 replication apparatus and UTRs are functional in fish cells. |
format |
Text |
author |
Karlsen, Marius Villoing, Stephane Rimstad, Espen Nylund, Are |
author_facet |
Karlsen, Marius Villoing, Stephane Rimstad, Espen Nylund, Are |
author_sort |
Karlsen, Marius |
title |
Characterization of untranslated regions of the salmonid alphavirus 3 (SAV3) genome and construction of a SAV3 based replicon |
title_short |
Characterization of untranslated regions of the salmonid alphavirus 3 (SAV3) genome and construction of a SAV3 based replicon |
title_full |
Characterization of untranslated regions of the salmonid alphavirus 3 (SAV3) genome and construction of a SAV3 based replicon |
title_fullStr |
Characterization of untranslated regions of the salmonid alphavirus 3 (SAV3) genome and construction of a SAV3 based replicon |
title_full_unstemmed |
Characterization of untranslated regions of the salmonid alphavirus 3 (SAV3) genome and construction of a SAV3 based replicon |
title_sort |
characterization of untranslated regions of the salmonid alphavirus 3 (sav3) genome and construction of a sav3 based replicon |
publisher |
BioMed Central |
publishDate |
2009 |
url |
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2772843 http://www.ncbi.nlm.nih.gov/pubmed/19860871 https://doi.org/10.1186/1743-422X-6-173 |
long_lat |
ENVELOPE(156.400,156.400,68.817,68.817) |
geographic |
Norway Sav’ |
geographic_facet |
Norway Sav’ |
genre |
Atlantic salmon |
genre_facet |
Atlantic salmon |
op_relation |
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2772843 http://www.ncbi.nlm.nih.gov/pubmed/19860871 http://dx.doi.org/10.1186/1743-422X-6-173 |
op_rights |
Copyright © 2009 Karlsen et al; licensee BioMed Central Ltd. http://creativecommons.org/licenses/by/2.0 This is an Open Access article distributed under the terms of the Creative Commons Attribution License ( (http://creativecommons.org/licenses/by/2.0) ), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. |
op_rightsnorm |
CC-BY |
op_doi |
https://doi.org/10.1186/1743-422X-6-173 |
container_title |
Virology Journal |
container_volume |
6 |
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1 |
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1766362853259870208 |