Detection and Phylogenetic Analyses of Taura Syndrome Virus from Archived Davidson's-Fixed Paraffin-Embedded Shrimp Tissue
Affiliation
Univ Arizona, Sch Anim & Comparat Biomed Sci, Aquaculture Pathol LabIssue Date
2020-09-16
Metadata
Show full item recordPublisher
MPDICitation
Ochoa, L. M., Cruz-Flores, R., & Dhar, A. K. (2020). Detection and Phylogenetic Analyses of Taura Syndrome Virus from Archived Davidson’s-Fixed Paraffin-Embedded Shrimp Tissue. Viruses, 12(9), 1030.Journal
VIRUSES-BASELRights
© 2020 by the authors. Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution(CC BY) license (http://creativecommons.org/licenses/by/4.0/).Collection Information
This item from the UA Faculty Publications collection is made available by the University of Arizona with support from the University of Arizona Libraries. If you have questions, please contact us at repository@u.library.arizona.edu.Abstract
Taura syndrome is a World Organization for Animal Health (OIE)-listed disease of marine shrimp that is caused by Taura syndrome virus (TSV), a single-stranded RNA virus. Here we demonstrate the utility of using 15-year-old archived Davidson's-fixed paraffin-embedded (DFPE) shrimp tissues for TSV detection and phylogenetic analyses. Total RNA was isolated from known TSV-infected DFPE tissues using three commercially available kits and the purity and ability to detect TSV in the isolated RNA were compared. TSV was successfully detected through RT-qPCR in all the tested samples. Among the TSV-specific primers screened through RT-PCR, primer pair TSV-20 for the RNA-dependent RNA polymerase (RdRp), primers TSV-15 and TSV-16 for the capsid protein gene VP2 and primers TSV-5 for the capsid protein gene VP1 amplified the highest number of samples. To assess the phylogenetic relation among different TSV isolates, the VP1 gene was amplified and sequenced in overlapping segments. Concatenated sequences from smaller fragments were taken for phylogenetic analyses. The results showed that the TSV isolates from this study generally clustered with homologous isolates from the corresponding geographical regions indicating RNA derived from DFPE tissues can be used for pathogen detection and retrospective analyses. The ability to perform genomic characterization from archived tissue will expedite pathogen discovery, development of diagnostic tools and prevent disease spread in shrimp and potentially other aquaculture species worldwide.Note
Open access journalISSN
1999-4915EISSN
1999-4915PubMed ID
32948008Version
Final published versionae974a485f413a2113503eed53cd6c53
10.3390/v12091030
Scopus Count
Collections
Except where otherwise noted, this item's license is described as © 2020 by the authors. Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution(CC BY) license (http://creativecommons.org/licenses/by/4.0/).
Related articles
- Complete genome reconstruction and genetic analysis of Taura syndrome virus of shrimp from archival Davidson's-fixed paraffin embedded tissue.
- Authors: Cruz-Flores R, Mai HN, Dhar AK
- Issue date: 2021 Jan 15
- Reverse transcription polymerase chain reaction (RT-PCR) used for the detection of Taura syndrome virus (TSV) in experimentally infected shrimp.
- Authors: Nunan LM, Poulos BT, Lightner DV
- Issue date: 1998 Oct 8
- Characterization of a new strain of Taura syndrome virus (TSV) from Colombian shrimp farms and the implication in the selection of TSV resistant lines.
- Authors: Aranguren LF, Salazar M, Tang K, Caraballo X, Lightner D
- Issue date: 2013 Jan
- Detection of Taura syndrome virus (TSV) strain differences using selected diagnostic methods: diagnostic implications in penaeid shrimp.
- Authors: Erickson HS, Zarain-Herzberg M, Lightner DV
- Issue date: 2002 Nov 7
- A new RNA-friendly fixative for the preservation of penaeid shrimp samples for virological detection using cDNA genomic probes.
- Authors: Hasson KW, Hasson J, Aubert H, Redman RM, Lightner DV
- Issue date: 1997 Jul