Development of a loop-mediated isothermal amplification assay for the detection and quantification of epizootic epitheliotropic disease virus (salmonid herpesvirus-3)

• Published in: Journal of virological methods 2019-02, Vol.264, p.44-50
• Main Authors: Zhang, Qingli, Shavalier, Megan, Standish, Isaac, Glenney, Gavin W., Loch, Thomas P., Faisal, Mohamed
• Format: Article
• Language: English
• Subjects: Animals; Calcein; DNA, Viral - genetics; Epizootic epitheliotropic disease virus; Fish Diseases - diagnosis; Fish Diseases - virology; Gills - virology; Herpesviridae - genetics; Herpesviridae - isolation & purification; Herpesviridae Infections - diagnosis; Herpesviridae Infections - veterinary; Loop-mediated isothermal amplification; Nucleic Acid Amplification Techniques - methods; Salmonid Herpesvirus-3 (SaHV-3); Sensitivity and Specificity; Skin - virology; Temperature; Trout - virology
• ISSN: 0166-0934; 1879-0984
• DOI: 10.1016/j.jviromet.2018.11.006

•A quantitative LAMP method for identification of EEDV has been developed.•Analytical sensitivity of the qLAMP is as low as 78 pg extracted DNA from tissue.•The method is highly specific for EEDV.•The EEDV qLAMP method was evaluated against the qPCR method. Epizootic Epitheliotropic Disease Virus (EEDV; Salmonid Herpesvirus-3) causes a serious disease hatchery-reared lake trout (Salvelinus namaycush), threatening restoration efforts of this species in North America. The current inability to replicate EEDV in vitro necessitates the search for a reproducible, sensitive, and specific assay that allows for its detection and quantitation in a time- and cost-effective manner. Herein, we describe a loop-mediated isothermal amplification (LAMP) assay that was developed for the quantitative detection of EEDV in infected fish tissues. The newly developed LAMP reaction was optimized in the presence of calcein, and the best results were produced using 2 mM MgCl2, 1.8 mM dNTPs and at an incubation temperature of 67.1 °C. This method was highly specific to EEDV, as it showed no cross-reactivity with several fish viruses, including Salmonid Herpesvirus-1, -2, -4, and -5, Infectious Pancreatic Necrosis Virus, Spring Viremia of Carp Virus, Infectious Hematopoietic Necrosis Virus, Golden Shiner Reovirus, Fathead Minnow Nidovirus, and Viral Hemorrhagic Septicemia Virus. The analytical sensitivity of the EEDV-LAMP method was estimated to be as low as 16 copies of plasmid per reaction. When infected fish tissue was used, a positive reaction could be obtained when an infected gill tissue sample that contained 430 viral copies/μg was diluted up to five orders of magnitude. The sensitivity and specificity of the newly developed LAMP assay compared to the SYBR Green qPCR assay were 84.3% and 93.3%, respectively. The quantitative LAMP for EEDV had a correlation coefficient (R2 = 0.980), and did not differ significantly from the SYBR Green quantitative PCR assay (p > 0.05). Given its cost- and time-effectiveness, this quantitative LAMP assay is suitable for screening lake trout populations and for the initial diagnosis of clinical cases.