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Rapid sample preparation and low-resource molecular detection of hepatopancreatic parvoviruses by recombinase polymerase amplification lateral flow detection assay in shrimps1.23 MB
Published VersionCC BY V4.0, Open Access
Journal article
Rapid sample preparation and low-resource molecular detection of hepatopancreatic parvoviruses (HPV) by recombinase polymerase amplification lateral flow detection assay in shrimps (Fenneropenaeus merguiensis)
PLoS One, Vol.17(11), pp.1-13
2022
Abstract
Background:
Viral diseases are a major problem in shrimp aquaculture facilities as these diseases reduce growth rates, which inevitably lead to production and profit losses. Hepatopancreatic parvoviruses (HPV) are common diseases in shrimp that appear to be associated with high or low levels of replication in specific genetic lineages. Selective breeding may result in resistance to HPV and improved body traits such as body weight, meat yield and shrimp colour, facilitating shrimp farming. HPV virus titre is commonly determined by quantitative PCR (qPCR), which is a time-consuming method requiring laboratory equipment unsuitable for field implementation. The aim of this study was to develop a simple, robust, rapid and reliable method to detect HPV in low-resource environments.
Methods:
We developed a rapid shrimp HPV test that uses (1) a simple three-step sample preparation protocol, followed by (2) isothermal recombinase polymerase amplification (RPA) and lateral flow strip detection (LFD). Analytical sensitivity testing was performed in a background banana shrimp sample matrix, and retrospective testing of Fenneropenaeus merguiensis hepatopancreas tissues (n = 33) with known qPCR viral titres was used to determine diagnostic sensitivity and specificity.
Results:
The rapid shrimp HPV test could detect as little as 35 genome-equivalent copies per reaction in homogenized F. merguiensis banana shrimp. Retrospective testing of stored tissues (n = 33) indicated 100% diagnostic sensitivity (95% confidence interval, CI: 86–100%) and 100% specificity (95% CI: 66–100%) for detection of HPV.
Conclusion:
The rapid shrimp HPV test could be completed in only 40 minutes, and required only homogenization pestles, some pipettors, and a small heating block for single temperature incubation at 39°C. Critically, our procedure eliminated the time-consuming purification of nucleic acids from samples and when combined with RPA-LFD offers a user-friendly HPV detection format that can potentially be performed on-site. Our approach represents a major step forward in the development of a simple and sensitive end-point method for quick determination of unfavourable HPV virus numbers in shrimp, and has great potential to advance on-site management of shrimps in aquaculture.
Details
- Title
- Rapid sample preparation and low-resource molecular detection of hepatopancreatic parvoviruses (HPV) by recombinase polymerase amplification lateral flow detection assay in shrimps (Fenneropenaeus merguiensis)
- Authors
- Nina Pollak (Corresponding Author) - University of the Sunshine Coast, Queensland, Centre for BioinnovationOmar Fais (Author)Joanna Kristoffersen (Author) - University of the Sunshine Coast, Queensland, School of Science, Technology and EngineeringChontida Phuthaworn (Author) - University of the Sunshine Coast, Queensland, School of Science and Engineering - LegacyWayne Knibb (Author) - University of the Sunshine Coast, Queensland, School of Science and Engineering - LegacyJoanne Macdonald (Corresponding Author) - University of the Sunshine Coast, Queensland, School of Science, Technology and Engineering
- Publication details
- PLoS One, Vol.17(11), pp.1-13
- Publisher
- Public Library of Science
- Date published
- 2022
- DOI
- 10.1371/journal.pone.0276164
- ISSN
- 1932-6203
- Copyright note
- Copyright: © 2022 Pollak et al. This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.
- Organisation Unit
- School of Science and Engineering - Legacy; GeneCology Research Centre - Legacy; School of Science, Technology and Engineering; Centre for Bioinnovation
- Language
- English
- Record Identifier
- 99686198902621
- Output Type
- Journal article
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