Development of a real-time PCR (qPCR) method for the identification of the invasive paddle crab Charybdis japonica ( Crustacea , Portunidae )

• Published in: PeerJ (San Francisco, CA) Vol. 11; p. e15522
• Main Authors: Simpson, Tiffany JS, Wellington, Claire M., Lukehurst, Sherralee S., Huerlimann, Roger, Veilleux, Heather, Snow, Michael, Dias, Joana, McDonald, Justin I.
• Format: Journal Article
• Language: English
• Published: United States PeerJ Inc 12.06.2023
• Subjects: Animals; Australia; CO1; Crustacea - genetics; DNA - analysis; Environmental DNA; Environmental Impacts; Introduced Species; Invasive marine species; Marine Biology; Molecular Biology; Natural Resource Management; Real-time PCR; Real-Time Polymerase Chain Reaction; Western Australia; Zoology; Australia; Environmental DNA; Western Australia; CO1; Real-time PCR; Invasive marine species
• DOI: 10.7717/peerj.15522
• ISSN: 2167-8359

Crabs can be transported beyond their native range via anthropogenic-mediated means such as aquarium trade, live seafood trade and shipping. Once introduced into new locations, they can establish persisting populations and become invasive, often leading to negative impacts on the recipient environment and native species. Molecular techniques are increasingly being used as complementary tools in biosecurity surveillance and monitoring plans for invasive species. Molecular tools can be particularly useful for early detection, rapid identification and discrimination of closely related species, including when diagnostic morphological characters are absent or challenging, such as early life stages, or when only part of the animal is available. In this study, we developed a species-specific qPCR assay, which targets the cytochrome c oxidase subunit 1 (CO1) region of the Asian paddle crab Charybdis japonica . In Australia, as well as many parts of the world, this species is considered invasive and routine biosecurity surveillance is conducted to reduce the risk of establishment. Through rigorous testing of tissue from target and non-target species we demonstrate that this assay is sensitive enough to detect as little as two copies per reaction and does not cross amplify with other closely related species. Field samples and environmental samples spiked with C. japonica DNA in high and low concentrations indicate that this assay is also a promising tool for detecting trace amounts of C. japonica eDNA in complex substrates, making it a useful complementary tool in marine biosecurity assessments.