Environmental DNA detects Critically Endangered largetooth sawfish in the wild

Colin Simpfendorfer, Peter Kyne, Tansyn Noble, Julie Goldsbury, Rose Basiita, Rob Lindsay, Amos Shields, Camillus Perry, Dean Jerry

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    Abstract

    Environmental DNA (eDNA) is a relatively new tool for the detection of rare, threatened and invasive species in water bodies. In this study we investigated the utility of an eDNA approach in detecting the Critically Endangered largetooth sawfish Pristis pristis in freshwater habitats in northern Australia. Water samples were collected from large aquaria mesocosms containing largetooth sawfish and other aquatic species, and floodplain waterholes and the main river channel of the Daly River, Northern Territory. Water samples were filtered using a 20 µm nylon filter. DNA was extracted from filters and analysed with PCR using species-specific mitochondrial cytochrome c oxidase subunit I (COI) primers designed to amplify only largetooth sawfish DNA. PCR products were cleaned and the COI gene sequenced to confirm the species identity. Using 3 aquaria, with one containing a largetooth sawfish, this method positively identified sawfish only in the correct aquarium. In the field water samples, 7 of 8 floodplain waterholes produced a sawfish eDNA PCR product, while eDNA was not detected in the main river channel. Based on gillnet sampling and traditional ecological knowledge, largetooth sawfish were known to occur at half of the waterhole and floodplain sites that tested positive for sawfish eDNA. These results demonstrated that an eDNA approach to detecting largetooth sawfish can produce reliable outcomes and can be used as a survey tool to help with conservation efforts for this and other threatened elasmobranchs.
    Original languageEnglish
    Pages (from-to)109-116
    Number of pages8
    JournalEndangered Species Research
    Volume30
    DOIs
    Publication statusPublished - 12 May 2016

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    DNA
    aquarium
    floodplain
    river channel
    filter
    gillnet
    rare species
    invasive species
    water
    cytochrome
    gene
    sampling
    habitat
    river
    product

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    Simpfendorfer, C., Kyne, P., Noble, T., Goldsbury, J., Basiita, R., Lindsay, R., ... Jerry, D. (2016). Environmental DNA detects Critically Endangered largetooth sawfish in the wild. Endangered Species Research, 30, 109-116. https://doi.org/10.3354/esr00731
    Simpfendorfer, Colin ; Kyne, Peter ; Noble, Tansyn ; Goldsbury, Julie ; Basiita, Rose ; Lindsay, Rob ; Shields, Amos ; Perry, Camillus ; Jerry, Dean. / Environmental DNA detects Critically Endangered largetooth sawfish in the wild. In: Endangered Species Research. 2016 ; Vol. 30. pp. 109-116.
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    abstract = "Environmental DNA (eDNA) is a relatively new tool for the detection of rare, threatened and invasive species in water bodies. In this study we investigated the utility of an eDNA approach in detecting the Critically Endangered largetooth sawfish Pristis pristis in freshwater habitats in northern Australia. Water samples were collected from large aquaria mesocosms containing largetooth sawfish and other aquatic species, and floodplain waterholes and the main river channel of the Daly River, Northern Territory. Water samples were filtered using a 20 µm nylon filter. DNA was extracted from filters and analysed with PCR using species-specific mitochondrial cytochrome c oxidase subunit I (COI) primers designed to amplify only largetooth sawfish DNA. PCR products were cleaned and the COI gene sequenced to confirm the species identity. Using 3 aquaria, with one containing a largetooth sawfish, this method positively identified sawfish only in the correct aquarium. In the field water samples, 7 of 8 floodplain waterholes produced a sawfish eDNA PCR product, while eDNA was not detected in the main river channel. Based on gillnet sampling and traditional ecological knowledge, largetooth sawfish were known to occur at half of the waterhole and floodplain sites that tested positive for sawfish eDNA. These results demonstrated that an eDNA approach to detecting largetooth sawfish can produce reliable outcomes and can be used as a survey tool to help with conservation efforts for this and other threatened elasmobranchs.",
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    Simpfendorfer, C, Kyne, P, Noble, T, Goldsbury, J, Basiita, R, Lindsay, R, Shields, A, Perry, C & Jerry, D 2016, 'Environmental DNA detects Critically Endangered largetooth sawfish in the wild', Endangered Species Research, vol. 30, pp. 109-116. https://doi.org/10.3354/esr00731

    Environmental DNA detects Critically Endangered largetooth sawfish in the wild. / Simpfendorfer, Colin; Kyne, Peter; Noble, Tansyn; Goldsbury, Julie; Basiita, Rose; Lindsay, Rob; Shields, Amos; Perry, Camillus; Jerry, Dean.

    In: Endangered Species Research, Vol. 30, 12.05.2016, p. 109-116.

    Research output: Contribution to journalArticleResearchpeer-review

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