Determining the diet of larvae of western Rock Lobster (Panulirus cygnus) using high-throughput DNA sequencing techniques

Richard O'Rorke, Shane Lavery, Seinen Chow, Haruko Takeyama, Peter Tsai, Lynnath E. Beckley, Peter A. Thompson, Anya M. Waite, Andrew G. Jeffs

    Research output: Contribution to journalArticle

    53 Citations (Scopus)

    Abstract

    The Western Australian rock lobster fishery has been both a highly productive and sustainable fishery. However, a recent dramatic and unexplained decline in post-larval recruitment threatens this sustainability. Our lack of knowledge of key processes in lobster larval ecology, such as their position in the food web, limits our ability to determine what underpins this decline. The present study uses a high-throughput amplicon sequencing approach on DNA obtained from the hepatopancreas of larvae to discover significant prey items. Two short regions of the 18S rRNA gene were amplified under the presence of lobster specific PNA to prevent lobster amplification and to improve prey amplification. In the resulting sequences either little prey was recovered, indicating that the larval gut was empty, or there was a high number of reads originating from multiple zooplankton taxa. The most abundant reads included colonial Radiolaria, Thaliacea, Actinopterygii, Hydrozoa and Sagittoidea, which supports the hypothesis that the larvae feed on multiple groups of mostly transparent gelatinous zooplankton. This hypothesis has prevailed as it has been tentatively inferred from the physiology of larvae, captive feeding trials and co-occurrence in situ. However, these prey have not been observed in the larval gut as traditional microscopic techniques cannot discern between transparent and gelatinous prey items in the gut. High-throughput amplicon sequencing of gut DNA has enabled us to classify these otherwise undetectable prey. The dominance of the colonial radiolarians among the gut contents is intriguing in that this group has been historically difficult to quantify in the water column, which may explain why they have not been connected to larval diet previously. Our results indicate that a PCR based technique is a very successful approach to identify the most abundant taxa in the natural diet of lobster larvae.

    Original languageEnglish
    Article numbere42757
    JournalPLoS One
    Volume7
    Issue number8
    DOIs
    Publication statusPublished - 2012 Aug 21

    Fingerprint

    Palinuridae
    Panulirus cygnus
    High-Throughput Nucleotide Sequencing
    Fisheries
    Nutrition
    lobsters
    Amplification
    Larva
    digestive system
    rocks
    Rocks
    Throughput
    Zooplankton
    Diet
    larvae
    DNA
    Physiology
    Ecology
    diet
    Sustainable development

    ASJC Scopus subject areas

    • Agricultural and Biological Sciences(all)
    • Biochemistry, Genetics and Molecular Biology(all)
    • Medicine(all)

    Cite this

    Determining the diet of larvae of western Rock Lobster (Panulirus cygnus) using high-throughput DNA sequencing techniques. / O'Rorke, Richard; Lavery, Shane; Chow, Seinen; Takeyama, Haruko; Tsai, Peter; Beckley, Lynnath E.; Thompson, Peter A.; Waite, Anya M.; Jeffs, Andrew G.

    In: PLoS One, Vol. 7, No. 8, e42757, 21.08.2012.

    Research output: Contribution to journalArticle

    O'Rorke, R, Lavery, S, Chow, S, Takeyama, H, Tsai, P, Beckley, LE, Thompson, PA, Waite, AM & Jeffs, AG 2012, 'Determining the diet of larvae of western Rock Lobster (Panulirus cygnus) using high-throughput DNA sequencing techniques', PLoS One, vol. 7, no. 8, e42757. https://doi.org/10.1371/journal.pone.0042757
    O'Rorke, Richard ; Lavery, Shane ; Chow, Seinen ; Takeyama, Haruko ; Tsai, Peter ; Beckley, Lynnath E. ; Thompson, Peter A. ; Waite, Anya M. ; Jeffs, Andrew G. / Determining the diet of larvae of western Rock Lobster (Panulirus cygnus) using high-throughput DNA sequencing techniques. In: PLoS One. 2012 ; Vol. 7, No. 8.
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