Curtin University Homepage
  • Library
  • Help
    • Admin

    espace - Curtin’s institutional repository

    JavaScript is disabled for your browser. Some features of this site may not work without it.
    View Item 
    • espace Home
    • espace
    • Curtin Research Publications
    • View Item
    • espace Home
    • espace
    • Curtin Research Publications
    • View Item

    Environmental DNA metabarcoding studies are critically affected by substrate selection

    Access Status
    Open access via publisher
    Authors
    Koziol, A.
    Stat, Michael
    Simpson, T.
    Jarman, Simon
    Di Battista, Joseph
    Harvey, Euan
    Marnane, M.
    McDonald, J.
    Bunce, Michael
    Date
    2018
    Type
    Journal Article
    
    Metadata
    Show full item record
    Citation
    Koziol, A. and Stat, M. and Simpson, T. and Jarman, S. and Di Battista, J. and Harvey, E. and Marnane, M. et al. 2018. Environmental DNA metabarcoding studies are critically affected by substrate selection. Molecular Ecology Resources. 19 (2): 366-376.
    Source Title
    Molecular Ecology Resources
    DOI
    10.1111/1755-0998.12971
    Additional URLs
    https://rss.onlinelibrary.wiley.com/doi/am-pdf/10.1111/1755-0998.12971
    ISSN
    1755-098X
    School
    School of Molecular and Life Sciences (MLS)
    Funding and Sponsorship
    http://purl.org/au-research/grants/arc/LP160100839
    URI
    http://hdl.handle.net/20.500.11937/73784
    Collection
    • Curtin Research Publications
    Abstract

    Effective biomonitoring is critical for driving management outcomes that ensure long-term sustainability of the marine environment. In recent years, environmental DNA (eDNA), coupled with metabarcoding methodologies, has emerged as a promising tool for generating biotic surveys of marine ecosystems, including those under anthropogenic pressure. However, more empirical data are needed on how to best implement eDNA field sampling approaches to maximize their utility for each specific application. The effect of the substrate chosen for eDNA sampling on the diversity of marine taxa detected by DNA metabarcoding has not yet been systematically analysed, despite aquatic systems being those most commonly targeted for eDNA studies. We investigated the effect of four commonly used eDNA substrates to explore taxonomic diversity: (a) surface water, (b) marine sediment, (c) settlement plates and (d) planktonic tows. With a focus on coastal ports, 332 eDNA samples from Australia (Indian and Southern oceans) and Kazakhstan (Caspian Sea) were collected and analysed by multi-assay DNA metabarcoding. Across study locations, between 30% and 52% of eukaryotic families detected were unique to a particular substrate and <6% of families were found in all four substrates. Taxonomic composition varied significantly depending on the substrate sampled implying that the suitability (and bias) of an eDNA substrate will depend on the focal taxa. These findings demonstrate that single substrate eDNA metabarcoding likely underestimates the total eukaryotic diversity. Future eDNA experimental design should consider incorporating multiple substrates or select substrate(s) best suited to the specific detection of target taxa.

    Related items

    Showing items related by title, author, creator and subject.

    • Water stratification in the marine biome restricts vertical environmental DNA (eDNA) signal dispersal
      Jeunen, G.J.; Lamare, M.D.; Knapp, M.; Spencer, H.G.; Taylor, H.R.; Stat, Michael ; Bunce, Michael ; Gemmell, N.J. (2020)
      Background: The utility of environmental DNA (eDNA) metabarcoding surveys to accurately detect species depends on the degree of DNA dispersal. Multiple marine studies have observed only minimal eDNA transport by horizontal ...
    • Environmental DNA (eDNA) metabarcoding reveals strong discrimination among diverse marine habitats connected by water movement
      Jeunen, G.; Knapp, M.; Spencer, H.; Lamare, M.; Taylor, H.; Stat, M.; Bunce, Michael; Gemmell, N. (2018)
      While in recent years environmental DNA (eDNA) metabarcoding surveys have shown great promise as an alternative monitoring method, the integration into existing marine monitoring programs may be confounded by the dispersal ...
    • Large-scale eDNA metabarcoding survey reveals marine biogeographic break and transitions over tropical north-western Australia
      West, Katrina ; Travers, M.J.; Stat, Michael ; Harvey, Euan ; Richards, Zoe ; Di Battista, Joey ; Newman, Stephen ; Harry, A.; Skepper, C.L.; Heydenrych, Matt ; Bunce, Michael (2021)
      Aim: Environmental DNA (eDNA) metabarcoding has demonstrated its applicability as a highly sensitive biomonitoring tool across small spatial and temporal scales in marine ecosystems. However, it has rarely been tested ...
    Advanced search

    Browse

    Communities & CollectionsIssue DateAuthorTitleSubjectDocument TypeThis CollectionIssue DateAuthorTitleSubjectDocument Type

    My Account

    Admin

    Statistics

    Most Popular ItemsStatistics by CountryMost Popular Authors

    Follow Curtin

    • 
    • 
    • 
    • 
    • 

    CRICOS Provider Code: 00301JABN: 99 143 842 569TEQSA: PRV12158

    Copyright | Disclaimer | Privacy statement | Accessibility

    Curtin would like to pay respect to the Aboriginal and Torres Strait Islander members of our community by acknowledging the traditional owners of the land on which the Perth campus is located, the Whadjuk people of the Nyungar Nation; and on our Kalgoorlie campus, the Wongutha people of the North-Eastern Goldfields.