Optimal sample type and number vary in small shallow lakes when targeting non-native fish environmental DNA

PeerJ

article

Maïlys H.V. Picard¹  Anastasija Zaiko²  Annabel M. Tidy⁴  David J. Kelly²  Georgia Thomson-Laing²  Shaun P. Wilkinson⁵  Xavier Pochon²  Marcus J. Vandergoes⁶  Ian Hawes¹  Susanna A. Wood² 

[1] School of Biological Sciences, Department of Biological Sciences, University of Waikato;Coastal and Freshwater, Cawthron Institute;Institute of Marine Science, University of Auckland;University of Birmingham;Wilderlab NZ Ltd;GNS Science

关键词: Non-native species;    Fish;    Environmental DNA;    Sedimentary DNA;    Occupancy modelling;    Sampling design;    Perca fluviatilis;    Scardinius erythrophthalmus;    Lake;   

DOI  :  10.7717/peerj.15210

学科分类：社会科学、人文和艺术（综合）

来源: Inra

【 摘 要 】

Non-native fish have been shown to have deleterious impacts on freshwater ecosystems in New Zealand. Early detection is critical for their effective management. Traditional capture-based techniques may not detect newly introduced fish, especially if they are present in low abundance. Molecular techniques that target environmental DNA (eDNA) have been shown, in many instances, to be more sensitive, cost-effective and require lower sampling effort. However, appropriate sampling strategies are needed to ensure robust and interpretable data are obtained. In this study we used droplet digital PCR assays to investigate the presence of two non-native fish in New Zealand, the European perch (Perca fluviatilis) and rudd (Scardinius erythrophthalmus) in three small lakes. Samples were collected from water and surface sediment at near-shore and mid-lake sites. Probabilistic modelling was used to assess the occupancy of fish eDNA and develop guidance on sampling strategies. Based on the detection probability measures from the present study, at least six sites and five replicates per site are needed to reliably detect fish eDNA in sediment samples, and twelve sites with eight replicates per site for water samples. The results highlight the potential of developing monitoring and surveillance programs adapted to lakes, that include the use of assays targeting eDNA. This study focused on small shallow lakes, and it is likely that these recommendations may vary in larger, deeper, and more geomorphologically complex lakes, and this requires further research.

【 授权许可】

CC BY