Data from: Using occupancy modeling to compare environmental DNA to traditional field methods for regional-scale monitoring of an endangered aquatic species
Schmelzle, Molly C., Humboldt State University
Kinziger, Andrew P., Humboldt State University
Published Dec 11, 2015 on Dryad.
Cite this dataset
Schmelzle, Molly C.; Kinziger, Andrew P. (2015). Data from: Using occupancy modeling to compare environmental DNA to traditional field methods for regional-scale monitoring of an endangered aquatic species [Dataset]. Dryad. https://doi.org/10.5061/dryad.6rs23
Environmental DNA (eDNA) monitoring approaches promise to greatly improve detection of rare, endangered, and invasive species in comparison to traditional field approaches. Herein, eDNA approaches and traditional seining methods were applied at 29 research locations to compare method-specific estimates of detection and occupancy probabilities for endangered tidewater goby (Eucyclogobius newberryi). At each location multiple paired seine hauls and water samples for eDNA analysis were taken, ranging from two to 23 samples per site, depending upon habitat size. Analysis using a multi-method occupancy modeling framework indicated that the probability of detection using eDNA was nearly double (0.74) the rate of detection for seining (0.39). The higher detection rates afforded by eDNA allowed determination of tidewater goby occupancy at two locations where they have not been previously detected and at one location considered to be locally extirpated. Additionally, eDNA concentration was positively related to tidewater goby catch per unit effort, suggesting eDNA could potentially be used as a proxy for local tidewater goby abundance. Compared to traditional field sampling, eDNA provided improved occupancy parameter estimates, and can be applied to increase management efficiency across a broad spatial range and within a diversity of habitats.
Raw field and lab data for comparative analysis of eDNA to traditional methods for monitoring endangered tidewater goby along California's north coast.
Multi-method occupancy analysis input data PRESENCE 7.5
Input data for multi-method occupancy analysis using Program Presence 7.5.
Hierarchical Occupancy Model R Code
R code for hierarchical occupancy analysis using WinBUGS.
Hierarchical Occupancy Model Input Data
Data input file for hierarchical occupancy analysis using WinBUGS.
Generalized linear model data input for DNA concentration analysis.