Comment: The Importance of Sound Methodology in Environmental DNA Sampling

Wilcox, Taylor M.; Carim, Kellie J.; Young, Michael K.; McKelvey, Kevin S.; Franklin, Thomas W.; Schwartz, Michael K.

doi:10.1002/nafm.10055

Cited by 39 publications

(52 citation statements)

References 26 publications

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“…This was partially overcome by the inclusion of three sample replicates at each site visit, which raised the overall detection probability to a more agreeable 0.641, at the expense of monitoring cost. Future studies should strive to maximize volume of water filtered when species are thought to be rare (Goldberg et al ; Wilcox, Carim, et al ; Wilcox, Young, et al ), or when environmental conditions preclude suitable sample volumes, increasing sample replicates or filter pore size may be a suitable alternative (Turner et al ; Minamoto et al ). This issue is not unique to the system presented in this study, but a common challenge when filtering eDNA samples in watersheds that experience increased sediment loads during spring‐runoff — especially watersheds comprised of clay or glacial silt or rich in organic matter.…”

Section: Discussionmentioning

confidence: 99%

Integration of eDNA‐Based Biological Monitoring within the U.S. Geological Survey’s National Streamgage Network

Pilliod

Laramie

MacCoy

et al. 2019

J American Water Resour Assoc

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This study explores the feasibility and utility of integrating environmental DNA (eDNA) assessments of species occurrences into the United States (U.S.) Geological Survey’s national streamgage network. We used an existing network of five gages in southwest Idaho to explore the type of information that could be gained as well as the associated costs and limitations. Hydrologic technicians were trained in eDNA sampling protocols and they collected samples during routine monthly visits to streamgages over an entire water year (2016). We analyzed the eDNA in the filtered water samples to determine the presence of two fish species: bull trout and rainbow trout. We then modeled the spatiotemporal distribution of each species using discharge and temperature data. To assess the influence of the spatial distribution of the gages on the biological information obtained, we also collected eDNA samples from locations between the gages three times during the water year. We found eDNA monitoring at the five gages provided meaningful information about the distribution of both species, especially when detection probabilities accounted for variations in temperature and discharge. Sampling between the gages provided additional information about bull trout distribution — the rarer of the two species. Our study suggests the integration of eDNA sampling into a streamgage network is feasible and could provide a novel and powerful source of biological information for riverine ecosystems in the U.S.

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Section: Discussionmentioning

confidence: 99%

Integration of eDNA‐Based Biological Monitoring within the U.S. Geological Survey’s National Streamgage Network

Pilliod

Laramie

MacCoy

et al. 2019

J American Water Resour Assoc

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“…The first issue that Wilcox et al. () raise is with the amount of water sampled in the field by Perez et al. () and Ulibarri et al.…”

Section: Volume Of Water Sampled In the Fieldmentioning

confidence: 99%

“…Wilcox et al. () contend that analysis of a small amount of template DNA (1 μL) in four replicates for each sample in Ulibarri et al. () and Perez et al.…”

Section: Volume Of Water Sampled In the Fieldmentioning

confidence: 99%

“…As Wilcox et al. () note, the inhibition of a molecular assay can result in false negatives and affect detection probability. They incorrectly conclude, however, that Ulibarri et al.…”

Section: Volume Of Water Sampled In the Fieldmentioning

confidence: 99%

“…As Wilcox et al. () point out, numerous studies have demonstrated that eDNA sampling generally provides greater detection probabilities than traditional techniques (Thomsen et al. ; McKelvey et al.…”

Section: Volume Of Water Sampled In the Fieldmentioning

confidence: 99%

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The Importance of Sound Methodology in Environmental DNA Sampling: Response to Comment

Amberg

Bonar

Perez

et al. 2018

N American J Fish Manag

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Environmental DNA as a non‐invasive sampling tool to detect the spawning distribution of European anadromous shads (Alosa spp.)

Antognazza

Britton

Potter

et al. 2019

Aquatic Conservation

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Populations of the European shads Alosa alosa (Linnaeus, 1758) and Alosa fallax Lacépède, 1800 (Alosa spp.) are protected under legislation because of their vulnerability to human disturbances. In particular, river impoundments block their upstream migration, preventing access to spawning areas. Knowledge on the spatial extent of their spawning is important for informing conservation and river management plans. Determining the spatial extent of Alosa spp. spawning is challenging. They enter rivers over a 2‐3‐month period and the species potentially migrate different distances upstream. Capture and handling can be problematic, spawning events generally occur at night, and kick‐sampling for eggs is limited to shallow water. Assessing their spatial extent of spawning could, however, incorporate non‐invasive sampling tools, such as environmental DNA (eDNA). An eDNA assay for Alosa spp. was successfully developed, based on the cytochrome c oxidase subunit I gene segment and quantitative polymerase chain reaction (qPCR). Application in spring 2017 to the River Teme (River Severn catchment, western England) revealed high sensitivity in both laboratory and field trials. Field data indicated Alosa spp. spawning between May and June, with migrants mainly restricted to areas downstream of the final impoundment. eDNA can thus be used as a non‐invasive sampling tool to determine the freshwater distribution of these fishes in Europe, enhancing their conservation at local and regional scales.

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Comment: The Importance of Sound Methodology in Environmental DNA Sampling

Cited by 39 publications

References 26 publications

Integration of eDNA‐Based Biological Monitoring within the U.S. Geological Survey’s National Streamgage Network

Integration of eDNA‐Based Biological Monitoring within the U.S. Geological Survey’s National Streamgage Network

The Importance of Sound Methodology in Environmental DNA Sampling: Response to Comment

Environmental DNA as a non‐invasive sampling tool to detect the spawning distribution of European anadromous shads (Alosa spp.)

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