Comparative Cost and Effort of Fish Distribution Detection via Environmental DNA Analysis and Electrofishing

Evans, Nathan T.; Shirey, Patrick D.; Wieringa, Jamin G.; Mahon, Andrew R.; Lamberti, Gary A.

doi:10.1080/03632415.2017.1276329

Cited by 193 publications

(188 citation statements)

References 40 publications

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“…The MBW sites, however, were not connected to nest sites in previous years (except for MBW09 and MBW 10).Strong temporal increases in eDNA during months associated with breeding have also been observed in a number of amphibians such as the eastern hellbender (Cryptobranchus alleganiensis alleganiensis), and Chinese and Japanese giant salamanders (Andrias davidianus and A. japonicus respectively)(Buxton, Groombridge, Zakaria, & Griffiths, 2017;Fukumoto, Ushimaru, & Minamoto, 2015;Spear, Groves, Williams, & Waits, 2015). Evans, Shirey, Wieringa,Mahon, and Lamberti (2017) detected brook trout (Salvelinus fontinalis) via both electrofishing and eDNA. During periods when walkover surveys were not possible due to turbidity, in this study eDNA sampling was still possible at these times.…”

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confidence: 96%

Identifying spawning sites and other critical habitat in lotic systems using eDNA “snapshots”: A case study using the sea lamprey Petromyzon marinus L.

Bracken

Rooney

Kelly‐Quinn

et al. 2018

Ecology and Evolution

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Many aquatic species of conservation concern exist at low densities and are inherently difficult to detect or monitor using conventional methods. However, the introduction of environmental (e)DNA has recently transformed our ability to detect these species and enables effective deployment of limited conservation resources. Identifying areas for breeding, as well as the ecological distribution of species, is vital to the survival or recovery of a conservation species (i.e., areas of critical habitat). In many species, spawning events are associated with a higher relative abundance of DNA released within an aquatic system (i.e., gametes, skin cells etc.), making this the ideal time to monitor these species using eDNA techniques. This study aims to examine whether a “snapshot” eDNA sampling approach (i.e., samples taken at fixed points in chronological time) could reveal areas of critical habitat including spawning sites for our target species Petromyzon marinus. We utilized a species‐specific qPCR assay to monitor spatial and temporal patterns in eDNA concentration within two river catchments in Ireland over three consecutive years. We found that eDNA concentration increased at the onset of observed spawning activity and patterns of concentration increased from downstream to upstream over time, suggesting dispersal into the higher reaches as the spawning season progressed. We found P. marinus to be present upstream of several potential barriers to migration, sometimes in significant numbers. Our results also show that the addition of a lamprey‐specific fish pass at an “impassable” weir, although assisting in ascent, did not have any significant impact on eDNA concentration upstream after the pass had been installed. eDNA concentration was also found to be significantly correlated with both the number of fish and the number of nests encountered. The application of snapshot sampling techniques for species monitoring therefore has substantial potential for the management of low‐density species in fast‐moving aquatic systems.

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confidence: 96%

Identifying spawning sites and other critical habitat in lotic systems using eDNA “snapshots”: A case study using the sea lamprey Petromyzon marinus L.

Bracken

Rooney

Kelly‐Quinn

et al. 2018

Ecology and Evolution

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show abstract

“…), eDNA sampling may be preferred and more cost effective (Evans et al. ) for occupancy estimates of species that are rare, sensitive to handling, or have low capture probabilities. If sampling effort is spatially distributed across the range of a species or at different times, this information can be used to infer its distribution or patterns of movement (McKelvey et al.…”

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confidence: 99%

Environmental DNA Sampling of Small‐Bodied Minnows: Performance Relative to Location, Species, and Traditional Sampling

Robinson

Paroz

Clement

et al. 2019

N American J Fish Manag

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We performed experiments in southwestern USA streams to evaluate the efficacy of environmental DNA (eDNA) sampling for two rare small‐bodied minnows: Spikedace Meda fulgida and Loach Minnow Rhinichthys cobitis. We collected eDNA by filtering 5‐L samples and compared detection sensitivity of eDNA assays to traditional sampling methods (electrofishing and seining) by using both techniques at 33 sites in seven streams. We used caged‐fish experiments to estimate eDNA production rates, persistence, and travel distances and to estimate relationships between fish density, biomass, and eDNA quantity. Loach Minnows were detected at 22 sites by both eDNA and traditional sampling, were not detected by either technique at 7 sites, and were detected only by eDNA at 4 sites. Spikedace were detected with both techniques at 15 sites, were not detected by either technique at 8 sites, and were detected only by eDNA at 7 sites. In the Verde River and Wet Beaver Creek, both species’ eDNA was detected downstream of caged fish out to our maximum sampling distance of 500 m. Estimated eDNA production rates were greater for Spikedace than for Loach Minnows, although more Spikedace were used. Production rates for both species were greater in the Verde River than in Wet Beaver Creek. Persistence of eDNA did not differ among species but was greater in Wet Beaver Creek than in the Verde River. In density experiments, the amount of Spikedace eDNA was positively related to the density and biomass of caged Spikedace, but the relationship differed between streams. We conclude that eDNA surveys are more sensitive than traditional methods for detecting rare minnows in southwestern streams. With the sensitivity to detect even a single fish in a 100‐m reach, managers will be able to more effectively identify reaches occupied by threatened or endangered fish, even if a population is in decline.

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“…Methods: PCR -end point-PCR on 750 ml of water using COI primers; qPCR1 -qPCR on 750 ml of water using 16S qPCR primers; qPCR2 -qPCR on 15 ml of water using 16S qPCR primers namely higher sensitivity and ease of collection (Evans, Shirey, Wieringa, Mahon, & Lamberti, 2017;Jones, 2013;Tucker et al, 2016). Methods: PCR -end point-PCR on 750 ml of water using COI primers; qPCR1 -qPCR on 750 ml of water using 16S qPCR primers; qPCR2 -qPCR on 15 ml of water using 16S qPCR primers namely higher sensitivity and ease of collection (Evans, Shirey, Wieringa, Mahon, & Lamberti, 2017;Jones, 2013;Tucker et al, 2016).…”

Section: Discussionmentioning

confidence: 99%

Monitoring the eradication of the highly invasive topmouth gudgeon (Pseudorasbora parva) using a novel eDNA assay

Robinson

2019

Environmental DNA

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This is an open access article under the terms of the Creat ive Commo ns Attri butio n-NonCo mmerc ial-NoDerivs License, which permits use and distribution in any medium, provided the original work is properly cited, the use is non-commercial and no modifications or adaptations are made. AbstractAquatic invasive species (AIS) represent an important threat for Biodiversity and are one of the factors determining the ecological integrity of water bodies under the Water Framework Directive. Eradication is one of the most effective tools for the management of invasive species but has important economic and ecological tradeoffs and its success needs to be carefully monitored. We assessed the eradication success of the topmouth gudgeon (Pseudorasbora parva), an invasive fish that poses significant risks to endemic aquatic fauna, in four ponds previously treated with the piscicide Rotenone using a novel qPCR-based environmental DNA (eDNA) assay. We validated the assay through successfully detecting DNA from topmouth gudgeon in two reservoirs with physically confirmed topmouth gudgeon populations. Topmouth gudgeon were detected in all four treated ponds using 750 ml water samples and in three of the ponds using 15 ml samples, despite the eradication treatment and lack of successful detection using conventional trapping methods. Our results highlight the difficulties of eradicating invasive fish and the need to incorporate reliable monitoring methods as part of a risk management strategy under the water framework directive (WFD). K E Y W O R D Saquatic invasive species, environmental DNA, invasion biology, water framework directive | 75 ROBINSON et al.

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Comparative Cost and Effort of Fish Distribution Detection via Environmental DNA Analysis and Electrofishing

Cited by 193 publications

References 40 publications

Identifying spawning sites and other critical habitat in lotic systems using eDNA “snapshots”: A case study using the sea lamprey Petromyzon marinus L.

Identifying spawning sites and other critical habitat in lotic systems using eDNA “snapshots”: A case study using the sea lamprey Petromyzon marinus L.

Environmental DNA Sampling of Small‐Bodied Minnows: Performance Relative to Location, Species, and Traditional Sampling

Monitoring the eradication of the highly invasive topmouth gudgeon (Pseudorasbora parva) using a novel eDNA assay

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