Effect of water temperature and fish biomass on environmental DNA shedding, degradation, and size distribution

Jo, Toshiaki; Murakami, Hiroaki; Yamamoto, Satoshi; Masuda, Reiji; Minamoto, Toshifumi

doi:10.1002/ece3.4802

Cited by 206 publications

(298 citation statements)

References 64 publications

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“…The observed lower eDNA concentration during spring may be due to an increased water flow during this time and/or a reduction in the metabolic rates due to lower water temperatures (autumn and spring water temperatures were 21.19°C (±1.06°C) and 12.81°C (±2.08°C), respectively). Previous studies have also found that flow rates influence eDNA concentrations and detection probabilities (Jane et al, ; Shogren et al, ), while the effects of water temperature are less well understood (Buxton et al, ; Jo, Murakami, Yamamoto, Masuda, & Minamoto, ; Klymus, Richter, Chapman, & Paukert, ). The eDNA metabarcoding results did not reveal a significant effect of sampling season.…”

Section: Discussionmentioning

confidence: 99%

A performance evaluation of targeted eDNA and eDNA metabarcoding analyses for freshwater fishes

et al. 2019

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Background:The use of environmental DNA analysis has revolutionized biodiversity monitoring. Initially, eDNA monitoring surveys in aquatic environments utilized a targeted approach, but there has been a steady shift toward whole community assessments (eDNA metabarcoding). Both approaches can increase the detection sensitivity for rare and elusive species, compared to more conventional methods.However, it is important to understand the benefits and limitations of targeted and whole community eDNA monitoring to tailor surveys to research questions and management objectives.Aims: Here, we aimed to test the relative merits of targeted eDNA analysis versus eDNA metabarcoding in an intermittent river system. Methods: First, samples collected during different seasons were used to assess the influence of seasonality on the detection probabilities of both methods. Second, detection probabilities from the two monitoring approaches for one focal species were compared to evaluate the sensitivity of both methods. Finally, the data from an eDNA metabarcoding survey conducted across the outer distribution limits of an invasive species were used to evaluate whether species interactions can be inferred by this method.Results: Analyses showed that sampling intermittent river systems during low flow events increases the performance of the targeted eDNA surveys, while sampling season does not influence the performance of eDNA metabarcoding surveys.Environmental DNA metabarcoding was found to be less sensitive than a targeted monitoring approach, thus making the latter more suitable for generating detailed distribution data. Nevertheless, eDNA metabarcoding survey data can be interpreted in a semiquantitative manner and can provide insights into biological interactions. K E Y W O R D S eDNA metabarcoding, environmental DNA, fishes, real-time PCR | 403 BYLEMANS Et AL.

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Section: Discussionmentioning

confidence: 99%

A performance evaluation of targeted eDNA and eDNA metabarcoding analyses for freshwater fishes

et al. 2019

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“…Baselines of biodiversity can be collected through eDNA, which can aid in the understanding of short-term or long-term changes by comparing to future collections (Jarman et al, 2018). While residence time for some species' eDNA have been reported (Sassoubre et al, 2016;Jo et al, 2019), more studies on the fate and transport of eDNA (Andruszkiewicz et al, 2017a(Andruszkiewicz et al, , 2019Collins et al, 2018) will improve the use of eDNA to better understand the diurnal, seasonal, or anomalous distribution of select organisms. Extending long-term biomonitoring programs to include eDNA could improve taxon detection and resolve long-term patterns or changes in species of concern (Berry et al, 2019).…”

Section: Discussionmentioning

confidence: 99%

“…Extending long-term biomonitoring programs to include eDNA could improve taxon detection and resolve long-term patterns or changes in species of concern (Berry et al, 2019). For commercially important and managed vertebrates where abundance may be desired, species-specific qPCR assays could be designed to target eDNA of a particular taxon (Sassoubre et al, 2016;Lafferty et al, 2018;Jo et al, 2019). While this study provides one example of eDNA assessment for pelagic ecosystem biomonitoring targeting fish and mammal biodiversity, the method can be expanded to also detect other groups such as seabirds (Ushio et al, 2018) and sea turtles (Kelly et al, 2014).…”

Section: Discussionmentioning

confidence: 99%

Marine Vertebrate Biodiversity and Distribution Within the Central California Current Using Environmental DNA (eDNA) Metabarcoding and Ecosystem Surveys

et al. 2019

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Frontiers in Marine Science | www.frontiersin.org December 2019 | Volume 6 | Article 732Closek et al.California Current Marine Vertebrate eDNA 2016. Differences in assemblages identified by eDNA were coincident with different oceanographic conditions (e.g., upwelling and stratification). In 2016, weak upwelling and warmer than average conditions were measured, and vertebrate assemblages were not different among ecological regions [Point Reyes, Pescadero, and Monterey Bay]. While in 2017, average upwelling conditions returned, vertebrate assemblages differed at each region. This study illustrates that eDNA provides a new baseline for vertebrate assessments that can both augment traditional biomonitoring surveys and aid our understanding of changes in biodiversity.

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“…Temperature is reported to affect DNA production (Jo et al. ), as is body size (Maruyama et al. ), which may have contributed to less eDNA detected in Spring Creek, which was 5°C colder and had less total fish mass than in the Blue River.…”

Section: Discussionmentioning

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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Effect of water temperature and fish biomass on environmental DNA shedding, degradation, and size distribution

Cited by 206 publications

References 64 publications

A performance evaluation of targeted eDNA and eDNA metabarcoding analyses for freshwater fishes

A performance evaluation of targeted eDNA and eDNA metabarcoding analyses for freshwater fishes

Marine Vertebrate Biodiversity and Distribution Within the Central California Current Using Environmental DNA (eDNA) Metabarcoding and Ecosystem Surveys

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

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