Controls on eDNA movement in streams: Transport, Retention, and Resuspension

Shogren, Arial J.; Tank, Jennifer L.; Andruszkiewicz, Elizabeth A.; Olds, Brett P.; Mahon, Andrew R.; Jerde, Christopher L.; Bolster, Diogo

doi:10.1038/s41598-017-05223-1

Cited by 250 publications

(326 citation statements)

References 55 publications

(103 reference statements)

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“…Previous studies on eDNA transport have primarily focused on river networks, given the unidirectional flow, and have found support for mechanistic models that predict transport distance as functions of DNA production and decay dynamics interacting with local hydrologic conditions, such as discharge and substrate roughness (Shogren et al 2017, Pont et al 2018. Previous studies on eDNA transport have primarily focused on river networks, given the unidirectional flow, and have found support for mechanistic models that predict transport distance as functions of DNA production and decay dynamics interacting with local hydrologic conditions, such as discharge and substrate roughness (Shogren et al 2017, Pont et al 2018.…”

Section: Discussionmentioning

confidence: 99%

Adding invasive species biosurveillance to the U.S. Geological Survey streamgage network

et al. 2019

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The costs of invasive species in the United States alone are estimated to exceed US$100 billion per year, so a critical tactic in minimizing the costs of invasive species is the development of effective, early-detection systems. To this end, we evaluated the efficacy of adding environmental (e)DNA surveillance to the U.S. Geological Survey (USGS) streamgage network, which consists of >8200 streamgages nationwide systemically visited by USGS hydrologic technicians. Incorporating strategic eDNA sample collection during routine streamgage visits could provide early-detection surveillance of aquatic invasive species with minimal additional cost. For this evaluation, USGS hydrologic technicians collected monthly eDNA water samples, May-September 2018, from streamgages downstream of reservoirs in the Columbia River Basin thought to be vulnerable to invasive dreissenid mussel (Dreissenidae spp.) establishment. We tested water samples for dreissenid mussel DNA and also for kokanee (Oncorhynchus nerka) and yellow perch (Perca flavescens) DNA; the two fishes were used to assess if streamgages are adequately located to provide early-detection eDNA surveillance of taxa known to be present in upstream reservoirs. No Columbia River Basin streamgage samples met our criteria for being scored as positive for dreissenid DNA. We did detect kokanee and yellow perch DNA at all streamgages downstream of reservoirs where these species are known to occur. Field collection, laboratory analyses, and personnel time required for collection of four eDNA samples at a streamgage site cost US$500-US$600 (net). Given these results, incorporating eDNA biosurveillance into routine streamgage visits might decrease costs associated with an invasion since early detection maximizes the potential for eradication, containment, and mitigation.

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Section: Discussionmentioning

confidence: 99%

Adding invasive species biosurveillance to the U.S. Geological Survey streamgage network

et al. 2019

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“…The unidirectional water flow in lotic environments creates specific opportunities and challenges for estimating species presence and abundance from eDNA (Shogren et al, 2017). While eDNA degradation and deposition may be rapid (Barnes et al, 2014;Dejean et al, 2011;Jerde et al, 2016;Pilliod, Goldberg, Arkle, & Waits, 2014;Tillotson et al, 2018), downstream transport can be highly efficient (Deiner & Altermatt, 2014;Jane et al, 2015;Sansom & Sassoubre, 2017;Wilcox et al, 2016).…”

Section: Introductionmentioning

confidence: 99%

“…While eDNA degradation and deposition may be rapid (Barnes et al, 2014;Dejean et al, 2011;Jerde et al, 2016;Pilliod, Goldberg, Arkle, & Waits, 2014;Tillotson et al, 2018), downstream transport can be highly efficient (Deiner & Altermatt, 2014;Jane et al, 2015;Sansom & Sassoubre, 2017;Wilcox et al, 2016). Water samples may therefore hold detectable eDNA that has been shed by individuals located considerable distances upstream (Deiner, Fronhofer, Machler, Walser, & Altermatt, 2016;Shogren et al, 2017). Downstream transport of eDNA does at the same time hamper analysis of local presence and abundance of target species because any sample may hold a mixture of eDNA shed both locally and further upstream (Shogren et al, 2017).…”

Section: Introductionmentioning

confidence: 99%

“…Downstream transport of eDNA does at the same time hamper analysis of local presence and abundance of target species because any sample may hold a mixture of eDNA shed both locally and further upstream (Shogren et al, 2017). Knowledge on how environmental variables affect eDNA decay and transport may help to predict eDNA concentrations in dependence of species abundance (Carraro, Hartikainen, Jokela, Bertuzzo, & Rinaldo, 2018;Chambert, Pilliod, Goldberg, Doi, & Takahara, 2018;Shogren et al, 2017;Wilcox et al, 2016). However, only a few field studies have explored the relationship between the spatial distributions of individuals and eDNA concentrations in natural lotic systems (Doi et al, 2017;Spear, Groves, Williams, & Waits, 2015;Tillotson et al, 2018;Wilcox et al, 2016).…”

Section: Introductionmentioning

confidence: 99%

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Downstream transport and seasonal variation in freshwater pearl mussel (Margaritifera margaritifera) eDNA concentration

et al. 2019

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Environmental DNA (eDNA) can be used to detect the presence and abundance of aquatic organisms from water samples. Before implementing this methodology as a tool for monitoring, more knowledge is needed on variation in eDNA concentrations in relation to species abundance and potential confounding factors. Shedding and decay of eDNA may vary extensively over the season and are dependent on environmental factors such as water temperature and on biological processes such as activity level and reproduction. In lotic systems, eDNA concentrations are also affected by downstream transport of eDNA. Sessile freshwater mussels provide an ideal study system for investigating the relationship between species spatial distribution and eDNA concentrations in lotic systems. We quantified freshwater pearl mussel (Margaritifera margaritifera) eDNA concentrations at four localities in a natural river with detailed knowledge of mussel spatial distribution: (a) upstream of the known species distribution, just downstream (b) a small and (c) a large aggregation and (d) 1,700 m downstream of the large aggregation. To study seasonal variation, we quantified eDNA concentrations during three periods: (a) in late spring, with cold water and relatively inactive mussels; (b) in mid-summer, with higher water temperature and active mussel filtration; and (c) in late summer, during the release of larvae.Species detection was highly reliable, with no detection of eDNA upstream of the species distribution and complete detection downstream of the large aggregation.Detection success of the small aggregation was low, with 13% of the samples testing positive. Downstream transport was efficient, with no significant decrease in eDNA concentrations over 1,700 m river distance. Seasonal variation was strong, with a 20-fold increase in eDNA concentrations from late spring to late summer, during reproduction. Our results highlight both the potential and challenges of eDNA monitoring in lotic systems. K E Y W O R D Sconservation genetics, environmental DNA, freshwater mussels, species detection, unionidae | 65 WACKER Et Al.

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“…However, research into advection and degradation of eDNA in river systems is underway. Some studies have shown that eDNA is differentially retained as it interacts with various benthic substrates and thus resuspension of eDNA associated with stream discharge or other forms of substrate disturbance could influence sample inference and interpretation of results (Jerde et al ; Shogren et al ). We know that eDNA concentrations in lotic environments tend to decrease rapidly from their source, although this appears to be a function of flow (Jane et al ) and DNA decay rate (Nukazawa et al ), the latter of which is influenced by biological activity, ultraviolet radiation, temperature, and pH (Barnes et al ; Pilliod et al ; Strickler et al ; Seymour et al ).…”

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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Controls on eDNA movement in streams: Transport, Retention, and Resuspension

Cited by 250 publications

References 55 publications

Adding invasive species biosurveillance to the U.S. Geological Survey streamgage network

Adding invasive species biosurveillance to the U.S. Geological Survey streamgage network

Downstream transport and seasonal variation in freshwater pearl mussel (Margaritifera margaritifera) eDNA concentration

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

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