Evaluation of environmental DNA to detect Sistrurus catenatus and Ophidiomyces ophiodiicola in crayfish burrows

Baker, Sarah J.; Niemiller, Matthew L.; Stites, Andrew J.; Ash, Kurt T.; Davis, Mark A.; Dreslik, Michael J.; Phillips, Christopher A.

doi:10.1007/s12686-018-1053-9

Cited by 21 publications

(32 citation statements)

References 4 publications

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Section: Reptile Ednamentioning

confidence: 99%

“…Additional aquatic snake studies have focused on the threatened eastern massasauga rattlesnake (Sistrurus catenatus) [73]. Fifty mL of water was taken from crayfish burrows, typical S. catenatus overwintering refugia, in occupied field sites [73]. Samples were centrifuged and filtered with a 1.4 µM cellulose acetate filter, extracted with a Qiagen Qiashredder and Qiagen DNeasy Blood and Tissue kit, and run through the Zymo PCR Inhibitor Removal Columns [73].…”

Section: Reptile Ednamentioning

confidence: 99%

“…Fifty mL of water was taken from crayfish burrows, typical S. catenatus overwintering refugia, in occupied field sites [73]. Samples were centrifuged and filtered with a 1.4 µM cellulose acetate filter, extracted with a Qiagen Qiashredder and Qiagen DNeasy Blood and Tissue kit, and run through the Zymo PCR Inhibitor Removal Columns [73]. A species-specific Taqman assay targeted the cytochrome oxidase I (COI) region of S. catenatus mitochondrial DNA (mtDNA) [73].…”

Section: Reptile Ednamentioning

confidence: 99%

“…Samples were centrifuged and filtered with a 1.4 µM cellulose acetate filter, extracted with a Qiagen Qiashredder and Qiagen DNeasy Blood and Tissue kit, and run through the Zymo PCR Inhibitor Removal Columns [73]. A species-specific Taqman assay targeted the cytochrome oxidase I (COI) region of S. catenatus mitochondrial DNA (mtDNA) [73]. Despite known local abundance and collecting water within a meter of a snake, only two of 100 environmental samples amplified positively with eDNA, compared to 12 positive snake detections with traditional methods within a 2 m radius [73].…”

Section: Reptile Ednamentioning

confidence: 99%

“…A species-specific Taqman assay targeted the cytochrome oxidase I (COI) region of S. catenatus mitochondrial DNA (mtDNA) [73]. Despite known local abundance and collecting water within a meter of a snake, only two of 100 environmental samples amplified positively with eDNA, compared to 12 positive snake detections with traditional methods within a 2 m radius [73]. This assay was not effective in determining S. catenatus presence compared to visual confirmation.…”

Section: Reptile Ednamentioning

confidence: 99%

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A Brief Review of Non-Avian Reptile Environmental DNA (eDNA), with a Case Study of Painted Turtle (Chrysemys picta) eDNA Under Field Conditions

et al. 2019

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Environmental DNA (eDNA) is an increasingly used non-invasive molecular tool for detecting species presence and monitoring populations. In this article, we review the current state of non-avian reptile eDNA work in aquatic systems, and present a field experiment on detecting the presence of painted turtle (Chrysemys picta) eDNA. Thus far, turtle and snake eDNA studies have shown mixed results in detecting the presence of these animals under field conditions. However, some instances of low detection rates and non-detection occur for these non-avian reptiles, especially for squamates. We explored non-avian reptile eDNA quantification by sampling four lentic ponds with different densities (0 kg/ha, 6 kg/ha, 9 kg/ha, and 13 kg/ha) of painted turtles over three months to detect differences in eDNA using a qPCR assay amplifying the COI gene of the mtDNA genome. Only one sample of the highest-density pond amplified eDNA for a positive detection. Yet, estimates of eDNA concentration from pond eDNA were rank-order correlated with turtle density. We present the “shedding hypothesis”—the possibility that animals with hard, keratinized integument do not shed as much DNA as mucus-covered organisms—as a potential challenge for eDNA studies. Despite challenges with eDNA inhibition and availability in water samples, we remain hopeful that eDNA can be used to detect freshwater turtles in the field. We provide key recommendations for biologists wishing to use eDNA methods for detecting non-avian reptiles.

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Section: Reptile Ednamentioning

confidence: 99%

Section: Reptile Ednamentioning

confidence: 99%

Section: Reptile Ednamentioning

confidence: 99%

Section: Reptile Ednamentioning

confidence: 99%

Section: Reptile Ednamentioning

confidence: 99%

See 3 more Smart Citations

A Brief Review of Non-Avian Reptile Environmental DNA (eDNA), with a Case Study of Painted Turtle (Chrysemys picta) eDNA Under Field Conditions

et al. 2019

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Inferring population connectivity in eastern massasauga rattlesnakes (Sistruruscatenatus) using landscape genetics

Martin

Peterman

Lipps

et al. 2023

Ecological Applications

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Assessing the environmental factors that influence the ability of a threatened species to move through a landscape can be used to identify conservation actions that connect isolated populations. However, direct observations of species' movement are often limited, making the development of alternate approaches necessary. Here we use landscape genetic analyses to assess the impact of landscape features on the movement of individuals between local populations of a threatened snake, the eastern massasauga rattlesnake (Sistrurus catenatus). We linked connectivity data with habitat information from two landscapes of similar size: a large region of unfragmented habitat and a previously studied fragmented landscape consisting of isolated patches of habitat. We used this analysis to identify features of the landscape where modification or acquisition would enhance population connectivity in the fragmented region. We found evidence that current connectivity was impacted by both contemporary land‐cover features, especially roads, and inherent landscape features such as elevation. Next, we derived estimates of expected movement ability using a recently developed pedigree‐based approach and least‐cost paths through the unfragmented landscape. We then used our pedigree and resistance map to estimate resistance polygons of the potential extent for S. catenatus movement in the fragmented landscape. These polygons identify possible sites for future corridors connecting currently isolated populations in this landscape by linking the impact of future habitat modification or land acquisition to dispersal ability in this species. Overall, our study shows how modeling landscape resistance across differently fragmented landscapes can identify habitat features that affect contemporary movement in threatened species in fragmented landscapes and how this information can be used to guide mitigation actions whose goal is to connect isolated populations.

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A review of applications of environmental DNA for reptile conservation and management

Nordstrom

Mitchell

Byrne

et al. 2022

Ecology and Evolution

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Reptile populations are in decline globally, with total reptile abundance halving in the past half century, and approximately a fifth of species currently threatened with extinction. Research on reptile distributions, population trends, and trophic interactions can greatly improve the accuracy of conservation listings and planning for species recovery, but data deficiency is an impediment for many species. Environmental DNA (eDNA) can detect species and measure community diversity at diverse spatio‐temporal scales, and is especially useful for detection of elusive, cryptic, or rare species, making it potentially very valuable in herpetology. We aim to summarize the utility of eDNA as a tool for informing reptile conservation and management and discuss the benefits and limitations of this approach. A literature review was conducted to collect all studies that used eDNA and focus on reptile ecology, conservation, or management. Results of the literature search are summarized into key discussion points, and the review also draws on eDNA studies from other taxa to highlight methodological challenges and to identify future research directions. eDNA has had limited application to reptiles, relative to other vertebrate groups, and little use in regions with high species richness. eDNA techniques have been more successfully applied to aquatic reptiles than to terrestrial reptiles, and most (64%) of studies focused on aquatic habitats. Two of the four reptilian orders dominate the existing eDNA studies (56% Testudines, 49% Squamata, 5% Crocodilia, 0% Rhynchocephalia). Our review provides direction for the application of eDNA as an emerging tool in reptile ecology and conservation, especially when it can be paired with traditional monitoring approaches. Technologies associated with eDNA are rapidly advancing, and as techniques become more sensitive and accessible, we expect eDNA will be increasingly valuable for addressing key knowledge gaps for reptiles.

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Evaluation of environmental DNA to detect Sistrurus catenatus and Ophidiomyces ophiodiicola in crayfish burrows

Cited by 21 publications

References 4 publications

A Brief Review of Non-Avian Reptile Environmental DNA (eDNA), with a Case Study of Painted Turtle (Chrysemys picta) eDNA Under Field Conditions

A Brief Review of Non-Avian Reptile Environmental DNA (eDNA), with a Case Study of Painted Turtle (Chrysemys picta) eDNA Under Field Conditions

Inferring population connectivity in eastern massasauga rattlesnakes (Sistruruscatenatus) using landscape genetics

A review of applications of environmental DNA for reptile conservation and management

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