Skip to main content
Advanced Search

Filters: Tags: environmental DNA (X)

109 results (39ms)   

View Results as: JSON ATOM CSV
thumbnail
We designed two new samplers for monitoring airborne particulates, including fungal and fern spores and plant pollen, that rely on natural wind currents (Passive Environmental Sampler) or a battery operated fan (Active Environmental Sampler). Both samplers are modeled after commercial devices such as the Rotorod® and the Burkard samplers, but are more economical and require less maintenance than commercial devices. We conducted wind tunnel comparisons of our two new samplers to Rotorod® samplers using synthetic polyethylene spheres (12 - 160 µm in diameter) to compare numbers and size range of particulates that are captured by the samplers. This dataset contains raw numbers of polyethylene spheres that were captured...
thumbnail
This data release documents specificity of quantitative polymerase chain reaction (qPCR) assays to detect environmental DNA (eDNA) from tilapia, western mosquito fish and guppies. These assays provide new tools for resource managers to monitor effectiveness of management efforts to remove invasive fish from anchialine pools in Hawaii and to also survey pools for presence and absence of invasive fish. The lab work was conducted during 2019-2022.
thumbnail
Bullseye snakehead, Channa marulius, was first detected in 2000 in the southern Florida town of Tamarac and has been expanding its geographic range. Environmental DNA (eDNA) analysis is a newly-developed technique used to non-invasively detect cryptic or low-density species, or those that are logistically difficult to study. Genetic material shed into the environment through tissue and body fluids is concentrated from water samples and analyzed for the presence of target species eDNA. To help delineate bullseye snakehead’s geographic range, we developed and validated a species-specific eDNA assay for both quantitative and droplet digital PCR (ddPCR). We then used ddPCR to assess 16 locations in southeast Florida...
This dataset includes quantifications of bigheaded carp DNA found in water samples collected from the Wabash River along transects at 3 sites over time. The samples were collected at 18 equidistant points in a transect across the river at each site. Samples were collected in 2013 on May 29, 30, 31, June 5, 6, 7, 8, 9, 10, 11, 16, 17, 19, 20, 21, and 22. Quantitative polymerase chain reaction (qPCR) was performed to determine the DNA concentrations in two replicates using the bigheaded carp assay defined in Merkes and others 2014.
Data from metabarcoding assays to detect a suite of mussel species using mitochondrial DNA regions of the cytochrome c oxidase subunit I (COI) and NADH dehydrogenase subunit (ND1) genes sequences.
thumbnail
This data was collected by the US Fish and Wildlife Service to see if environmental DNA (eDNA) varied across pools and within pools in the Illinois River basin. The data was collected in 2015 from three different habitat types: shoreline, main channel, and bays. The resulting data were then analyzed using an occupancy model.
thumbnail
The data support a study that describes the development and validation of a primer and probe based quantitative PCR (qPCR) assay for use with environmental DNA to detect Northwest salamander (Ambystoma gracile), a species endemic to the temperate Pacific coastal region of North America. The metadata includes qPCR quantification cycle (Cq) values from testing the A. gracile assay on DNA extracted from tissue samples derived from several A. gracile and closely related species and Cq values from testing the assay on environmental DNA (eDNA ) samples collected from two lakes, one containing A. gracile and one without the species.
thumbnail
To evaluate the ability of precipitation-based environmental DNA (eDNA) sample collection and mitochondrial 12S metabarcoding sequencing to reconstruct well-studied fish communities in lakes and rivers. Specific objectives were to 1) determine correlations between eDNA species detections and known community composition based on traditional field sampling, 2) compare efficiency of eDNA to detect fish biodiversity among systems with variable morphologies and trophic states, and 3) determine if species habitat preferences predicts eDNA detection. Fish community composition was estimated for seven lakes and two MIssissippi River navigation pools using sequence data from the mitochonrial 12S gene amplified from 10 to...
thumbnail
We developed and validated conventional and quantitative real-time PCR assays for the detection of DNA from the myxozoan parasite Tetracapsuloides bryosalmonae, the causative agent of proliferative kidney disease in fish. Assays were tested on fish tissue and on field-collected water samples to assess diagnostic and environmental DNA capabilities. The specificity, sensitivity, and broad applicability of the present assays surpass previous methods for detecting T. bryosalmonae DNA from fish tissue and water samples.
thumbnail
Positive and negative dreissenid mussel DNA quantitiative PCR results from environmental DNA water samples collected in Montana, Wisconsin and Minnesota to assess if environmental DNA can extend the seasonal window for dreissenid mussel early detection.
thumbnail
Data describe designed environmental DNA (eDNA) experiments for the estimation of eDNA shedding rates for the spectaclecase (Cumberlandia monodonta), mucket (Actinonaias ligamentina), and fatmucket (Lampsilis siliquoidea) from water samples collected in the laboratory under differing laboratory conditions. Shedding rates were tested under variable mussel biomass, diet, and temperature. Parameters described include descriptions of laboratory collected water samples that were tested to estimate concentration of spectaclecase, mucket or fatmucket DNA qPCR results, and associated quality assurance measurements.
thumbnail
Reported here are the metabarcoding read numbers and biomass data assessed from a fish community in a southern Florida pond in Pinecrest Gardens after invasive species eradication and native restocking in 2017 and 2018 in linear regression models. This dataframe contains the number of fish of each species identified, their measured lengths estimated population surface area, and the number of metabarcoding reads (with SD and COV) for each species observed from the sampling date.
thumbnail
Rapid ʽŌhiʽa Death (ROD) currently threatens ōhiʽa lehua (Metrosideros polymorpha) on Hawaiʽi Island. First identified in Puna in 2014, the disease has now spread island wide. Besides direct sampling of trees, environmental sampling could serve as an easier and broader strategy to detect Ceratocystis spp., the fungi causing ROD. Environmental sampling could also help monitor the effect of felling ROD infected trees. We developed Passive and Active Environmental Samplers and deployed them at a property in Puna, where both C. lukuohia, and C. huliohia had been detected, and where the land owner practiced the management method of felling infected trees. We set up 2 Active Environmental Samplers (modified mosquito traps...
thumbnail
Water samples from the Platte River were collected and analyzed for environmental DNA (eDNA). The U.S. Geological Survey (USGS) Nebraska Water Science Center (NEWSC) collected samples monthly from November 2019 to September 2022 at the Platte River near Ashland, Nebraska (USGS: 06801000). The USGS, in cooperation with the City of Lincoln, collected these samples. Water from the Platte River was collected as a series of weighted bottle subsamples that were taken from equal width increments across the river and composited into a sterilized 1-liter bottle. An aliquot of this composited sample was extracted using a sterile syringe and then filtered by the USGS NEWSC staff using filters provided by Jonah Ventures. These...
thumbnail
The data support a study that surveyed the spatial distribution of Oncorhynchus mykiss and Cottus aleuticus eDNA in coastal streams of Big Sur, California, 2021-2022 following post-fire debris flows. The metadata represent qPCR quantification cycle (Cq) values for O. mykiss and C. aleuticus assays performed on water samples collected during June and July of 2021 and 2022 from the following streams: Big Creek, Mill Creek, Prewitt Creek, and Willow Creek. The metadata also includes the distance (meters) of each eDNA sample site from the stream mouth, volume of water (Liters) collected for eDNA analysis at each site, and the Y-intercept, slope, and R-squared value for each assay run.
thumbnail
The data support a study that surveyed the spatial and temporal distribution of salmon eDNA in Seattle urban creeks, Washington, 2018 - 2020. The metadata represent qPCR quantification cycle (Cq) values for Chinook salmon, coho salmon, and coastal cutthroat trout assays performed on water samples collected on specific days at specific sites on Thornton Creek, Taylor Creek, and Mapes Creek, which are tributaries of Lake Washington within Seattle city limits. The metadata also includes latitude and longitude for each site and Y-intercept and slope for each assay run.
thumbnail
Data included are from a series of field sample collections from Lakes Michigan and Huron, and laboratory mesocosms targeting the round goby fish (Neogobius melanostomus). The round goby is a benthic fish that has heavily invaded four of the five Laurentian Great Lakes. Because it inhabits a variety of substrates, including coastal breakwaters, traditional methods (e.g., trawling, trapping) are inadequate to quantify overall population size. Environmental DNA (eDNA) may be a viable option for improving detection and quantification of the species. Field data include number of round goby caught and associated ambient conditions of the aquatic matrix (temperature, pH, turbidity, conductivity, dissolved oxygen). Mesocosm...
thumbnail
Real-time PCR results of a round robin evaluation of 5 assays that target dreissenid mussel DNA. Water samples collected from waters with and without dreissenid mussels were analyzed using these five assays in four USGS laboratories. Samples from waters without dreissenid mussels were spiked with known amounts of dreissend DNA.
Field estimates of the abundance of rainbow trout in Washington and British Columbia were collected in concert with environmental DNA samples (eDNA) to evaluate if eDNA copy numbers correlated with abundance of trout. In addition, stream habitat data including channel units (pools, riffles), substrate, large woody debris, among others, were collected at sites.
thumbnail
These data provide geographic coordinates (latitude and longitude) and elevation of Passive Environmental Samplers (PES) that were deployed to detect airborne propagules of the invasive fungi that cause Rapid Ohia Death (Ceratocystis lukuohia and C. huliohia) and Ohia Rust (Austropuccina psidii).


map background search result map search result map Conventional and quantitative PCR assays for detecting Tetracapsuloides bryosalmonae in fish tissue and environmental DNA water samples Round goby eDNA survey, evaluation, and laboratory data in Lakes Michigan and Huron 2016-2017 Orchidlands Estates Ceratocystis DNA Detection 2016 Polyethylene Particle Detection (counts) during Environmental Sampler Comparison Environmental DNA results from dreissenid mussel early detection surveys in Montana, Minnesota, and Wisconsin 2017-2018 Bullseye snakehead environmental DNA data, and associated attributes, collected from southeast Florida, from 2015-2018 PCR results from dreissenid mussel round robin assay analyses, 2018-2019 Fish abundance, environmental DNA, and stream habitat data from Washington, and southern British Columbia, Canada Metabarcoding data from freshwater mussel eDNA collected in Clinch River, Virginia 2017 Wabash River, Indiana bigheaded carps environmental DNA: Data Environmental DNA metabarcoding as a tool for biodiversity assessment and monitoring: Reconstructing established fish communities of north-temperate lakes and rivers Geographic Locations and Elevations of Passive Environmental Samplers 2016 - 2017 Fish community assessment using environmental DNA metabarcoding data after an invasive species eradication and native restocking effort in Pinecrest Gardens, FL in 2017-18 Spatial and temporal surveys of salmon eDNA in Seattle urban creeks, Washington, 2018 - 2020 Environmental DNA of selected terrestrial vertebrates and bacteria detected in the Platte River near Ashland, Nebraska 2019-22 Puuhonua o Honaunau and Kaloko-Honokohau National Historical Parks, carbon dioxide treatment and qPCR eDNA assays for eradicating and monitoring invasive fish in anchialine pools, primer specificity, 2019-2022 Data relating to the development of a quantitative PCR assay for detecting Northwest salamander (Ambystoma gracile) in environmental DNA samples Illinois River basin silver carp and bighead carp eDNA gradient study from 2015 Biomass experiments with Cumberlandia monodonta, Actinonaias ligamentina, and Lampsilis siliquoidea Environmental DNA survey results for Oncorhynchus mykiss and Cottus aleuticus in coastal streams of Big Sur, California, 2021-2022 Fish community assessment using environmental DNA metabarcoding data after an invasive species eradication and native restocking effort in Pinecrest Gardens, FL in 2017-18 Biomass experiments with Cumberlandia monodonta, Actinonaias ligamentina, and Lampsilis siliquoidea Environmental DNA of selected terrestrial vertebrates and bacteria detected in the Platte River near Ashland, Nebraska 2019-22 Polyethylene Particle Detection (counts) during Environmental Sampler Comparison Orchidlands Estates Ceratocystis DNA Detection 2016 Puuhonua o Honaunau and Kaloko-Honokohau National Historical Parks, carbon dioxide treatment and qPCR eDNA assays for eradicating and monitoring invasive fish in anchialine pools, primer specificity, 2019-2022 Environmental DNA survey results for Oncorhynchus mykiss and Cottus aleuticus in coastal streams of Big Sur, California, 2021-2022 Metabarcoding data from freshwater mussel eDNA collected in Clinch River, Virginia 2017 Fish abundance, environmental DNA, and stream habitat data from Washington, and southern British Columbia, Canada Bullseye snakehead environmental DNA data, and associated attributes, collected from southeast Florida, from 2015-2018 Geographic Locations and Elevations of Passive Environmental Samplers 2016 - 2017 Environmental DNA metabarcoding as a tool for biodiversity assessment and monitoring: Reconstructing established fish communities of north-temperate lakes and rivers Illinois River basin silver carp and bighead carp eDNA gradient study from 2015 Wabash River, Indiana bigheaded carps environmental DNA: Data Round goby eDNA survey, evaluation, and laboratory data in Lakes Michigan and Huron 2016-2017 Environmental DNA results from dreissenid mussel early detection surveys in Montana, Minnesota, and Wisconsin 2017-2018 Conventional and quantitative PCR assays for detecting Tetracapsuloides bryosalmonae in fish tissue and environmental DNA water samples Data relating to the development of a quantitative PCR assay for detecting Northwest salamander (Ambystoma gracile) in environmental DNA samples PCR results from dreissenid mussel round robin assay analyses, 2018-2019