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Interest in the field of environmental DNA (eDNA) is growing rapidly and eDNA surveys are becoming an important consideration for aquatic resource managers dealing with invasive species. However, in order for eDNA monitoring to mature as a research and management tool, there are several critical knowledge gaps that must be filled. One such gap is the fate of eDNA materials in the aquatic environment. Understanding the environmental factors that influence the decay of eDNA and how these factors impact detection probabilities over time and space could have significant implications for eDNA survey design and data interpretation. Here we experimentally explore eDNA decay in waste materials and reproductive cells obtained...
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.
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Data describe a designed environmental DNA (eDNA) survey for the detection of longnose darter (Percina nasuta) in field collected water samples. Parameters described include the limit of detection and limit of quantification of the assay; a list of freshwater fish species tissue samples that were used to test specificity of the assay; and field collected water samples that were tested to detect the presence of longnose darter DNA. Samples were collected from sites on the St. Francis river, Missouri in 2018.
Text files containing data regarding attributes of lake trout egg thiamine concentrations from sites in lakes Huron and Michigan collected during 2019-20, sampling site locations and quality assurance quality control values for comparison to previous years (2017-18) lake trout egg thiamine concentrations.
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Baseline fish health information on pallid sturgeon and bull trout or appropriate surrogate species (shovelnose sturgeon, cutthroat trout, mountain whitefish) in critical habitats with elevated risks of oil spills. Shovelnose sturgeon (Scaphirhynchus platorynchus) were collected in three locations near the confluence of the Missouri and Yellowstone Rivers and cutthroat trout (Oncorhynchus clarki lewisi) and mountain whitefish (Prosopium williamsoni) were collected from critical bull trout habitat along the Middle Fork of the Flathead River. Fish health metrics evaluated included gene expression/enzyme induction in various tissues, differential changes in white blood cells, polycyclic aromatic hydrocarbon bile metabolites,...
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Geospatial locations of eDNA sampling sites in the Grand Canyon region near breccia pipe uranium mines
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This dataset includes microsomal EROD data from an assay done with liver samples from several fish species that are found in Arizona at sites that are being assessed for PBDE contamination. The data was created in September and October 2016.
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Largemouth base histological development and transcriptomic changes in gonad tissue after early life stage exposure to Atrazine (1-Chloro-3-ethylamino-5-isopropylamino-2,4,6-triazine) or the model estrogen 17α-ethinylestradiol.
The data describe the technical performance of a designed qPCR assay for the detection of mucket (Actinonaias ligamentina) eDNA from field collected water samples. Parameters described include the sequences of the primers and probes used; the limit of detection and limit of quantification for the assay; a list of freshwater mussels species that were used to test specificity of the assay; and in situ field samples that were tested to the verify assay.
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This data describes the relative luminescence units and relative fluorescence units of lysates of two estrogen responsive chemically-activated luciferase expression human breast VM7Luc4E2 and VM7LucERbc9 cells which were exposed for 24 hours to estrone and 17beta-estradiol dilutions alone and in mixture with atrazine or water extracts collected from dilutor tanks during a fish exposure study utilizing estrone and atrazine. The data for corresponding measurements of estrone in the water extracts by liquid chromatography-mass spectrometry are also shown. This data also describes relative fluorescence units of bovine serum albumin standards which were used to convert the relative fluorescence units of the cell lysates...
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We have adapted two commonly used human breast luciferase transactivation cell bioassays, the recently re-named estrogen agonist/antagonist screening VM7Luc4E2 cell bioassay (previously designated BG1Luc4E2) and the androgen/glucocorticoid screening MDA-kb2 cell bioassay, to 384-well formats for HTS of endocrine-active substances. This cost-saving adaptation includes a fast, accurate, and easy measurement of protein amount in each well via the fluorescamine assay (in the form of relative fluorescence units, RFU which are then converted to microgram protein using bovine serum albumin standards) with which to normalize luciferase activity (in the form of relative light units, RLU) of cell lysates without requiring...
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Data describe results of a set of laboratory experiments using polyacrylamide gel electrophoresis with a thiaminase activity stain to test the solubility and thiaminase activity of recombinant putative thiaminases expressed in E. coli. Parameters described include the presence and relative mobility of thiaminases, and the presence and relative mobility of recombinant proteins. Experiments were conducted at the USGS Columbia Environmental Research Center, Columbia, MO in 2012 and 2013.
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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.
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This data consists of information on the specificity and sensitivity of 4 species specific qPCR assays for the detection of eDNA from 4 species of freshwater mussels, specifically Lampsilis cardium, Lampsilis siliquoidea, Pyganodon grandis, and Anodontoides ferussacianus. The data also contain the results of eDNA sampling in Niobrara River at Niobrara National Scenic River and Agate Fossil Beds National Monument for detection of these 4 species.
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Data describe the results of a controlled laboratory mesocosm experiment evaluating the influence of a nitrifier enriched microbial community on silver carp (Hypophthalmichthys molitrix) milt eDNA degradation. Parameters described include the concentration results, limit of detection, and limit of quantification of two silver carp specific quantitative PCR assays and water chemistry results of experimental mesocosms.
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Data describe a designed environmental DNA (eDNA) experiment for the estimation of eDNA degradation rates for the mucket (Actinonaias ligamentina) from water samples collected in the laboratory. Samples were collected from experiments performed from November 01, 2019 to November 15, 2019 at the USGS Columbia Environmental Research Center, Missouri
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This data set describes developmental and physiological effects observed in fathead minnow embryos that were exposed to sodium nitrate or conductivity-matched controls. Exposures were conducted in the laboratory from fertilization through 21 days post-fertilization (dpf). Nitrate doses were 0, 2, 5, 10, 25, or 100 milligrams per liter nitrate-nitrogen; conductivity controls were matched to the 10 and 100 milligrams per liter nitrate-nitrogen treatments. During the experiment, we assessed heart rate and percent arrhythmic heart beats at 3 dpf, timing of hatch and inflation of the posterior and anterior swim bladders, presence of pericardial edema or scoliosis, fish metrics at 21 dpf (fish length and weight; swim...


map background search result map search result map Development of a dual luciferase-fluorescamine assay adapted to a 384 micro-well plate format-Data Microsomal EROD data of fish liver sample assay from species collected in the Salt and Gila Rivers, Arizona eDNA sampling sites in the Grand Canyon region near breccia pipe uranium mines 2015-2016 Acute toxicity and clotting times of anticoagulant rodenticides to red-toothed (Odonus niger) and black (Melichthys niger) triggerfish, fathead minnow (Pimephales promelas), and largemouth bass (Micropterus salmoides) Effects of early life stage exposure of largemouth bass to atrazine or a model estrogen (17α-ethinylestradiol) Mucket eDNA detection in Wallen’s Bend, Clinch river, Tennessee, September 2019 Metabarcoding data from freshwater mussel eDNA collected in Clinch River, Virginia 2017 Longnose darter (Percina nasuta) eDNA survey results from the St. Francis River, Missouri 2018 Thiamine concentrations in lake trout eggs collected from the Great Lakes in 2019-20 Baseline fish health metrics in at-risk habitats critical for pallid sturgeon (Scaphirhynchus albus) in the Upper Missouri River Basin and bull trout (Salvelinus confluentus) in the Flathead River, Montana, 2017-18 Polyacrylamide gel electrophoresis results with thiaminase activity stain of recombinant putative thiaminases expressed in E. coli Water chemistry and fish health effects for fathead minnow embryos exposed to sodium nitrate and matched conductivity controls for 21 days post fertilization Physiological and molecular endpoints observed in juvenile largemouth bass in response to an estrogen (17α-ethinylestradiol) and subsequently a bacterial challenge (Edwardsiella piscicida) exposure under laboratory conditions. Quantitation of estrogens in water, alone and in combination with atrazine, using two chemically-activated luciferase expression, CALUX, bioassays and quadrupole-time of flight ultraperformance liquid chromatography/mass spectrometry, UPLC-MS Water chemistry and molecular eDNA data observed in experimental laboratory mesocosms exposed to different nitrogen amendments in the presence or absence of a nitrifier enriched microbial community Alternative complement pathway assay data for adult largemouth bass exposed in outdoor ponds to 17alpha-ethinylestradiol or an estrone-atrazine mixture Environmental DNA shedding rates in laboratory conditions for Cumberlandia monodonta, Actinonaias ligamentina, and Lampsilis siliquoidea. Laboratory estimates of eDNA degradation rates for Actinonaias ligamentina eDNA Development, testing and use of four species-specific qPCR assays for freshwater mussel eDNA detection in the Niobrara River Acute toxicity and clotting times of anticoagulant rodenticides to red-toothed (Odonus niger) and black (Melichthys niger) triggerfish, fathead minnow (Pimephales promelas), and largemouth bass (Micropterus salmoides) Physiological and molecular endpoints observed in juvenile largemouth bass in response to an estrogen (17α-ethinylestradiol) and subsequently a bacterial challenge (Edwardsiella piscicida) exposure under laboratory conditions. Polyacrylamide gel electrophoresis results with thiaminase activity stain of recombinant putative thiaminases expressed in E. coli Water chemistry and fish health effects for fathead minnow embryos exposed to sodium nitrate and matched conductivity controls for 21 days post fertilization Quantitation of estrogens in water, alone and in combination with atrazine, using two chemically-activated luciferase expression, CALUX, bioassays and quadrupole-time of flight ultraperformance liquid chromatography/mass spectrometry, UPLC-MS Water chemistry and molecular eDNA data observed in experimental laboratory mesocosms exposed to different nitrogen amendments in the presence or absence of a nitrifier enriched microbial community Environmental DNA shedding rates in laboratory conditions for Cumberlandia monodonta, Actinonaias ligamentina, and Lampsilis siliquoidea. Laboratory estimates of eDNA degradation rates for Actinonaias ligamentina eDNA Development, testing and use of four species-specific qPCR assays for freshwater mussel eDNA detection in the Niobrara River Mucket eDNA detection in Wallen’s Bend, Clinch river, Tennessee, September 2019 Alternative complement pathway assay data for adult largemouth bass exposed in outdoor ponds to 17alpha-ethinylestradiol or an estrone-atrazine mixture Effects of early life stage exposure of largemouth bass to atrazine or a model estrogen (17α-ethinylestradiol) Longnose darter (Percina nasuta) eDNA survey results from the St. Francis River, Missouri 2018 eDNA sampling sites in the Grand Canyon region near breccia pipe uranium mines 2015-2016 Metabarcoding data from freshwater mussel eDNA collected in Clinch River, Virginia 2017 Baseline fish health metrics in at-risk habitats critical for pallid sturgeon (Scaphirhynchus albus) in the Upper Missouri River Basin and bull trout (Salvelinus confluentus) in the Flathead River, Montana, 2017-18 Thiamine concentrations in lake trout eggs collected from the Great Lakes in 2019-20