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The data document the results of several microbe bioassays performed by the USGS on Phragmites australis plants, including those performed on mature leaves, seedlings, and dead leaf tissues exploration of the literature to find accounts of microbes associated with Phragmites worldwide. For the bioassays, we prepared 162 pure cultures isolated from Phragmites plants in North America along the east coast, Florida, the Gulf of Mexico, and the Great Lakes area, 125 of which were from a previous study, and 38 represent new collections. The DNA sequences used to identify the 37 new collections are included. Microbes were isolated from plants collected from 2015-2018. We performed assays using both North American plant...
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Longstanding taxonomic uncertainties have limited conservation efforts for species currently assigned to the freshwater mussel genus Alasmidonta. Here, we present mitochondrial and nuclear DNA sequence data needed to assess the genus- and species-level taxonomy of Alasmidonta. These molecular data allowed us to test whether cryptic diversity exists within Alasmidonta and whether A. triangulata and A. arcula are distinct species. Details associated with specimens and DNA sequence data are provided here to provide a foundation for future research on Alasmidonta and give conservation agencies greater confidence in the findings of our work.
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We analyzed the single nucleotide polymorphisms (SNPs) present in the genomes of moose representing 3 subspecies in the contiguous United States. Blood samples were collected opportunistically from collaborators during field efforts or were supplied to our lab from collaborators' archives, and represented moose sampling occurring between 2009-2017. DNA was extracted, sequenced using next generation sequencing, and SNPs analyzed using the genetics programs Structure and Tess3, and by performing basic population statistics. These analyses were used to determine the population structure of moose at the subspecies level.
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These are genetic data collected from replicated samples of 21 Enteroctopus (E. dofleini or a cryptic lineage) in Prince William Sound Alaska to evaluate tissue type, DNA extraction method, and time until analyses are completed on data reliability. Data collected from all samples include two microsatellites identified as possible lineage indicators, and nine microsatellite loci previously identified as polymorphic in both lineages. DNA sequence data from 528 bp of the octopine dehydrogenase (OCDE) gene were also collected.
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Water resources around the world are contaminated with per- and polyfluoroalkyl substances (PFAS) due to releases from point sources on military installations, fire training centers, and chemical manufacturing sites. Non-point sources have also been identified including wastewater effluent, landfills, and biosolids application. PFAS are a major concern to myriad stakeholders as some are known to bioaccumulate, they have eco-toxicity effects, and they are highly recalcitrant. PFAS are often called “forever chemicals” due to their environmental persistence but many precursor PFAS are transformed in the environment by microbes. Recent work has shown that PFAS can be biologically degraded in laboratory studies, but...
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The Grand Calumet River flows through northwestern Indiana and was designated an EPA Area of Concern (AOC) in 1987. There are multiple legacy pollutants in the river including but not limited to heavy metals and PCBs. To investigate potential causes and patterns of eutrophication in the river, water samples were collected for 16S rRNA microbial and eukaryotic 18S rRNA amplicon sequencing during April - September 2021. This data release describes the resulting sequencing data.
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The Coastal Cactus Wren is a species of high conservation concern in southern California. The goal of this project was to obtain taxonomic resolution of subspecies boundaries between coastal and desert populations of Cactus Wrens. We collected genetic samples from Cactus Wrens at California desert sites and combined this dataset with previously collected samples from coastal populations to resolve the distribution of subspecies and to determine distinct genetic lineages, gene flow, genetic diversity and effective population size of desert populations. Understanding these relationships will assist managers with development and implementation of a conservation and management strategy that could aim to avoid state...
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This data package is comprised of three tables with data from wintering Harlequin Ducks (Histrionicus histrionicus) from Alaska, British Columbia, Washington, Maine, Greenland, and Iceland. The first table contains available allele sizes for 7 microsatellite loci (Sfiµ1, Sfiµ4, Sfiµ9, Sfiµ10, Bcaµ10, Hhiµ2, Hhiµ5) and mtDNA control region haplotypes. The second table contains the mtDNA control region sequences used to assign haplotypes. The third table provides the geographic locations of sampling sites.
The Mogollon Narrowheaded gartersnake (Thamnophis rufipunctatus) and the Northern Mexican gartersnake (Thamnophis eques megalops) are both listed as Threatened under the Federal Endangered Species Act. Both species have a strong association with aquatic habitats, and these habitats have been highly altered from impoundments, land-use changes, and the introduction and spread of non-native aquatic species, which have contributed to declines in Arizona and New Mexico over the last 30-40 years. We characterized 125 microsatellite loci per species to generate genetic toolsets for use in long term genetic monitoring of populations. We evaluated microsatellite loci for missing data and several variability thresholds, which...
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Collection of microsatellite genetic data from multiple projects involving southern mule deer (Odocoileus hemionus fuliginatus) in San Diego County, California. Samples were collected 2005-2007, 2010, 2012-2013, 2015, and 2018-2020. These data support the following publication: Mitelberg, A., Smith, J.G., and Vandergast, A.G., 2019, DNA Fingerprinting of Southern mule deer (Odocoileus hemionus fuliginatus) in north San Diego County, California (2018–19): U.S. Geological Survey Open-File Report 2019–1138, 25 p., https://doi.org/10.3133/ofr20191138.
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Oil and gas (OG) wastewaters are commonly disposed of by underground injection and previous research showed that activities at a disposal facility in West Virginia affected stream biogeochemistry and sediment microbial communities downstream from the facility. Microorganisms can control the fate and transport of organic and inorganic components of OG wastewater highlighting the need to characterize the effects of OG wastewater components on microbial activity. We conducted a series of aerobic microcosm experiments to assess the influence of high total dissolved solids (TDS) and hydraulic fracturing fluid additives (2,2-dibromo-3-nitrilopropionamide (DBNPA), a biocide, and ethylene glycol, an anti-scaling additive),...
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We analyzed morphological and molecular data from one existing and one newly discovered population of 'bullseye' snakehead (Teleostei: Channidae) from Florida. Morphological and meristic data were collected from museum collections and compared with data from recent taxonomic revisions of related species in the 'Marulius' species group from southeast Asia. Additionally, we performed DNA sequencing of COI barcodes from museum tissue vouchers (corresponding with lots examined for morphology) and compared these sequences with an existing COI barcode library for the 'Marulius' group. These analyses were used to determine the taxonomic identity of snakeheads established in Florida.
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The Permian Basin, straddling New Mexico and Texas, is one of the most productive oil and gas (OG) provinces in the United States. OG production yields large volumes of wastewater that contain elevated concentrations of major ions including salts (also referred to as brines), and trace organic and inorganic constituents. These OG wastewaters pose unknown environmental health risks, particularly in the case of accidental or intentional releases. Releases of OG wastewaters have resulted in water-quality and environmental health effects at sites in West Virginia (Akob, et al., 2016, Orem et al. 2017, Kassotis et al. 2016) and in the Williston Basin region in Montana and North Dakota (Cozzarelli et al. 2017, Cozzarelli...
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Genetic samples in the form of a small blood sample were collected from 263 Bell’s vireos (Vireo bellii) in drainages throughout southern and central California, Arizona, southern Nevada, and southwestern Utah. We used population genomic techniques to delineate the range limit between the Least Bell’s Vireo (V. b. pusillus) and its conspecific geographical neighbor, the Arizona Bell’s Vireo (V. b. arizonae). This study provides a taxonomic classification of individuals sampled where the two subspecies meet. Moreover, it allows an estimate of genetic diversity and trends in both taxa, estimates sources and levels of dispersal and gene flow among drainages, and allows us to assess progress of recovery and effectiveness...
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Data included are DNA sequences used to identify species boundaries among Ichthyophonus-like parasites. Sequences were generated for three gene regions from each parasite isolate. DNA sequences can be downloaded from GenBank (https://www.ncbi.nlm.nih.gov/) as text or fasta files. Accession numbers for each sequence are included in the data table (.csv file). Data includes 87 sequences (99,383 total nucleotides). Once manuscript is accepted there are no restrictions on dissemination of these data.


map background search result map search result map Enteroctopus Sampling Effects on Genetic Data, Prince William Sound, Alaska, 2012-2015 Mariana common moorhen (Gallinula chloropus guami) blood and tissue sample collection data, 2000-2001 The effects of North American fungi and bacteria on Phragmites australis leaves 2017-2019, with comparisons to the global Phragmites microbiome Single Nucleotide Polymorphism (SNP) genomic data of moose (Alces alces) from the contiguous United States, 2009-2017 Data on the Effects of Oil and Gas Wastewater Components on Microbial Community Structure and Function DNA sequences from Ichthyophonid parasites Molecular and morphological data for Channa aurolineata in Florida Molecular resources for investigating relationships among freshwater mussels (Bivalvia: Unionoida) with a focus on the genus Alasmidonta Geochemistry and microbiology data collected to study the effects of oil and gas wastewater dumping on arid lands in New Mexico Microsatellite Loci for Mogollon Narrowheaded Gartersnake (Thamnophis rufipunctatus) and the Northern Mexican Gartersnake (Thamnophis eques megalops) in Arizona and New Mexico (2020-2021) Microbial Populations in PFHxSAm (perfluorohexane sulfonamido propyl amine) Biodegradation Microcosms Historical genetic resources for Northwestern Atlantic and Caribbean populations of Roseate Tern Sterna dougallii, 1879-1940 Modern genetic resources for Atlantic Basin populations of Roseate Tern Sterna dougallii, 2017-2018 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. Assessing Connectivity among Coastal and Interior Cactus Wrens in California using Population Genomics (2021) Grand Calumet River Area of Concern Metabarcoding Data Capture Data and SNP Genotypes to Evaluate Subspecies Range Boundaries of the Bell’s vireo (Vireo bellii pusillus and V. b. arizonae) (2010-2022) Microsatellite Genetic Marker Genotypes from Southern Mule Deer (Odocoileus hemionus fuliginatus) Sampled in San Diego County, California Harlequin Duck Genetic Data, North America, Greenland, and Iceland, 1945-2006 Brant (Branta bernicla) Genetic Data from North America, Europe, and Asia 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. Microbial Populations in PFHxSAm (perfluorohexane sulfonamido propyl amine) Biodegradation Microcosms Data on the Effects of Oil and Gas Wastewater Components on Microbial Community Structure and Function Grand Calumet River Area of Concern Metabarcoding Data Microsatellite Genetic Marker Genotypes from Southern Mule Deer (Odocoileus hemionus fuliginatus) Sampled in San Diego County, California Geochemistry and microbiology data collected to study the effects of oil and gas wastewater dumping on arid lands in New Mexico Enteroctopus Sampling Effects on Genetic Data, Prince William Sound, Alaska, 2012-2015 Mariana common moorhen (Gallinula chloropus guami) blood and tissue sample collection data, 2000-2001 Assessing Connectivity among Coastal and Interior Cactus Wrens in California using Population Genomics (2021) Molecular and morphological data for Channa aurolineata in Florida Microsatellite Loci for Mogollon Narrowheaded Gartersnake (Thamnophis rufipunctatus) and the Northern Mexican Gartersnake (Thamnophis eques megalops) in Arizona and New Mexico (2020-2021) Capture Data and SNP Genotypes to Evaluate Subspecies Range Boundaries of the Bell’s vireo (Vireo bellii pusillus and V. b. arizonae) (2010-2022) Single Nucleotide Polymorphism (SNP) genomic data of moose (Alces alces) from the contiguous United States, 2009-2017 Molecular resources for investigating relationships among freshwater mussels (Bivalvia: Unionoida) with a focus on the genus Alasmidonta Historical genetic resources for Northwestern Atlantic and Caribbean populations of Roseate Tern Sterna dougallii, 1879-1940 Modern genetic resources for Atlantic Basin populations of Roseate Tern Sterna dougallii, 2017-2018 Harlequin Duck Genetic Data, North America, Greenland, and Iceland, 1945-2006 DNA sequences from Ichthyophonid parasites Brant (Branta bernicla) Genetic Data from North America, Europe, and Asia The effects of North American fungi and bacteria on Phragmites australis leaves 2017-2019, with comparisons to the global Phragmites microbiome