Filters: Tags: Genetics (X)
206 results (69ms)|
Filters
Date Range
Extensions Types Contacts
Categories Tag Types
|
These data describe microbiological analyses performed on groundwater samples from domestic drinking water supply collected from 42 groundwater wells in the Central Valley of California. Samples were collected between January 2014 and April 2014 for the Groundwater Ambient Monitoring and Assessment (GAMA) program priority basin assessment of the Madera, Chowchilla, and Kings (MACK) groundwater sub-basins’ shallow aquifers. A total of 75 wells were sampled for the MACK study unit between August 2013 and April 2014. Samples for this dataset were vacuum filtered and plated on MI and mEI agars prior to incubation to promote colony growth. Colonies were tallied by their species into columns for various fecal indicator...
Categories: Data;
Tags: California,
Fresno County,
GAMA,
Genetics,
Groundwater Ambient Monitoring and Assessment Program,
This data shows the quantification cycle at which fluorescence signals crossed a threshold fluorescence for samples analyzed as part of controlled experiments to determine whether contaminating DNA is present in samples under varying experimental conditions.
Categories: Data;
Tags: Aquatic Biology,
Ecology,
Genetics,
Montana,
USGS Science Data Catalog (SDC),
Delivering adequate water supplies to support expanding human enterprise while maintaining the necessary flow regimes to support desired riparian ecosystems and formally protected wildlife species that depend upon them is increasingly difficult in the arid western United States. Many riparian systems have undergone dramatic alteration over the last 50 - 100 years, exacerbating the conflicts between resource use and biodiversity protection. One of the most visible changes that is in part due to altered flow regimes is the establishment of invasive plant species in riparian ecosystems. The highest priority invasive riparian plant is the Eurasian tree/shrub, tamarisk (or saltcedar, Tamarix spp.) the third most abundant...
Categories: Data,
Project;
Types: Map Service,
OGC WFS Layer,
OGC WMS Layer,
OGC WMS Service;
Tags: 2012,
AZ-01,
AZ-02,
AZ-03,
AZ-04,
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.
Categories: Data;
Tags: DNA sequencing,
Ecology,
Genetics,
San Diego,
USGS Science Data Catalog (SDC),
The dataset consists of genotypes (diploid base calls at variant sites) at 3,601 anonymous sites of the Arizona Toad (Anaxyrus microscaphus) nuclear genome. The genotyped samples are representative of the range of the species and its major population units, and the genotyped loci have a high degree of completeness. This data release consists of several files: 1. sample.metadata.txt, which contains sampling metadata and identifiers linking to sequence data that has been deposited in the Sequence Read Archive of the National Center for Biotechnology Information (NCBI). This database is authoritative and comprehensive for sharing high-throughput sequence data produced with public funds. All NCBI-derived accessions...
This dataset consists of the microsatellite genotypes, collection data, and ownership data for 1461 specimens of Bombus occidentalis. The dataset includes both recognized subspecies, Bombus occidentalis occidentalis and Bombus occidentals mckayi. The subspecies have since been elevated to species status and are currently described as Bombus occidentalis and Bombus mckayi. The specimens were collected from across the historical species range primarily between 1960 and 2020, with few specimens from earlier than 1960 and the oldest from 1904. The specimens are owned and housed by 10 different institutions, which is noted for each specimen.
Categories: Data;
Tags: Bombus mckayi,
Bombus occidentalis,
Ecology,
Genetics,
USGS Science Data Catalog (SDC),
Tabular and raster data containing spatial capture recapture records for male and female black bears (Ursus americanus) in Glacier National Park and surrounding landscape collected from June - October 2004 and associated tabular data files required for analysis of data with spatial capture connectivity models and raster data describing the ouput from SCR models. Associated tables and rasters include details for traps, the state space and connectivity space required modeling and associated spatial covariates tested in models, as well as rasters describing black bear population density, habitat use, and population connectivity.
Lake Sinai Viruses (LSV) are common ribonucleic acid (RNA) viruses of honey bees (Apis mellifera) that frequently reach high abundance but are not linked to overt disease. LSVs are genetically heterogeneous and collectively widespread, but despite frequent detection in surveys, the ecological and geographic factors structuring their distribution in A. mellifera are not understood. Even less is known about their distribution in other species. Better understanding of LSV prevalence and ecology have been hampered by high sequence diversity within the LSV clade. We developed a new genetic assay that detects all currently known lineages. We also performed pilot metagenetic sequencing to quantify the diversity of LSV...
Inaccurate systematics confound our ability to determine evolutionary processes that have led to the diversification of many taxa. The North American freshwater mussel tribe Lampsilini, Ihering, 1901, is one of the more well-studied groups in Unionidae; however, many supraspecific relationships between lampsiline genera remain unresolved. Two genera that have been largely overlooked are Leptodea and Potamilus, which have both been hypothesized to be non-monophyletic. We set out to resolve supraspecific relationships in Lampsilini and test the monophyly of Leptodea and Potamilus using an integrative approach. Here we present details on our molecular, morphological, and distribution data.
Categories: Data;
Tags: Aquatic Biology,
Genetics,
Texas,
USGS Science Data Catalog (SDC),
United States,
This data set includes information on 406 wild brook trout populations from across the State of North Carolina. Key genetics metrics on diversity and the extent of hatchery introgression are presented. These data accompany the following article: Kazyak, D.C., Rash, Jacob, Lubinski, B.A., and King, T.L., 2018, Assessing the impact of stocking northern-origin hatchery brook trout on the genetics of wild populations in North Carolina: Conservation Genetics, v. 19, p. 207-219, https://doi.org/10.1007/s10592-017-1037-4.
Categories: Data;
Tags: Genetics,
North Carolina,
USGS Science Data Catalog (SDC),
biodiversity,
genetics,
This dataset includes microsatellite genotypes for 16 collections of tiger beetles (Ellipsoptera puritana) distributed in Connecticut and Maryland, United States and 44 collections of Habroscelimorpha dorsalis dorsalis and 14 collections of H. d. media distributed from Massachusetts to Florida, United States.
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.
Categories: Data;
Tags: Aquatic Biology,
Bering Sea,
DNA sequencing,
Environmental Health,
Genetics,
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.
Tabular amplification data for individual technical replicates of tissue and water samples collected from Glacier National Park in 2020 and amplified with a Lednia tumana species-specific qPCR assay. Reported results include fractional detection rates, mean quantification cycles, and estimated gene copies per reaction.
Categories: Data;
Tags: Aquatic Biology,
Ecology,
Genetics,
Glacier National Park,
USGS Science Data Catalog (SDC),
Here we provide public access to UCE DNA sequences for all genetic samples in Byerly et al. 2022.
Environmental DNA (eDNA) water samples were collected at 15 tree islands containing wading bird breeding colonies (order Pelecaniformes) and 15 empty control islands in the central Everglades of Florida in spring of 2017 (April through June) and analyzed for the presence of eDNA from invasive Burmese pythons (Python bivittatus). The Burmese python is now established as a breeding population throughout south Florida, USA. Pythons can consume large quantities of prey and may be a particular threat to wading bird breeding colonies in the Everglades. To quantify python occupancy rates at tree islands where wading birds breed, we utilized environmental DNA (eDNA) analysis—a genetic tool which detects shed DNA in water...
Categories: Data;
Types: Downloadable,
GeoTIFF,
Map Service,
Raster;
Tags: Aquatic Biology,
Broward,
Everglades,
Genetics,
Miami-Dade,
The African Jewelfish, Hemichromis letourneuxi, is an invasive, predatory cichlid fish introduced at least once to Florida. Its native range is in northeastern Africa. First encountered in Miami in the 1960s, it has since been found west and north within the state of Florida. It thrives in a wide range of aquatic habitats, including shallow, vegetated or rocky areas of canals, tidal creeks, rivers, and marshes.
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...
Honey bees (Apis mellifera), a critical agricultural pollinator in many areas, have a high rate of infection with a large DNA virus, Apis mellifera filamentous virus (AmFV), yet little is known about its ecology or impact on honey bee colonies, other than its ubiquity and apparent low virulence. This study scanned over 5,000 public data sets to detect AmFV sequences in honey bees as well as a parasitic mite of honey bees, Varroa destructor, that is a potential vector of AmFV. The data release consists of these files: 1. AmFV.genome.assemblies.aligned.fas, which contains new AmFV draft genome sequences generated by this study aligned with existing reference genome accessions downloaded from the National Center for...
U.S. Geological Survey decision analysts and technical experts worked with managers and stakeholders to predict the consequences of alternative actions following environmental DNA detections of invasive Najas minor eDNA in Sebago Lake, Maine, USA. This dataset provides the consequence and model inputs for each of the alternative actions under different levels of uncertainty.
Categories: Data;
Tags: Aquatic Biology,
Ecology,
Genetics,
Sebago Lake,
USGS Science Data Catalog (SDC),
|
|
