Filters: Tags: Microsatellites (X)
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This data release comprises a dataset that contains sample collection information and microsatellite genotypes, and another dataset that contains single nucleotide polymorphism (SNP) genotypes with sample collection information for populations of white-tailed ptarmigan across the species' range. There is also an additional file (accession numbers.xlsx) linking samples to accession numbers in Genbank. This data was collected in order to address the following: The delineation of intraspecific units that are evolutionarily and demographically distinct is an important step in the development of species-specific management plans. Neutral genetic variation has served as the primary data source for delineating units for...
Little is known about the population biology of midget faded rattlesnakes, a sensitive subspecies of the Western Rattlesnake, despite conservation efforts to protect them. We conducted a molecular genetic study of midget faded rattlesnakes in southwestern Wyoming to investigate population genetic structure in this area, particularly with reference to Flaming Gorge Reservoir and its associated human activities, and to document levels of genetic diversity. We genotyped 229 snakes from 11 sampling sites using 9 microsatellite loci. We found significant levels of genetic structure among sites that were better explained by geographic region and isolation by distance than by position relative to waterways. Sites on either...
Categories: Publication;
Types: Citation,
Journal Citation;
Tags: Conservation Genetics,
Crotalus oreganus concolor,
Gene flow,
Genetic diversity,
Microsatellites,
Monitoring change in genetic diversity in wildlife populations across multiple scales could facilitate prioritization of conservation efforts. We used microsatellite genotypes from 7,080 previously collected genetic samples from across the greater sage-grouse (Centrocercus urophasianus) range to develop a modelling framework for estimating genetic diversity within a recently developed hierarchically nested monitoring framework (clusters). The majority of these genetic samples (n=6560) were used in previous research (Oyler-McCance et al. 2014; Cross et. al 2018; Row et. al. 2018). Genetic diversity values associated with clusters across multiple scales could facilitate the identification of areas with low genetic...
Fragmentation and loss of natural habitat have important consequences for wild populations and can negatively affect long-term viability and resilience to environmental change. Salt marsh obligate species, such as those that occupy the San Francisco Bay Estuary in western North America, occupy already impaired habitats as result of human development and modifications and are highly susceptible to increased habitat loss and fragmentation due to global climate change. We examined the genetic variation of the California Ridgway’s rail ( Rallus obsoletus obsoletus), a state and federally endangered species that occurs within the fragmented salt marsh of the San Francisco Bay Estuary. We genotyped 107 rails across 11...
Categories: Data;
Types: Citation,
Map Service,
OGC WFS Layer,
OGC WMS Layer,
OGC WMS Service;
Tags: Clapper Rail,
Fragmentation,
Microsatellites,
Population declines,
Ridgway’s rail,
Genetic diversity levels, effective population size estimates, and population structure of the endangered Hawaiian hoary bat (Lasiurus semotus, also known as Aeorestes semotus) were examined across the islands of Hawai‘i, Maui, O‘ahu, and Kaua‘i using eighteen nuclear microsatellite loci and one mitochondrial gene from 339 individuals collected between 1988 and 2020. The study extracted DNA for population genetic analyses from tissue samples, collected from live bats captured as part of ongoing field studies or under rehabilitation care, from bat carcasses collected by local federal and state wildlife agencies and wind energy facilities, and from dried skin specimens at the Bernice Pauahi Bishop Museum. Eighteen...
The distribution and abundance of the greater sage-grouse (Centrocercus urophasianus) have declined dramatically, and as a result the species has become the focus of conservation efforts. We conducted a range-wide genetic survey of the species which included 46 populations and over 1000 individuals using both mitochondrial sequence data and data from seven nuclear microsatellites. Nested clade and STRUCTURE analyses revealed that, in general, the greater sage-grouse populations follow an isolation-by-distance model of restricted gene flow. This suggests that movements of the greater sage-grouse are typically among neighbouring populations and not across the species, range. This may have important implications if...
Categories: Publication;
Types: Citation,
Journal Citation;
Tags: Colorado,
Molecular Ecology,
allele frequency data,
centrocercus,
cladistic analysis,
Feasibility of assigning parentage using variable microsatellite loci was assessed for 2 species of prairie dogs. Parentage was determined from 7 microsatellite loci for 46% of juveniles born during 1994 in a colony of Gunnison's prairie dogs (Cynomys gunnisoni), and for 53% and for 45% of juveniles born during 1996 and 1997, respectively, in a colony of Utah prairie dogs (C. parvidens). Frequency of multiple paternity estimated for Gunnison's (77%) and Utah (71% and 90%) prairie dogs was greater than that detected previously for black-tailed prairie dogs (5%-10%) but within the range reported for other ground-dwelling squirrels. Of the 84 adult females and 33 adult males present during 1994 in the colony of Gunnison's...
Categories: Publication;
Types: Citation,
Journal Citation;
Tags: American Society of Mammalogists,
Cynomys,
Gunnison's prairie dog,
Journal of Mammalogy,
Utah prairie dog,
This dataset includes microsatellite genotypes for 8,454 brook trout from 188 wild Midwestern populations and 26 hatchery strains of both Midwest and eastern (Atlantic seaboard) origin. Each individual was genotyped at either 5 or 7 loci.
Categories: Data;
Tags: Aquatic Biology,
Genetics,
Genetics,
Midwest,
USGS Science Data Catalog (SDC),
Conclusions: Grizzly bear population fragmentation corresponded to the presence of settled mountain valleys and major highways. In these disturbed areas, the inter-area movements of female bears was affected more than for male bears. Without female connectivity, small subpopulations of grizzly bears are not viable over the long term. Thresholds/Learnings: Females grizzlies reduced their movement rates drastically when settlement increased to >20% of a given area. In highly settled areas (>50% settlement), both sexes demonstrated similar reductions in movement. Synopsis: Researchers studied the current state and potential causes of population fragmentation in grizzly bears over western Canada, the Greater Yellowstone...
Categories: Publication;
Types: Citation,
Map Service,
OGC WFS Layer,
OGC WMS Layer,
OGC WMS Service;
Tags: Alberta,
British Columbia,
Canadian Rockies,
Chilcotin Ranges and Fraser Plateau,
Clear Hills and Western Alberta Upland,
The data are included in 8 separate text files: 1) "Sample_coordinates.txt". The file contains sample identifiers along with geographic coordinates associated with each sample. Coordinates are specified as UTM Zone 10 values (WGS84). 2) "Sample_genotypes.txt". The file contains a sample identifier along with microsatellite genotypes associated with each sample. 3) "uniform_conductances.asc". An ASCII text-based representation of a map containing idealized habitat for Northern Spotted Owls. 4) "1870_conductance.asc". An ASCII text-based representation of a map containing idealized habitat for Northern Spotted Owls in the 1870's. 5) "1940_conductance.asc". An ASCII text-based representation of a map containing idealized...
The newly described Gunnison sage-grouse (Centrocercus minimus) is a species of concern for management because of marked declines in distribution and abundance due to the loss and fragmentation of sagebrush habitat. This has caused remaining populations to be unusually small and isolated. We utilized mitochondrial DNA sequence data and data from 8 nuclear microsatellites to assess the extent of population subdivision among Gunnison sage-grouse populations in southwestern Colorado and southeastern Utah, USA. We found a high degree of population structure and low amounts of gene flow among all pairs of populations except the geographically adjacent Gunnison and Curecanti populations. Population structure for Gunnison...
Categories: Publication;
Types: Citation,
Journal Citation;
Tags: Centrocercus minimus,
Colorado,
Gunnison sage-grouse,
Journal of Wildlife Management,
The Wildlife Society,
Data represent results of individual-based assignment tests performed in the program GeneClass for Atlantic Sturgeon of unknown origin. Data for genetic sex are also presented.
Categories: Data;
Tags: Atlantic Sturgeon,
Atlantic coast,
Individual-based assignment,
biota,
microsatellites
This dataset provides the microsatellite genotypes for 466 flathead catfish collected in Pennslyvania rivers for an analysis of population genetic structuring of introduced popualtions. Also included is the spatial location of sample sites.
Social insects exhibit remarkable variation in their colony breeding structures, both within and among species. Ecological factors are believed to be important in shaping reproductive traits of social insect colonies, yet there is little information linking specific environmental variables with differences in breeding structure. Subterranean termites (Rhinotermitidae) show exceptional variation in colony breeding structure, differing in the number of reproductives and degree of inbreeding; colonies can be simple families headed by a single pair of monogamous reproductives (king and queen) or they can be extended families headed by multiple inbreeding neotenic reproductives (wingless individuals). Using microsatellite...
Categories: Publication;
Types: Citation;
Tags: Isoptera,
Other Wildlife,
Plants,
Rhinotermitidae,
Southeast CASC,
This dataset contains sample collection information and microsatellite genotype data for Northern Black Swifts in 6 colonies across Colorado, New Mexico and Idaho. This data was collected to examine levels of genetic diversity and connectivity among Black Swift colonies and also to assess parentage at a subset of those sites. This study helps clarify the breeding system of the Black Swift and is the first study to determine parentage of a subset of offspring using molecular methods.
This dataset includes genotypes and individual-based assignment tests for 868 Atlantic Sturgeon selected for assignment by the National Marine Fisheries Service to meet management requirements under the Endangered Species Act.
Categories: Data Release - Revised;
Tags: Atlantic Sturgeon,
Atlantic coast,
Individual-based assignment,
USGS Science Data Catalog (SDC),
biota,
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