Filters: Tags: Genetic diversity (X)
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These data represent a digital map of the average diversity genetic landscape for 10 species: Anaxyrus punctatus, Chionactis occipitalis, Chaetodipus penicillatus, Crotophytus bicinctores, Crotalus cerastes, Homalonychus selenopoides, Homalonychus theologus, Lichanura trivirgata, Sceloporus magister, and Xantusia vigilis in the Mojave and Sonoran Deserts. Utility scale renewable energy development projects are currently proposed across the deserts of the Southwestern United States. Agencies that manage biological resources must understand the potential impacts of these projects and infrastructure (e.g., transmission corridors, substations, access roads, etc.) in order to select appropriate development sites and...
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...
This dataset includes microsatellite genotypes for 44 collections of Habroscelimorpha dorsalis dorsalis and 14 collections of H. d. media distributed from Massachusetts to Florida, United States.
These data were compiled to provide seed transfer and native plant materials development guidance to managers and practitioners across the Colorado Plateau and in adjacent regions. This data release contains empirical seed transfer zones derived from molecular genetic data for Cleome lutea (syn. Peritoma lutea) and Machaeranthera canescens (syn. Dieteria canescens). These species show distinct population structure (i.e., genetic differentiation) across their ranges; as such, seed transfer zones reflect both patterns of genetic differentiation and information on each species' unique adaptations to climatic gradients. These shapefile data may support successful restoration outcomes if, for example, seed transfer follows...
We investigated fine-scale genetic patterns of the federally threatened Eastern Massasauga Rattlesnake (Sistrurus catenatus) on a relatively undisturbed island in northern Michigan, USA. This species often persists in habitat islands throughout much of its distribution due to extensive habitat loss and distance-limited dispersal. These data are from 102 individual Eastern Massasauga Rattlesnakes sampled at Bois Blanc Island, Michigan and genotyped at 15 microsatellite loci. Samples were collected as part of a study to examine functional connectivity for the Eastern Massasauga. We found that the entire island population exhibited weak genetic structuring with spatially segregated variation in effective migration...
The data release details the samples, methods, and raw data used to generate high-quality genome assemblies for greater sage-grouse (Centrocercus urophasianus), white-tailed ptarmigan (Lagopus leucura), and trumpeter swan (Cygnus buccinator). The raw data have been deposited in the Sequence Read Archive (SRA) of the National Center for Biotechnology Information (NCBI), the authoritative repository for public biological sequence data, and are not included in this data release. Instead, the accessions that link to those data via the NCBI portal (www.ncbi.nlm.nih.gov) are provided herein. The release consists of a single file, sample.metadata.txt, which maps NCBI accessions to the samples sequenced and the different...
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,
Utility scale renewable energy development projects are currently proposed across the deserts of the Southwestern United States. Agencies that manage biological resources must understand the potential impacts of these projects and infrastructure (e.g., transmission corridors, substations, access roads, etc.) in order to select appropriate development sites and to mitigate for anticipated effects. Of major concern is determining how future development will impact wildlife movement and genetic exchange among core protected areas and whether increased fragmentation will impact species' abilities to adapt to changing environmental conditions. The adaptive and evolutionary potential of a species is ultimately dependent...
Utility scale renewable energy development projects are currently proposed across the deserts of the Southwestern United States. Agencies that manage biological resources must understand the potential impacts of these projects and infrastructure (e.g., transmission corridors, substations, access roads, etc.) in order to select appropriate development sites and to mitigate for anticipated effects. Of major concern is determining how future development will impact wildlife movement and genetic exchange among core protected areas and whether increased fragmentation will impact species' abilities to adapt to changing environmental conditions. The adaptive and evolutionary potential of a species is ultimately dependent...
Utility scale renewable energy development projects are currently proposed across the deserts of the Southwestern United States. Agencies that manage biological resources must understand the potential impacts of these projects and infrastructure (e.g., transmission corridors, substations, access roads, etc.) in order to select appropriate development sites and to mitigate for anticipated effects. Of major concern is determining how future development will impact wildlife movement and genetic exchange among core protected areas and whether increased fragmentation will impact species' abilities to adapt to changing environmental conditions. The adaptive and evolutionary potential of a species is ultimately dependent...
Red lionfish (Pterois volitans) have become a successful invasive predator across the Northwestern Atlantic, Caribbean, and Gulf of Mexico (GoM). Previous investigations have identified the southeast coast of Florida as the original site of introduction, but no region-wide genetic study has directly addressed the question of introduction location(s). This dataset includes previously unpublished red lionfish samples (n = 237) from six locations: The Bahamas, Florida Keys, Northwest Florida, North Carolina, Panama, and Southeast Florida. Sequences archived in NCBI from other locations in the Northern Region, Caribbean, and Gulf of Mexico basins were used in the analyses (N = 1558). Previously published sequences were...
Genetic networks can characterize complex genetic relationships among groups of individuals, which can be used to rank nodes most important to the overall connectivity of the system. Ranking allows scarce resources to be guided towards nodes integral to connectivity. The greater sage-grouse (Centrocercus urophasianus) is a species of conservation concern that breeds on spatially discrete leks that must remain connected by genetic exchange for population persistence. We genotyped 5,950 individuals, from 1,200 greater sage-grouse leks distributed across the entire species’ geographic range. We found a small world network composed of 458 nodes connected by 14,481 edges that are described here. The files associated...
The rapid expansion of road networks has reduced connectivity among populations of flora and fauna. The resulting isolation is assumed to increase population extinction rates, in part because of the loss of genetic diversity. However, there are few cases where loss of genetic diversity has been linked directly to roads or other barriers. We analysed the effects of such barriers on connectivity and genetic diversity of 27 populations of Ovis canadensis nelsoni (desert bighorn sheep). We used partial Mantel tests, multiple linear regression and coalescent simulations to infer changes in gene flow and diversity of nuclear and mitochondrial DNA markers. Our findings link a rapid reduction in genetic diversity (up to...
Categories: Publication;
Types: Citation,
Journal Citation;
Tags: Ecology Letters,
Gene flow,
Ovis canadensis,
genetic diversity,
habitat fragmentation,
These data represent a digital map of the average divergence genetic landscape for 12 species: Anaxyrus punctatus, Chionactis occipitalis, Chaetodipus penicillatus, Crotophytus bicinctores, Crotalus cerastes, Homalonychus selenopoides, Homalonychus theologus, Lichanura trivirgata, Phrynosoma platyrhinos, Sceloporus magister, Thomomys bottae, and Xantusia vigilis in the Mojave and Sonoran Deserts. Utility scale renewable energy development projects are currently proposed across the deserts of the Southwestern United States. Agencies that manage biological resources must understand the potential impacts of these projects and infrastructure (e.g., transmission corridors, substations, access roads, etc.) in order to...
Utility scale renewable energy development projects are currently proposed across the deserts of the Southwestern United States. Agencies that manage biological resources must understand the potential impacts of these projects and infrastructure (e.g., transmission corridors, substations, access roads, etc.) in order to select appropriate development sites and to mitigate for anticipated effects. Of major concern is determining how future development will impact wildlife movement and genetic exchange among core protected areas and whether increased fragmentation will impact species' abilities to adapt to changing environmental conditions. The adaptive and evolutionary potential of a species is ultimately dependent...
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),
These data were compiled to investigate the evolutionary history of Graham's beardtongue (Penstemon grahamii). Objective(s) of our study were to determine the evolutionary history of P. grahamii, including ancestral population sizes, the history of population divergences, and historical connectivity. In addition, we characterized population structure, genetic diversity summary statistics, and landscape factors influencing differentiation. These data represent anonymous loci sequenced from throughout the P. grahamii genome (specifically, .vcf and .structure files). Data in these files were manipulated to represent site frequency spectra between population pairs (.data files). These data were collected in 2019 from...
This dataset contains the physical collection information (e.g., sample location, date, gear type) and microsatellite DNA genotype of egg and larval Lake Sturgeon collected in the St. Clair and Detroit rivers in 2015 and 2016. Individuals were genotyped for 18 microsatellite loci (13 disomic and 5 polysomic). Alleles (base pair sizes) were recorded as presence absence scores (1:present, 2:absent, 0:missing data) for all previously observed alleles. Thus individual genotypes were recorded as pseudo diploid dominant phenotypes resulting in individual vectors of length n=205 for each genotyped egg or larval individual.
Categories: Data;
Tags: Acipenser,
Acipenser fulvescens,
Acipenseridae,
Anthropogenic,
Anthropogenic Rock,
These data were compiled to investigate the evolutionary history of Hilaria jamesii, Hilaria mutica, and Hilaria rigida. The data release consists of two tab delimited text files that may be used to infer population structure (viva_structure.stru) or relationships among sampling localities (viva.phylip). Files record genetic variation on an individual (.stru) or sampling locality (.phylip) level. These files may be opened and edited in a text editor program, such as Notepad ++ (PC) or BBEdit (Mac). The .phylip file can be uploaded to phyML or SVDQuartets to generate a tree-based visualization of relationships ( http://www.atgc-montpellier.fr/phyml/ or https://paup.phylosolutions.com, repectively). The .stru file...
Utility scale renewable energy development projects are currently proposed across the deserts of the Southwestern United States. Agencies that manage biological resources must understand the potential impacts of these projects and infrastructure (e.g., transmission corridors, substations, access roads, etc.) in order to select appropriate development sites and to mitigate for anticipated effects. Of major concern is determining how future development will impact wildlife movement and genetic exchange among core protected areas and whether increased fragmentation will impact species' abilities to adapt to changing environmental conditions. The adaptive and evolutionary potential of a species is ultimately dependent...
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