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This dataset provides spatial predictions of habitat suitability for current (1950 – 2000 yr) and mid-Holocene (8.3 ka – 4.2 ka) intervals using hindcasting, and three separate paleo-distributions calibrated on the packrat midden archive: those without bias correction (naïve), those created with a standard method (standard), and those created with a novel alternative (modeled) incorporating a three-stage model of bias. The raster layers contained here accompany the manuscript Inman et al. 2018 and were used to evaluate utility of a novel bias correction method (modeled) over classic methods. Spatial predictions of habitat suitability were created using MaxEnt version 3.4.0 (Phillips et al., 2006), a widely-used...
This dataset provides spatial predictions of clustering and the genotype association index for the Mojave genotype in local species-environment relationships of Desert Tortoises (Gopherus agassizi and Gopherus morafkaii) for individuals in the subregion encompassing the genetic sampling locations used by Edwards et al. (2015). This region offered an opportunity to explore habitat selection across the ecotone between the Mojave and Sonoran deserts and the secondary contact zone between G. agassizii and G. morafkai, and is referred to as the focal study area. The raster layers contained here accompany the manuscript Inman et al. 2019 and were used to identify multivariate clusters and map them back to geographic space....
To understand the genetic structure of six rare plant species (Acanthomintha ilicifolia, Baccharis vanessae, Chloropyron maritimum ssp. maritimus, Deinandra conjugens, Dicranostegia orcuttiana, Monardella viminea), we obtained samples from known occurrences in San Diego County, prepared and sequenced ddRAD genomic libraries, and developed and analyzed a panel of genetic markers to assess population diversity and divergence. We provide this SNP genotype dataset in Structure format, produced in Stacks v2.0b8, for future monitoring efforts and population genetic analysis. These data support the following publication: Milano, E.R., and Vandergast, A.G., 2018, Population genomic surveys for six rare plant species in...
Lidar-derived digital elevation models often contain a vertical bias due to vegetation. In areas with tidal influence the amount of bias can be ecologically significant, for example, by decreasing the expected inundation frequency. We generated a corrected digital elevation mode (DEM) for Suisun marsh using a modification of the Lidar Elevation Adjustment with NDVI (LEAN) technique (Buffington et al. 2016). GPS survey data (6912 points, collected across public and private land in 2018), Normalized Difference Vegetation Index (NDVI) derived from an airborne multispectral image (June 2018), a 1 m lidar DEM from September 2018, and a 1 m canopy surface model were used to generate models of predicted bias across the...
These datasets contain the attributes of individual trees located in and around Sequoia and Kings Canyon national parks. Attributes include remote sensing indices, terrain characteristics, and-- for the calibration data-- tree size and growth rates. Calibration data (mixedconifervulnerability_calibrationdataset.csv) were collected in long term research plots where trees are visited annually to check for mortality and periodically re-measured for diameter to capture growth. Validation data (mixedconifervulnerability_validationdataset.csv) were collected as part of a randomized sample located within a remote sensing 'flight box'. Remote sensing indices and terrain variables for both datasets were extracted from National...
Categories: Data;
Tags: California,
Ecology,
Forestry,
Sequoia and Kings Canyon National Parks,
Sierra Nevada,
This U.S. Geological Survey data release includes tabular data collected to characterize the habitat and movement of Dixie Valley toads. Data were collected in Dixie Valley, Nevada, in autumn 2018 and spring 2019. These data support the following publication: Halstead, B.J., Kleeman, P.M., Rose, J.P. and Fouts, K.J., 2021. Water Temperature and Availability Shape the Spatial Ecology of a Hot Springs Endemic Toad (Anaxyrus williamsi). Herpetologica, 77(1), pp.24-36. https://doi.org/10.1655/HERPETOLOGICA-D-20-00047.
Categories: Data;
Tags: Dixie Meadows,
Ecology,
USGS Science Data Catalog (SDC),
amphibians,
animal tracking,
WARMER-2 Model Inputs and Projections for Three Tidal Wetland Sites Across San Francisco Bay Estuary
Understanding the rates and patterns of tidal wetland elevation changes relative to sea-level is essential for understanding the extent of potential wetland loss over the coming years. Using an enhanced and more flexible modeling framework of an ecosystem model (WARMER-2), we explored sea-level rise (SLR) impacts on wetland elevations and carbon sequestration rates through 2100 by considering plant community transitions, salinity effects on productivity, and changes in sediment availability. We incorporated local experimental results for plant productivity relative to inundation and salinity into a species transition model, as well as site-level estimates of organic matter decomposition. The revised modeling framework...
The data represent 3 replicate measures of linear distance along 30 fixed transects on permanent subtidal monitoring sites around San Nicolas Island, CA. There were six sites, each of which had five 10-meter by 2-meter band transects on which a suite of kelps and macroinvertebrates was repeatedly counted over almost four decades. Although the transects are each approximately 10 m long, as measured with a meter tape extended between start and end eyebolts set in the sea floor, crevices, boulders, and reef structure provide much more than 20 square meters of surface area. In an effort to quantify the differences in rugosity between the transects, a 13 cm-circumference electronic surveyor’s wheel was used to measure...
Observations (reduced to detected/not detected) of 45 vertebrate species (seven mammals, seven amphibians, and 31 reptiles) across Southern California pitfall sampling projects conducted between 1995 through 2015. Habitat patch locations of every pitfall sampling project presented in a shapefile. Habitat patches were measured based on the size when pitfall sampling began within each. Sampling projects within the same geographic area may have different sized patches based on date of project sampling and if patch erosion occurred. A matrix of whether each species was expected within each habitat patch's species pool based on range maps and published records is also included. These data support the following publication:...
Categories: Data;
Types: Downloadable,
Map Service,
OGC WFS Layer,
OGC WMS Layer,
Shapefile;
Tags: Los Angeles County,
Orange County,
Riverside County,
San Bernardino County,
San Diego County,
This dataset contains data pertaining to ground surface cover in 30 meter plots around a random selection of points within chaparral from Santa Barbara county south to San Diego County in southern California, USA. These data were obtained from historical aerial imagery from 1943 to 1959 and current imagery from 2016 to 2018 and they were compared to quantify changes in cover type over time. These data support the following publication: Syphard, A.D., Brennan, T.J., Rustigian‐Romsos, H. and Keeley, J.E., 2022. Fire‐driven vegetation type conversion in southern California. Ecological Applications, p.e2626. https://doi.org/10.1002/eap.2626.
Categories: Data;
Types: Downloadable,
Map Service,
OGC WFS Layer,
OGC WMS Layer,
Shapefile;
Tags: Botany,
Forestry,
Land Use Change,
Remote Sensing,
Southern California,
Conversion and fragmentation of wildlife habitat often leads to smaller and isolated populations and can reduce a species’ ability to disperse across the landscape. As a consequence, genetic drift can quickly lower genetic variation and increase vulnerability to extirpation. For species of conservation concern, quantification of population size and connectivity can clarify the influence of genetic drift in local populations and provides important information for conservation management and recovery strategies. Here, we used genome-wide single nucleotide polymorphism (SNP) data and capture-mark-recapture methods to evaluate the population structure, genetic diversity and abundance of seven focal sites of the endangered...
These data include potential Yuma Ridgway’s rail (Rallus obsoletus yumanensis) habitat classified from concurrently occurring Landsat images taken during telemetry field studies of and call count surveys for Yuma Ridgway's rail in 2016.
Categories: Data;
Types: Downloadable,
GeoTIFF,
Map Service,
Raster;
Tags: Landsat images,
Listed birds,
Salton Sea,
Sonny Bono Salton Sea National Wildlife Refuge,
Wister Waterfowl Management Area,
Technological advancements in Global Positioning System (GPS) telemetry markers allow almost real-time observation of waterfowl movements and habitat selection. Telemetry data on ducks marked with GPS transmitters can be used to evaluate performance of remote sensing data (for example, dynamic open-water maps produced by Point Blue Conservation Science) for classifying habitats that are flooded and available for waterfowl. Translating dynamic open-water maps to waterfowl-relevant habitat maps provides a major improvement for wildlife researchers and managers to assist in their assessments of the areas and habitats used by waterfowl as hydrologic conditions change, both temporally and spatially. Suitable habitat...
These datasets were developed to represent the genetic diversity, population structure, and geographic distribution of Plantago ovata in the Mojave Desert. This data release consists of two tab-delimited text files representing the genetic diversity and structure of Plantago ovata (.genepop and .vcf), and two raster spatial datasets (GeoTIFF) reflecting predicted habitat for the species within the Mojave Desert. The genetic datasets record genetic variation at an individual level, with the file structures varying based on the programs within which the files are intended to be edited. Each file contains 13,111 SNPs genotyped in 748 individuals. The genepop file can be viewed in GENEPOP software (Rousset 2008) or...
Types: Map Service,
OGC WFS Layer,
OGC WMS Layer,
OGC WMS Service;
Tags: Arizona,
Botany,
California,
Genetics,
Mojave,
We deployed miniature Temperature-Depth Recorders (TDRs; Cefas G5, 3 g, Cefas Technology Ltd., Lowestoft, UK) to measure dive depths and wet/dry condition (depending on TDR model year). TDRs have a saltwater switch that, when immersed, initiates a FastLog mode to record pressure and temperature at high resolution. The FastLog mode can be programmed to record only if the pressure is greater than a user-defined threshold (e.g. dive depth). In addition, some units have a wet/dry setting to record the start and end times of wet periods (bouts of time on the water, regardless of dive behavior). CEFAS G5 TDRs are an archival unit, requiring recapture of the tagged bird to recover the tag and download data. TDRs were...
We deployed miniature Temperature-Depth Recorders (TDRs; Cefas G5, 3 g, Cefas Technology Ltd., Lowestoft, UK) to measure dive depths and wet/dry condition (depending on TDR model year). TDRs have a saltwater switch that, when immersed, initiates a FastLog mode to record pressure and temperature at high resolution. The FastLog mode can be programmed to record only if the pressure is greater than a user-defined threshold (e.g. dive depth). In addition, some units have a wet/dry setting to record the start and end times of wet periods (bouts of time on the water, regardless of dive behavior). CEFAS G5 TDRs are an archival unit, requiring recapture of the tagged bird to recover the tag and download data. TDRs were...
Lidar-derived digital elevation models often contain a vertical bias due to vegetation. In areas with tidal influence the amount of bias can be ecologically significant, for example, by decreasing the expected inundation frequency. We generated a corrected digital elevation mode (DEM) for tidal marsh areas around San Francisco Bay using the Lidar Elevation Adjustment with NDVI (LEAN) technique (Buffington et al. 2016). Survey-grade GPS survey data (6614 points), NAIP-derived Normalized Difference Vegetation Index, and original 1 m lidar DEM from 2010 were used to generate a model of predicted bias across tidal marsh areas. The predicted bias was then subtracted from the original lidar DEM and merged with the NOAA...
Categories: Data;
Types: ArcGIS REST Map Service,
ArcGIS Service Definition,
Downloadable,
GeoTIFF,
Map Service,
Raster;
Tags: Remote Sensing,
San Francisco Bay,
USGS Science Data Catalog (SDC),
biota,
digital elevation models,
We have incorporated the Hawaiian language spellings of place names however, software limitations for metadata files did not allow for inclusion of the appropriate diacritical markings. Among important seabird breeding sites in the main Hawaiian Islands (MHI), Lehua Island off Niʻihau, and Moku Manu Islets off O'ahu support diverse and abundant seabird breeding populations. Both offshore islands provide excellent nesting habitat for surface nesting boobies (Sula spp.) and Moku Manu also supports nesting habitat for relatively large breeding populations of Sooty Tern (Onychoprion fuscatus) and Brown Noddy (Anous stolidus). Additionally, Ulupa'u Crater, near Moku Manu on O'ahu, is one of only a few main island sites...
We examined nest survival of Greater Sage-grouse (Centrocercus urophasianus; hereafter, sage-grouse) in relation to fine-scale habitat patterns that influenced nest site selection, using data from nests of telemetered females at 17 sites across 6 years in Nevada and northeastern California, USA. Importantly, sites spanned mesic and xeric average precipitation conditions and concomitant vegetation community structure across cold desert ecosystems of the North American Great Basin. Vegetative cover immediately surrounding sage-grouse nests was important for both nest site selection and nest survival, but responses varied between mesic and xeric sites. For example, while taller perennial grass was selected at xeric...
Categories: Data;
Tags: California,
Ecology,
Nevada,
USGS Science Data Catalog (SDC),
Wildlife Biology,
Preserving native species diversity is fundamental to ecosystem conservation. Selecting appropriate native species for use in restoration is a critical component of project design and may emphasize species attributes such as life history, functional type, pollinator services, and nutritional value for wildlife. Determining which species are likely to establish and persist in a particular environment is a key consideration. Species distribution models (SDMs) characterize relationships between species occurrences and the physical environment (e.g., climate, soil, topographic relief) and provide a mechanism for assessing which species may successfully propagate at a restoration site. In conjunction with information...
Categories: Data;
Types: Downloadable,
GeoTIFF,
Map Service,
Raster;
Tags: Arizona,
California,
Mojave,
Nevada,
Utah,
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