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These data sets are is a compilation of bird and environmental samples obtained from 6 sites in Maricopa County, Arizona on the dates shown. Sites were only visited and sampled if they had Rosy-cheeked lovebirds coming to bird feeders at the location and with the permission of the property owner. Two swab samples were obtained from each captured bird and 3 swab samples were collected from the environment at each site. Each sample was tested by PCR for Chlamydia psittaci, Psittacine Circovirus genotype 1 [PCV-1]), and Psittacine Circovirus genotype 2 (PCV-2) and, for appropriate samples (love birds and environmental samples) and where enough sample material remained for PBFD virus Pathotype 2.
Fibropapillomatosis (FP) is a tumor disease of marine turtles associated with Chelonid herpesvirus 5 (ChHV5) that has historically been refractory to growth in tissue culture. Here, we show for the first time de novo formation of ChHV5-positive intranuclear inclusions in cultured green turtle cells, which is indicative for active lytic replication of the virus. The minimal requirements to achieve lytic replication in cultured cells included 1) either in-vitro culturing of ChHV5-positive tumor biopsies or organotypic cultures consisting of ChHV5-positive turtle fibroblasts in collagen rafts seeded with ChHV5-negative or -positive turtle keratinocytes and 2) keratinocyte maturation, which occurred naturally in explanted...
The data set contains results for nine serum biochemistries in molting Pacific black brant (Branta bernicla nigricans). These data were used to calculate reference intervals (sometimes referred to as normal values) for the nine serum biochemistries. All brant were after-hatch year. All samples were collected in 2006 and 2007 in the Teshekpuk Lake Special Area, Alaska.
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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...
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Data are included for field surveys conducted for freshwater mussels within the Pine Creek watershed in the Mid-Atlantic region of the United States. Timed search (qualitative) surveys were conducted in ~200 meter sections of river between 1995 and 2009; The number of mussels of each species and associated search time were recorded for each survey section to determine a catch per unit effort (CPUE; number of individuals found per person hour).
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:...
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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.
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To describe calling activity of Pseudacris crucifer in relation to temperature, precipitation, and wetland water levels, we programmed an acoustic recorder (Wildlife Acoustics) to sample seasonal amphibian calls remotely at study site SC4DAI2 in the St. Croix National Scenic Riverway from 2008 to 2012. We programmed the recorder to sample for five minutes at the top of every hour of every day from late winter/early spring through late summer. We used the Songscape option in Songscope software to generate annual summaries of all of our acoustic samples from SC4DAI2. These summaries included a median dB level for each prescribed frequency within each recording. Pseudacris crucifer, the spring peeper, inhabited SC4DAI2...
Since 2008, over 1,400 quadrats and about 2,500 mussels have been systematically sampled within West Newton Chute (WNC), contributing to a diverse assemblage of 25 live species, including 2 federally endangered species, and 10 Minnesota listed species. West Newton Chute is a 2.4 km long side channel in Navigation Pool 5 of the Upper Mississippi River and has an overall aquatic area of ~75 ha. The Minnesota Department of Natural Resources has been quantitatively sampling a mussel bed here (~650 meters long X 170 meters wide) annually since 2008. About 200 systematically-placed 0.25 m2 quads are sampled annually and the quads are spaced ~25 m apart. Briefly, divers excavate substrates to a depth of ~15 cm and place...
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From 1994-1997 I surveyed breeding birds and sampled vegetation at 391 random points on UMR floodplain forest along a latitudinal gradient to characterize bird assemblages and associations with gradients in forest structure at the local survey point and land cover composition within 200m radius of survey points (landscape scale). We conducted 10 minute 50m fixed radius point counts (Ralph et al. 1993) to survey birds during the breeding period between 30 May and 10 July in all years. We sampled the southernmost pool (13) first and then progressed to each pool in succession northward, finishing in Pool 4, sampling each point once a season. Surveys were conducted from 30 minutes before to five hours after local sunrise....
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High-resolution digital aerial imagery was collected on August 24, 2018, with an 80-megapixel Phase One iXU-R 180 natural color aerial camera co-mounted with a Phase One iXU-RS 160 achromatic aerial camera. Software co-registers the simultaneously collected images to create 4-band imagery that can be displayed in either true color (RGB) or color-infrared (CIR) format. The camera system is connected to the plane's positioning and orientation system and precise metadata was generated for each exposure. This imagery was intended to be used as a base layer for object-based image analysis (OBIA) to map aquatic vegetation in western Lake Erie as well as shallow areas along the shoreline of the eastern portion.
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Data set includes water Sr:Ca, Ba:Ca, and δ18O for the Upper Mississippi River and tributaries and otolith Sr:Ca, Ba:Ca, and δ18O data from bigheaded carp collected in pools 19-21 of the Upper Mississippi River. Abstract from manuscript: Knowledge of environments used during early life history and movement patterns of Bighead Carp (Hypophthalmichthys nobilis) and Silver Carp (H. molitrix), collectively termed bigheaded carps, in the Upper Mississippi River (UMR) would be valuable for informing control measures to limit further population expansion and impacts of these species. Lock and Dam 19 (LD19) is a high-head dam on the UMR that delineates downriver areas where bigheaded carps are well-established from upriver...
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This dataset includes temperature and pressure data from 26 sites in the HJ Andrews Experimental Forest in western Oregon. Stream and Air data loggers were deployed in June of 2020 and downloaded in October 2020. The HJ_Andrews_Temperature file contains temperature data (in C°) by logger serial number, site, and usage for the study period. The HJ_Andrews_Pressure file contains pressure data (in kPa) by logger serial number, site, and usage for the study period. The HJ_Andrews_Points spatial data layer contains site locations, geographic information, data summaries, and mean August stream temperatures. The HJ_Andrews_Wet_Dry delineation file contains daily flow status estimates derived from stream and air temperature...
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...
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Proppants used during hydraulic fracturing of oil and gas wells are manufactured to maximize petroleum yield by controlling the size, shape, density, and strength of the proppant material. The most common types of proppants are mined silica sand and manufactured ceramics, some of which are further modified with organic resin coatings to improve performance. Much of the work on the environmental and human health effects of proppant releases into the environment has focused on occupational silicosis, with little attention given to the potential effects from the organic coatings on these materials. This oversight is especially relevant in the context of dumping of unwanted proppant on the land surface, which has been...
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In the face of sea level rise and as climate change conditions increase the frequency and intensity of tropical storms along the north-Atlantic Coast, coastal areas will become increasingly vulnerable to storm damage, and the decline of already-threatened species could be exacerbated. Predictions about response of coastal birds to effects of hurricanes will be essential for anticipating and countering environmental impacts. This project will assess coastal bird populations, behavior, and nesting in Hurricane Sandy-impacted North Carolina barrier islands. The project comprises three components: 1) ground-based and airborne lidar analyses to examine site specific selection criteria of coastal birds; 2) NWI classification...
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Burmese pythons are an invasive species in the Greater Everglades Ecosystem. Burmese pythons captured in the ecosystem are euthanized, and in an effort to learn about this invasive species, all euthanized pythons are necropsied, during which time samples are collected. We analyzed the stable isotope ratios of carbon and nitrogen in muscle samples from 423 Burmese pythons euthanized and necropsied between 2003-05-01 and 2012-09-02, and after processing and QA/QC, we were left with isotope ratios for 410 samples, which we reported here. We used these data to estimate the size of the isotopic niche of the Burmese python, commonly measured using standard ellipse areas, or SEAs. To put these SEAs in context, we conducted...
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The Barrier Island Comprehensive Monitoring (BICM) program was developed by Louisiana’s Coastal Protection and Restoration Authority (CPRA) and is implemented as a component of the System Wide Assessment and Monitoring Program (SWAMP). The program uses both historical data and contemporary data collections to assess and monitor changes in the aerial and subaqueous extent of islands, habitat types, sediment texture and geotechnical properties, environmental processes, and vegetation composition. Examples of BICM datasets include still and video aerial photography for documenting shoreline changes, shoreline positions, habitat mapping, land change analyses, light detection and ranging (lidar) surveys for topographic...
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The Barrier Island Comprehensive Monitoring (BICM) program was developed by Louisiana’s Coastal Protection and Restoration Authority (CPRA) and is implemented as a component of the System Wide Assessment and Monitoring (SWAMP) program. The program uses both historical data and contemporary data collections to assess and monitor changes in the aerial and subaqueous extent of islands, habitat types, sediment texture and geotechnical properties, environmental processes, and vegetation composition. Examples of BICM datasets include still and video aerial photography for documenting shoreline changes, shoreline positions, habitat mapping, land change analyses, light detection and ranging (lidar) surveys for topographic...
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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...
map background search result map search result map A Century of Landscape Disturbance and Urbanization of the San Francisco Bay Region affects the Present-day Genetic Diversity of the California Ridgway’s Rail (Rallus obsoletus obsoletus) Hurricane Sandy impacts on Cape Hatteras (North Carolina), 2012 National Wetlands Inventory Classification Serum biochemistries of Pacific black brant Chelonid herpesvirus 5 virus isolation data Occurrence of Chlamydia sp in apparently healthy birds associated with a mortality event caused by chlamydiosis: Data Riverine Sand Mining/Scofield Island Restoration (BA-40): 2014 habitat classification (ver. 1.1, August 2021) Daily calling activity for Pseudacris crucifer at site SC4DAI2 in the St. Croix National Scenic Riverway from 2008 to 2012, as indicated by the results of integrating daily median dB values across 2900 to 3200 Hz and 2100 to 2300 h Greater Everglades Burmese python stable isotope data, 2003-2012, and standard ellipse area literature review, 2018 Genotypes for six rare plant species found in San Diego County in 2016-2017 Upper Mississippi River water and bigheaded carp otolith chemistry data 1990s bird and vegetation data from UMR floodplain forest Mussel Density Quadrat Sampling Locations in West Newton Chute from 2008 to 2017 Pine Creek freshwater mussel qualitative survey data 1995 through 2009 Genetic and Habitat Data for Plantago ovata in the Mojave Desert Species Observations from Pitfall Trap Arrays, Species Pool Matrices, and Patch Locations in Southern California from 1995-2015 Pass Chaland to Grand Bayou Pass Barrier Shoreline Restoration (BA-35): 2016 habitat classification 2018 Eastern Lake Erie Shoreline 4-Band Mosaics and Orthophotos Air and stream temperature and pressure for HJ Andrews Experimental Forest, Western Oregon, 2020 Vegetation Type Conversion in Southern California Between 1943 and 2018 Chemistry data from leachates of hydraulic fracturing proppants collected from southeastern New Mexico, 2018-2019 Mussel Density Quadrat Sampling Locations in West Newton Chute from 2008 to 2017 Riverine Sand Mining/Scofield Island Restoration (BA-40): 2014 habitat classification (ver. 1.1, August 2021) Pass Chaland to Grand Bayou Pass Barrier Shoreline Restoration (BA-35): 2016 habitat classification Air and stream temperature and pressure for HJ Andrews Experimental Forest, Western Oregon, 2020 A Century of Landscape Disturbance and Urbanization of the San Francisco Bay Region affects the Present-day Genetic Diversity of the California Ridgway’s Rail (Rallus obsoletus obsoletus) Upper Mississippi River water and bigheaded carp otolith chemistry data Hurricane Sandy impacts on Cape Hatteras (North Carolina), 2012 National Wetlands Inventory Classification Pine Creek freshwater mussel qualitative survey data 1995 through 2009 Genotypes for six rare plant species found in San Diego County in 2016-2017 Occurrence of Chlamydia sp in apparently healthy birds associated with a mortality event caused by chlamydiosis: Data Greater Everglades Burmese python stable isotope data, 2003-2012, and standard ellipse area literature review, 2018 Species Observations from Pitfall Trap Arrays, Species Pool Matrices, and Patch Locations in Southern California from 1995-2015 Daily calling activity for Pseudacris crucifer at site SC4DAI2 in the St. Croix National Scenic Riverway from 2008 to 2012, as indicated by the results of integrating daily median dB values across 2900 to 3200 Hz and 2100 to 2300 h 2018 Eastern Lake Erie Shoreline 4-Band Mosaics and Orthophotos Vegetation Type Conversion in Southern California Between 1943 and 2018 Genetic and Habitat Data for Plantago ovata in the Mojave Desert Chelonid herpesvirus 5 virus isolation data Chemistry data from leachates of hydraulic fracturing proppants collected from southeastern New Mexico, 2018-2019 Serum biochemistries of Pacific black brant 1990s bird and vegetation data from UMR floodplain forest