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Data package for NutNet project: Compositional variation in grassland plant communities (60 sites, 2007-2020)
Data associated with a manuscript examining compositional variation in grassland plant communities around the globe. We used a globally distributed experiment to examine variation in species composition within 60 grasslands on 6 continents. Each site had an identical experimental and sampling design: 24 plots x 4 years. We expressed compositional variation within each site—not across sites—using abundance- and incidence-based metrics of the magnitude of dissimilarity (Bray-Curtis and Sorensen, respectively), abundance- and incidence-based measures of the relative importance of replacement (balanced variation and species turnover, respectively), and species richness at two scales (per plot-year (alpha) and per site (gamma)). We assessed species composition separately for each site and then compared patterns among sites, asking: (1) How does small-scale compositional variation differ among grasslands?; (2) Can compositional variation within a site be predicted by its biotic and abiotic context?; and (3) Does a combination of metrics enhance our understanding of the ecological processes at individual sites? This data package includes the site-specific values of each metric and the explanatory variables used to predict differences in compositional variation among sites. Scripts to conduct analyses and create figures and tables are also provided.
Small mammals surveys, 1981 - 1996, Adirondack Long-Term Ecological Monitoring Program Project No. 10 by Adirondack Ecological Center of the State University of New York College of Environmental Science and Forestry, Newcomb, New York. Environmental Data Initiative
Small mammals are important in forested ecosystems: they are key predators on seeds and invertebrates, provide food for larger predators and act as disease vectors. The objective of this study was to document small mammal abundance and population changes in managed and unmanaged forests of Huntington Wildlife Forest (HWF). Seven sites were sampled from 1981-1996. Fifty traps per site (250 total) were deployed for 4 nights and checked in the mornings. All captured small mammals were identified, sexed, weighed, and measured for reproductive condition, tagged, and brought into the lab for processing. Females with embryos or placental scars were noted in the lab. Over a five-year period, 671 deer mice; 261 woodland jumping mice, 594 southern redbacked voles, 248 short-tailed shrews, 373 masked shrews, 75 smoky shrews and small numbers of other species were captured and sexed/aged. According to Prachar and Sage (1988), weights of deer mice, redbacked voles, woodland jumping mice, short-tailed shrews, masked shrews and smoky shrews differed among years and age classes for 1983-1987. Weights differed between sexes for mice and voles but not shrews. Placental scar/embryo counts of mice and voles did not differ among years, habitats, mammal age classes or sexes. Reproductive rates of shrews exhibited patterns of fluctuation from 1983-1987.
Songbird surveys , 1952 - 1964, 1983 - 2008 Adirondack Long-Term Ecological Monitoring Program Project No. 2 Breeding Birds by Adirondack Ecological Center of the State University of New York College of Environmental Science and Forestry, Newcomb, New York. Environmental Data Initiative.
Study objectives were to (1) Document long-term trends in relative abundance and diversity of breeding forest birds (songbirds) in forest stands with different harvest histories and (2) Identify bird species that can be used as indicators of habitat change or degradation. Declines in neotropical migrants have been linked to changes in habitat quantity and quality across species' range. Songbirds that nest and forage in different habitat types or at different heights in the forest canopy may not be affected equally by forest change or management. We detected breeding songbirds using point-counts at Huntington Wildlife Forest (HWF) in the central Adirondack Mountains of New York during 1983-2000 and modeled on an original songbird point count dataset from Webb et al. (1977). Relative abundance (RA, the number of individual birds/count) was measured in sites with differing management histories, from an unmanaged >300-year-old stand to a stand cut with the shelterwood/overstory removal method just prior to sampling in 1983). Over eighty bird species were detected during the study duration. Songbird ecology and habitat characteristics can be used to understand long-term changes in relative abundance as related to forest change.
Uneven Aged Management Project (UAMP), Andrews Experimental Forest
The study consists of 16 treatment units – stands ranging in size from 7 to 11 ha – within the H.J. Andrews Experimental Forest. Each unit is has assigned one of four alternative thinning regimes – unthinned (Control), light thin with patch openings (GAP), light thin (Light) or heavy thin (Heavy),. The stands are to be managed under these alternative regimes over several harvest cycles as the experiment evaluates alternative thinning regimes to convert uniform, even-aged stands, to structurally heterogeneous uneven-aged structure. Vegetation data collection occurred pretreatment (1997 or 1998) and post-treatment (2001, 2003, 2005 and 2010).
Landcover change analysis of the McKenzie Basin for the Maps and Locals (MALS) project.
This dataset was developed for use in an analysis of landcover change in the McKenzie Basin for the Maps and Locals (MALS) project. MALs is funded by LTER Social Science Supplement grants of the National Science Foundation.
Whole stream metabolism (I8 Inlet, I8 Outlet; Peat Inlet; Kuparuk): Changing seasonality of Arctic stream systems project
The Changing Seasonality of Arctic Stream Systems (CSASN) was active from 2010 to 2012. The CSASN goal was to quantify the relative influences of through flow, lateral inputs, and hyporheic regeneration on the seasonal fluxes C, N, and P in an arctic river network, and to determine how these influences might shift under seasonal conditions that are likely to be substantially different in the future. Whole Stream Metabolism was calculated using dissolved oxygen, discharge, stage, and temperature measured by sounds deployed in the field.
Bacterial production and respiration data set for NSF Arctic Photochemistry project on the North Slope of Alaska.
Data file describing the bacterial production and bacterial respiration of water samples collected at various sites near Toolik Lake on the North Slope of Alaska. Sample site descriptors include site, date, time, depth, and category representing severity of thermokarst disturbance. A synthesis of the data presented here is published in Cory et al. 2013, PNAS 110:3429-3434, and in Cory et al. 2014, Science 345:925-928.
Biogeochemistry data set for NSF Arctic Photochemistry project on the North Slope of Alaska.
Data file describing the biogeochemistry of samples collected at various sites near Toolik Lake on the North Slope of Alaska. Sample site descriptors include a unique assigned number (sortchem), site, date, time, depth, and category (level of thermokarst disturbance). Physical measures collected in the field include temperature, electrical conductivity, and pH. Chemical analyses include alkalinity; dissolved organic carbon (DOC); inorganic and total dissolved nutrients (NH4, PO4, NO3, TDN, TDP); particulate carbon, nitrogen, and phosphorus (PC, PN, and PP); cations (Ca, Mg, Na, K); anions (Cl, SO4); and silica. A synthesis of much of the data presented here is published in Cory et al. 2013, PNAS 110:3429-3434; Cory et al. 2014, Science 345:925-928; and Page et al. 2013, Environment, Science, & Technology 47:12860−12867.
Light profile data set for NSF Photochemistry project on the North Slope of Alaska.
Data file containing the irradiance profile with depth in two rivers on the North Slope of Alaska near Toolik Lake . Variables include site, depth, and wavelength. A synthesis of the data presented here is published in Cory et al. 2013, PNAS 110:3429-3434, and in Cory et al. 2014, Science 345:925-928.
Apparent quantum yield data set for NSF Photochemistry project on the North Slope of Alaska.
Data file describing the apparent quantum yield of photo-oxidation, photo-mineralization, and photo-stimulated microbial respiration of dissolved organic carbon in water samples collected at various sites near Toolik Lake on the North Slope of Alaska. A synthesis of the data presented here is published in Cory et al. 2013, PNAS 110:3429-3434, and in Cory et al. 2014, Science 345:925-928.
Photochemistry data set for NSF Photochemistry project on the North Slope of Alaska.
Data file containing optical characterization of colored dissolved organic matter (CDOM). Data include CDOM absorption coefficients, water column light attenuation coefficients, specific UV light absorbance (SUVA254), spectral slope ratio, and fluorescence index from waters near Toolik Lake on the North Slope of Alaska. A synthesis of the data presented here is published in Cory et al. 2013, PNAS 110:3429-3434, and in Cory et al. 2014, Science 345:925-928.
Long-term Carbon and Nitrogen, and Phosphorus Dynamics of Leaf and Fine Root Litter project (LIDET-Long-term Intersite Decomposition Experiment Team) data for the ARC, Arctic LTER. 1990 to 2000.
This file is from the Long-term Carbon and Nitrogen, and Phosphorus Dynamics of Leaf and Fine Root Litter project (LIDET-Long-term Intersite Decomposition Experiment Team). This file contains only the Arctic LTER data. In particular the mass looses over the ten year study. Three types of fine roots (graminoid, hardwood, and conifer), six types of leaf litter (which ranged in lignin/nitrogen ratio from 5 to 75), and wooden dowels were used for litter incubations over a ten year period.
Green stormwater infrastructure projects voluntarily installed in Baltimore City through 2019
Much of the green stormwater infrastructure (GSI) in Baltimore, Maryland, USA, has been installed voluntarily by nonprofits and community groups, yet no comprehensive record of these installations previously existed. We worked with nonprofit stakeholders and Baltimore’s Department of Public Works to compile such a record, using both information provided by these agencies and publicly available data sources such as annual reports and newspaper articles. This dataset includes all voluntary green stormwater infrastructure projects that we were able to identify by the end of 2019, with the first known installation completed in 2001. The dataset includes two data tables, one with project-level information, and one with the locations of individual GSI facilities included in each project.
Carbon in Permafrost Experimental Heating Research (CIPEHR) project: Foliar mineral element concentrations, stocks, and annual litterfall fluxes in July 2009 and 2017
In this study, we are asking the question: how permafrost degradation may influence foliar mineral element cycling with changing subarctic tundra vegeatation? We are answering this question by using a combination of field measurements (aboveground biomass, foliar biomass, foliar net primary productivity (NPP)) and laboratory measurements (mineral element foliar concentration: Al, Ca, Fe, K, Mn, P, S, Si, and Zn) to evaluate the mineral element foliar stocks and the mineral element foliar fluxes upon annual litterfall. We covered 5 vascular plant species from an established tundra field site near Healy, Alaska in the foothills of the Alaska Range. Field measurements center on at a warming experiment located in an upland tundra field site near Healy, Alaska in the foothills of the Alaska Range. Elemental analyses of plant species typical from the moist acidic tundra (in 2009 and 2017), combined with relative aboveground biomass and NPP measurements, brought key information on the influence of permafrost degradation and the vegetation composition on the litter elemental composition, and thereby the plant nutrient cycling across the subarctic tundra.
Seasonal leaf litter mass (2000 - 2010) for the Functional Diversity project, Coweeta Hydrologic Laboratory, Otto, North Carolina
The importance of the herbaceous layer in regulating ecosystem processes in deciduous forests is generally unknown. We use a manipulative study in a rich, mesophytic cove forest in the southern Appalachians to test the following hypotheses: (i) the herbaceous functional group (HFG) in mesophytic coves accelerates carbon and nutrient cycling, (ii) high litter quality input and rapid nutrient turnover associated with HFG will have a positive effect on overstory tree growth, and (iii) the HFG regulates tree regeneration with negative effects on seedling establishment due to competition for resources. We established treatment plots in a mesic, cove-hardwoods forest and removed the herbaceous flora (HR, removed twice per year) or added herbaceous organic material (OMA, once per year) for comparison to a no removal (NR) reference for a total of 14 years. The OMA treatment stimulated soil N-mineralization and increased litterfall mass and N content. OMA N-mineralization rates were more than two times greater than both the NR and HR treatments; however, we did not detect significant differences in soil CO2 efflux among treatments. Higher overstory litterfall mass and N in the OMA treatment plots indicated that overstory trees were benefiting from the enhanced soil N-mineralization. Higher overstory leaf mass and N suggests an important linkage between HR and aboveground net primary production even though this did not translate into greater tree basal area increment. We found an increase in regeneration of all tree species with HFG removal, and the response was particularly evident for Acer rubrum seedlings.
Porous tension-cup lysimeter depths and soil water chemistry from 9 Hillslope Project sites in Macon County, North Carolina, within the Upper Little Tennessee River Basin
Porous tension-cup lysimeters were installed at 9 sites throughout Macon County beginning in 2011. Sites represented a gradient of land use, including relatively undisturbed forests, valley bottomlands in agriculture, and mountain developments. Eighteen lysimeters were placed at each site - 9 were shallow lysimeters located in the A horizon and 9 were deep lysimeters located in the B horizon. Collections were made every other week and samples were composited monthly for chemistry. The depths of the lysimeters were noted.
Maximum soil depths from 9 Hillslope Project sites in Macon County, North Carolina, within the Upper Little Tennessee River Basin
Maximum soil depths were assessed as part of the soil bulk density and soil chemistry studies at the hillslope plots in Macon County, North Carolina. There were 9 hillslope representing a gradient of development, including forested, valley agriculture, and mountain housing developments. A soil probe was used to estimate the maximum soil depth of each of the 12 10 x 10-m plots at each site.
Tree, shrub, and herb data from 10 Hillslope Project sites located in Macon County, North Carolina, within the Upper Little Tennessee River Basin
Vegetation was surveyed on 10 sites in the upper Little Tennessee River watershed in Macon County, North Carolina during the summer of 2012. The sites represent a gradient of development, including forested sites, agricultural sites, and exurban sites. All woody vegetation >2.5 cm diameter at breast height (DBH) was measured and identified within twelve 10 x 10 m plots at each site. Woody shrubs >0.5 m in height and <2.5 cm DBH were counted and identified within a 1x10 m transect in each plot. Herbs and woody plants <0.5m in height were identified and percent cover estimated in 3 1 x 1 m subplots located within each of the larger 10 x 10 m plots.
Gunnison's Prairie Dog Relocation Project: Vegetation Standing Crop Data from the Sevilleta National Wildlife Refuge, New Mexico (2005-2011)
Grasslands are among the most imperiled ecosystems in the world where the loss of native species is a consequence of agriculture and desertification. In North America, 90% of the grassland has been converted to cropland where vast areas are now desertified. North America's most iconic grassland herbivores, bison and prairie dogs, are now extinct throughout most of their historic range. This study measures the standing crop of plant vegetation (perennial and annual combined) for the year on areas occupied and not occupied by Gunnison's prairie dogs on the Sevilleta National Wildlife Refuge (NWR).
Gunnison's Prairie Dog Relocation Project: Population Dynamics within Grasslands at the Sevilleta National Widlife Refuge, New Mexico (2005-2014)
The Sevilleta Gunnison’s Prairie Dog (Cynomys gunnisoni) Restoration project examines keystone consumer (herbivore) effects on grassland in concert with ecological restoration of a “species of greatest conservation need in New Mexico” (NMGandF Comprehensive Wildlife Conservation Strategy, 2007). SevLTER partners directly with Sevilleta National Wildlife Refuge, New Mexico Game and Fish, USFS Rocky Mountain Research Station and non-profit Prairie Dog Pals on this ambitious effort to re-establish Gunnison’s prairie dogs to blue grama dominated (Bouteloua gracilis) Great Plains grassland at the foothills of the Los Pinos Mountains on Sevilleta. While engaged in wildlife management aimed at translocation of approximately 3000 individual prairie dogs, ultimately establishing 5-6 colonies over a 500 ha area, SevLTER is focusing resources on monitoring population dynamics of reintroduced prairie dogs and their effects on vegetation production and diversity, soil disturbance and grasshopper community composition. In this experiment, prairie dogs act as the treatment on a grassland site where the species was extirpated 40 years ago. The long term nature of the project lies in the course of re-establishing prairie dogs combined with the ultimate research goal of describing the functional role of Gunnison’s prairie dogs in an arid grassland ecosystem: first we are challenged to develop and document an economical and efficient management strategy which maximizes reintroduction success and colony survival; second we are tasked with monitoring prairie dog dynamics and their effects on the grassland throughout re-establishment and into a future state, when presumably management intervention will have subsided and we characterize the ecosystem as ‘restored’ – both in the face of highly variable abiotic inputs such as precipitation and temperature and biotic impacts such as predation.
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These curated guides explain access requirements, typical timelines, costs, and reuse considerations for widely used research datasets.
Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.