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Plot-level wood-leaf separation for terrestrial laser scanning point clouds
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Data from: Patterns of tree mortality in a temperate deciduous forest derived from a large forest dynamics plot
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NEON forest and woodland plots: diversity, structure and climate
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Data from: Plotting for change: an analytic framework to aid decisions on which lineages are candidate species in phylogenomic species discovery
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Processed model data used for plots in Bondzio et al., GRL 2018
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Demographic response to light environment of all species in the Barro Colorado plot: recruitment, growth, and mortality
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Nel-Rep plots: Spruce and alder heights and diameters 1990-1997
This experiment considers the growth of white spruce and green alder under a variety of densities. The plantation lay-out is a combination of Nelder plots and a classical replacement series. Densities within individual plots range over four orders of magnitude, and the experiment as a whole includes plots with five different species ratios (100:0, 75:25, 50:50, 25:75, 0:100). The spruce were planted in 1990 and the alders planted in 1991. Dead seedlings were replaced during the first five years of the study. This text file includes height and diameter measurements of spruce and alder from 1990 to 2002 (some years absent), and other measurements such as dead number for each year. Units of measurement for height and diameter are 'CM' and 'mm', respectively. 'SPMIX' means different percentage of spruce and alder in each block.
Microclimate measurement, HOBO stations at permanent plots, sites
HOBO micromet station are located at the three permanent plots, presidents house, desert botanical garden, and community services building. All stations are equiped with temperature, humidity, and PAR sensors. The station at the DBG is part of an experimental setup in which different watering regimes are tested. At the presidents house soil temperatures and moisture is measured at 3 depth. At the community services building soil temperature and moisture are measured at the same depth under a shrub, in a swale and a slope.
Leaf 15N isotope, total N and delta 15N from 9 species water treatment plots:e141: BioCON : Biodiversity, Elevated CO2, and N Enrichment
BioCON (Biodiversity, CO2, and Nitrogen) is an ecological experiment started in 1997 at the University of Minnesota's Cedar Creek Ecosystem Science Reserve. BioCON's goal is to explore the ways in which plant communities will respond to three environmental changes that are known to be occurring on a global scale: increasing nitrogen deposition, increasing atmospheric CO2, and decreasing biodiversity. Why Biodiversity, CO2, and Nitrogen? While there are many uncertainties in global change biology, there are also some well documented facts. Some of these are: 1. The amount of carbon dioxide (CO2) in the atmosphere is rising. Since the industrial revolution, the CO2 concentration in the atmosphere has increased from approximately 275 parts per million (ppm) to about 378 ppm today. This has been largely the result of fossil fuel burning. It is expected that CO2 levels will continue to rise, and that by the year 2050 these levels will be approximately 550 ppm. CO2 is the raw material for photosynthesis and is known to affect plant growth and development. 2. The amount of nitrogen moving through terrestrial ecosystems has increased in the recent past. While natural "background" levels of nitrogen fixation have remained constant, human additions to the system through fertilizer production and fossil fuel use have increased dramatically. Nitrogen is a key nutrient for plant growth and plays a critical role in plant community structure and composition in many environments. 3. Biodiversity levels are falling. While the research and data are not as complete as they are for CO2 and nitrogen, data indicate that the number of species globally, is being reduced. Perhaps more important for ecosystem function, diversity levels on local to regional scales have fallen due to land use change, biotic invasion and many other drivers. While much is known about how each of these factors affects ecosystem functioning, many questions remain. There is also little data on how these issues affe
Leaf delta 13C and total C from 9 species water treatment plots:e141: BioCON : Biodiversity, Elevated CO2, and N Enrichment
BioCON (Biodiversity, CO2, and Nitrogen) is an ecological experiment started in 1997 at the University of Minnesota's Cedar Creek Ecosystem Science Reserve. BioCON's goal is to explore the ways in which plant communities will respond to three environmental changes that are known to be occurring on a global scale: increasing nitrogen deposition, increasing atmospheric CO2, and decreasing biodiversity. Why Biodiversity, CO2, and Nitrogen? While there are many uncertainties in global change biology, there are also some well documented facts. Some of these are: 1. The amount of carbon dioxide (CO2) in the atmosphere is rising. Since the industrial revolution, the CO2 concentration in the atmosphere has increased from approximately 275 parts per million (ppm) to about 378 ppm today. This has been largely the result of fossil fuel burning. It is expected that CO2 levels will continue to rise, and that by the year 2050 these levels will be approximately 550 ppm. CO2 is the raw material for photosynthesis and is known to affect plant growth and development. 2. The amount of nitrogen moving through terrestrial ecosystems has increased in the recent past. While natural "background" levels of nitrogen fixation have remained constant, human additions to the system through fertilizer production and fossil fuel use have increased dramatically. Nitrogen is a key nutrient for plant growth and plays a critical role in plant community structure and composition in many environments. 3. Biodiversity levels are falling. While the research and data are not as complete as they are for CO2 and nitrogen, data indicate that the number of species globally, is being reduced. Perhaps more important for ecosystem function, diversity levels on local to regional scales have fallen due to land use change, biotic invasion and many other drivers. While much is known about how each of these factors affects ecosystem functioning, many questions remain. There is also little data on how these issues affe
Effects of Salicaceae species litter type and moisture at 10 paired wetland by upland plots:Specialization, maintenance of diversity and ecosystem consequences of growth defense trade-offs in a model system: the hyper-diverse willow communities of Cedar Creek
Cedar Creek includes a diversity of habitats, which support an astonishing number of species (15) from a single evolutionary lineage: the willow family (Salicaceae). The physiological tolerances and abiotic mechanisms that maintain natural diversity in this hyper-diverse system are beginning to be understood; the role of biotic interactions, however, remains a major gap in understanding. We hypothesize that insect herbivory plays a critical role in niche partitioning, providing an important explanation for high willow diversity. Using a replicated series of common gardens and insect herbivore manipulations in resource rich and resource poor habitats, we are testing for evolved trade-offs between defense investment and growth rate. We expect specialized plant syndromes to emerge along the continuum from ???herbivore escape??? via fast growth in high resource environments to ???anti-herbivore protection??? via heavy investment in defense in low resource environments. Evolved growth/defense strategies that promote diversity are also likely to have ecosystem consequences due to foliar chemical influences on decomposition and the composition and diversity of the insect communities they support. The proposed research takes advantage of natural diversity, providing an important model system at Cedar Creek.
Litter biomass carbon nitrogen from water treatment plots:BioCON: Biodiversity, CO2, and Nitrogen
BioCON (Biodiversity, CO2, and Nitrogen) is an ecological experiment started in 1997 at the University of Minnesota's Cedar Creek Ecosystem Science Reserve. BioCON's goal is to explore the ways in which plant communities will respond to three environmental changes that are known to be occurring on a global scale: increasing nitrogen deposition, increasing atmospheric CO2, and decreasing biodiversity. Why Biodiversity, CO2, and Nitrogen? While there are many uncertainties in global change biology, there are also some well documented facts. Some of these are: 1. The amount of carbon dioxide (CO2) in the atmosphere is rising. Since the industrial revolution, the CO2 concentration in the atmosphere has increased from approximately 275 parts per million (ppm) to about 378 ppm today. This has been largely the result of fossil fuel burning. It is expected that CO2 levels will continue to rise, and that by the year 2050 these levels will be approximately 550 ppm. CO2 is the raw material for photosynthesis and is known to affect plant growth and development. 2. The amount of nitrogen moving through terrestrial ecosystems has increased in the recent past. While natural "background" levels of nitrogen fixation have remained constant, human additions to the system through fertilizer production and fossil fuel use have increased dramatically. Nitrogen is a key nutrient for plant growth and plays a critical role in plant community structure and composition in many environments. 3. Biodiversity levels are falling. While the research and data are not as complete as they are for CO2 and nitrogen, data indicate that the number of species globally, is being reduced. Perhaps more important for ecosystem function, diversity levels on local to regional scales have fallen due to land use change, biotic invasion and many other drivers. While much is known about how each of these factors affects ecosystem functioning, many questions remain. There is also little data on how these issues affe
Plot coordinates for the E120 Big Biodiversity Field: Biodiversity II: Effects of Plant Biodiversity on Population and Ecosystem Processes
Biodiversity II (E120) is designed to determine how the number of plant species affects the dynamics of ecological processes at the population, community, and ecosystem levels. By experimentally manipulating the number of species and the kinds of species, the amount of plant growth and the change from year to year, that result can be examined. Plots are large (9m x 9m actively maintained) and well-replicated, allowing responses of plant pathogens, insect herbivores, seed predators, soil parameters, invasive plant species and other variables to also be studied. Plots were seeded in May 1994 to have 1, 2, 4, 8, or 16 species, with roughly 30 replicates of each diversity level. The species composition of each plot was chosen by random draw from a pool of 18 grassland perennials that included four warm-season (C4) grasses, four cool-season (C3) grasses, four legumes, four non-legume forbs, and two woody species. All species occur in monoculture allowing comparison of responses of each species in monoculture to combinations of these same species. The experiment was established in 1994 by the lead investigators David Tilman, Peter Reich, Johannes Knops, and David Wedin. Experiment 120 is similar to Experiment 123, but it uses larger plots to provide a large capacity for long-term subexperiments.
FAB 1 Forests and Biodiversity Experiment - High density diversity experiment:Soil lipid (P/NLFA) and AMF (spore and sequence) data from selected plots
A forest biodiversity experiment (FAB) focused on trees of our region investigates the consequences of multiple dimensions of tree diversity for soil, food webs, plant communities and ecosystems. FAB is designed to unravel effects of three forms of biological diversity: species richness (SR), functional diversity (FD), and phylogenetic diversity (PD). We define FD as the representation of multiple traits of leaves, roots, seeds, and the whole organism that are correlated with species positions along gradients of resource supply, growth, and decomposition. PD is the representation of evolutionary lineages measured as the genetic distances between species. While PD and FD are often correlated, convergent evolution and adaptive differentiation can decouple them. When functional traits that drive specific ecosystem functions are not phylogenetically conserved, PD and FD may give contrasting predictions. SR, PD, and FD are not independent, and we posit that PD may help explain SR effects, and FD may help explain both PD and SR effects. Thus FAB is designed to examine the separate and combined effects of all three components of diversity for multiple ecosystem functions and to distinguish between ???sampling??? and ???complementarity??? effects of biodiversity. Due to the long lag between planting tree seedlings and determining effects of tree composition and diversity on ecosystem functioning, fewer experiments have been established to elucidate the role of biodiversity in the functioning of forest ecosystems than grassland experiments. FAB will contribute to this gap and is a member of the IDENT and TreeDiv network of forest biodiversity experiments (www.treedivnet.ugent.be). Hypotheses: 1. PD, FD, and SR will all contribute to increased productivity, stability, and diversity of other trophic levels (herbivores, predators, parasitoids, soil microbes, soil flora and fauna) as well as to greater soil C sequestration. 2. Because PD incorporates both the number of species a
Fine root biogenic silica in sugar maple trees (Acer saccharum) on soil freezing and control plots at the Hubbard Brook Experimental Forest
This dataset presents biogenic silica (BSi) concentrations in sugar maple (Acer saccharum) fine roots collected from a snow manipulation experiment at Hubbard Brook Experimental Forest (New Hampshire, USA). BSi data are reported as percent dry biomass. The samples were collected from control and treatment plots in April 2009, May 2009, and April through July 2010. These data were gathered as part of the Hubbard Brook Ecosystem Study (HBES). The HBES is a collaborative effort at the Hubbard Brook Experimental Forest, which is operated and maintained by the USDA Forest Service, Northern Research Station.
Macrosystems Gigante Soil Sample Data on N, P, K and Micronutrient Treated Plots 16S rRNA Resampled
Patterns of biodiversity, such as the increase toward the tropics and the peaked curve during ecological succession, are fundamental phenomena for ecology. Such patterns have multiple, interacting causes, but temperature emerges as a dominant factor across organisms from microbes to trees and mammals, and across terrestrial, marine, and freshwater environments. However, there is little consensus on the underlying mechanisms, even as global temperatures increase and the need to predict their effects becomes more pressing. The purpose of this project is to generate and test theory for how temperature impacts biodiversity through its effect on biochemical processes and metabolic rate. A combination of standardized surveys in the field and controlled experiments in the field and laboratory measure diversity of three taxa -- trees, invertebrates, and microbes -- and key biogeochemical processes of decomposition in seven forests distributed along a geographic gradient of increasing temperature from cold temperate to warm tropical. This data set captures abundance of OTUs (Operational Taxonomic Units) sampled for in forest soils at the Gigante Peninsula plots in Panama. Prior to macrosystems collection, these plots had been fertilized with N, P, K, and micronutrients for 14 years. This data represents abundance of 16S rRNA genes in soil samples at Gigante processed by the University of Oklahoma Institute for Environmental Genomics as part of a macrosystems biodiversity and latitude project supported by the National Science Foundation under Cooperative Agreement DEB#1065836.
Macrosystems Gigante Soil Sample Data on N, P, K and Micronutrient Treated Plots - ITS Resampled
Patterns of biodiversity, such as the increase toward the tropics and the peaked curve during ecological succession, are fundamental phenomena for ecology. Such patterns have multiple, interacting causes, but temperature emerges as a dominant factor across organisms from microbes to trees and mammals, and across terrestrial, marine, and freshwater environments. However, there is little consensus on the underlying mechanisms, even as global temperatures increase and the need to predict their effects becomes more pressing. The purpose of this project is to generate and test theory for how temperature impacts biodiversity through its effect on biochemical processes and metabolic rate. A combination of standardized surveys in the field and controlled experiments in the field and laboratory measure diversity of three taxa -- trees, invertebrates, and microbes -- and key biogeochemical processes of decomposition in seven forests distributed along a geographic gradient of increasing temperature from cold temperate to warm tropical. This data set captures abundance of OTUs (Operational Taxonomic Units) sampled for in forest soils at the Gigante Peninsula plots in Panama. Prior to macrosystems collection, these plots had been fertilized with N, P, K, and micronutrients for 14 years. This data represents abundance of ITS (fungi) genes in soil samples at Gigante processed by the University of Oklahoma Institute for Environmental Genomics as part of a macrosystems biodiversity and latitude project supported by the National Science Foundation under Cooperative Agreement DEB#1065836.
Long-term data from field erosion plot studies in eastern Austria
<p>The data include measured data for three different soil tillage practices from three experimental sites in eastern Austria. The Tables 1-3 include for each site and each year the period of operation, the planted crop, the annual precipitation, the surface runoff in mm, the soil loss in t/ha and the surface losses of total nitrogen, total phosphorus and soil organic carbon in kg/ha. Crop yields were determined from 45 m² large plots with one or two replications. Yields in kg/ha are not available for all years, but relative yield in % are.</p> <p>The experiments were conducted at three sites in eastern Austria: in Mistelbach, Pixendorf and Pyhra. The soils in Mistelbach and Pyhra are classified as Typic Argiudolls while the soil in Pixendorf is an Entic Hapludoll. Soil textures range from silt loam to loam. Average annual rainfall (1994-2018) at the sites amounts from 621 to 916 mm with average annual air temperatures between 9.4 and 10.4 °C.</p> <p>Following soil tillage treatments were investigated: (1) conventional tillage system with ploughing in fall (CT), (2) mulch tillage with cover crops during winter (MT) and (3) no-till with cover crops during winter (NT). The study design was a randomized block and each treatment was replicated twice. Each treatment was equipped with one field runoff plot. The experimental plots were 6 m wide and – depending on site conditions - between 40 and 80 m long. The study design consisted of 3 (Mistelbach) and 4 m wide (Pixendorf, Pyhra) and 15 m long runoff plots for each management variation. Each plot was bordered by stainless steel metal sheets. At the lower end of the plot surface runoff and soil loss were collected in a trough and then diverted by a 100-mm PVC pipe to an Automated Erosion Wheel (AEW). The design of this AEW is similar to a tipping bucket and consists of four equal sections of five liters resulting in a resolution of each tip of 0.08 mm for 60 m² plots. A magnetic sensor system was used for continuous runoff measurement.</p> <p>Soil-water-suspension was divided by an adapted multi-tube divisor taking 3.3% of the sample that is collected in a 60 L collection tank. After each erosive storm the collection tank was emptied and the runoff sample was brought to the laboratory, weighed and dried until constant mass was achieved to determine sediment concentration. Based on the continuously measured runoff data from the data logging system and the sediment concentration the amount of soil loss from the plots was calculated for each erosive event.</p> <p>Throughout the investigation period soil erosion, surface runoff and nutrient and carbon losses and partly also pesticide losses due to erosion processes were determined for all sites and tillage systems. Immediately after planting/seeding of summer crops the erosion plots were installed and then operated until harvest. After the harvest the equipment was removed. No measurements were performed during winter due to limited accessibility and frost damages to the equipment. At each site an automatic tipping bucket rain gauge was placed to measure rainfall in 5-min intervals.</p> <p>Crop yield was determined from each treatment with three replications.</p> <p>Total nitrogen and total carbon in sediment samples was analysed by dry combustion [3](OeNorm L1080, 1989) using a C/N Analyzer (Vario Max CN, Elementar). Soil organic carbon content was obtained by subtracting inorganic carbon content measured volumetrically by the Scheibler method with a Calcimeter (OeNorm L1084, 1989). Total phosphorus of the sediment was determined using a UV/VIS spectral photometer (DU-640 Beckmann).</p> <p>Pesticides were extracted from water by solid phase extraction and from sediments using distilled water or organic solvent [6]. After shaking for several hours and centrifugation, the sample passed through a solid phase extraction. After evaporation of the extract the pesticide residues were redissolved in another solvent and analysed with high performance liquid chromatography (HPLC).</p>
Fig. 9. Scatter plot demonstrating a in Saproxylic beetle (Coleoptera) communities and forest management practices in coniferous stands in southwest Nova Scotia, Canada
Fig. 9. Scatter plot demonstrating a non-significant positive correlation between beetle species richness and CWD volume. Included are the regression equation and the R2 value.
Supplementary material 1 from: Verarou V, Stavrakaki M, Daskalakis I, Bouza D, Biniari K (2020) Effect of the plot variability on the qualitative and quantitative characteristics of the berry's skins and seeds of grape cultivar Agiorgitiko (Vitis vinifera L.). Viticulture Data Journal 2: e46873. https://doi.org/10.3897/vdj.2.e46873
Agiorgitiko quality characteristics measurements
ScienceDex guides
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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.