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Seedling Dynamics Demography Data, from the Yasuní Forest Dynamics Plot, Ecuador, 2002-2019
Seedling demography data are provided in annual censuses of 600 seedling plots in an equatorial, ever-wet rainforest in eastern Ecuador, in Yasuní National Park. This long-term study uses standardized methodology from the Smithsonian ForestGEO network of plots, and in particular coordination with similar studies in Luquillo, Puerto Rico, and Barro Colorado Island, Panama. We address hypotheses about the maintenance of forest diversity and long-term variation, and link our data to companion studies of flowering and fruiting phenology and sapling and adult dynamics in the Yasuní Forest Dynamics 50-ha Plot. The project is ongoing, and additional data will be added as they are processed.
Cover and rank percentile of initially dominant species in global Nutrient Network plots from 2007-2023
This dataset uses data from the NutNet dataset to examine the factors controlling how initially dominant species decay in dominance through time. We use data from all sites that had NPK and/or fencing treatments and pre-treatment when data was downloaded in 2021; 90 sites in all were used. Perturbations were NPK treatments (nitrogen, phosphorus, potassium and micronutrients) and fencing (vertebrate herbivore exclusion). Dominance was quantified as the rank percentile of a species in each year. Rank percentiles range from 1 (most abundant) to 0 (absent), with decimal values indicating relative rank - e.g. a species with rank 0.6 is more abundant than 60% of co-occurring species. Thus, only species with a rank of 1 in year o (pre-treatment) are included in this dataset. Covariates for examining rates of dominance decay include plot level initial and yearly cover values, both absolute and relativized; species provenance, lifespan, and functional group; site level climate variables and site richness.
Murchison Falls National Park Uganda Woody Plant and Palm Inventory Plots 2022
Murchison Falls National Park (MFNP) is a protected area in northern Uganda along the border with the Democratic Republic of the Congo and straddling the Victoria Nile. This project was designed to assess the accuracy of woody cover maps developed in (Nagelkirk & Dahlin, 2020). We determined an area of interest and then identified 40 plots that we expected would range from zero to nearly 100% woody cover. Due to restrictions related to the COVID-19 pandemic, we could only spend six days in the field, and so our sampling time was limited. We were able to collect 36 30x30 m square plots (four plots were not measured due to safety or accessibility issues). In each, we collected data describing woody plant species, when possible, diameter at breast height (DBH) or basal diameter depending on the size of the plant, and two crown diameter measurements: one at the widest width and another approximately perpendicular to the first. Together these measurements allow us to estimate woody plant canopy cover and basal area, along with species diversity both by count and by basal area. With additional information, aboveground biomass, functional diversity, and phylogenetic diversity could also be estimated in the future. Although this project was limited in scope, since eastern African savannas are underrepresented in global databases of woody cover and aboveground biomass, this data set will contribute to our overall understanding of vegetation patterns and processes.
Tree species identity, diameter and qualitative canopy health measurements (full, partial or dead) from 2005 to 2023 on 12 experimental oak loss plots in Black Rock Forest, NY.
Black Rock Forest established a series of 12, 0.56 ha plots in 2005 to assess impacts of the loss of tree in the genus Quercus on the forest ecosystem (entitled the Future of Oak Forests experiment). Three trunk girdling treatments, with control plots were instituted in 2008. Each plot also contained an ~10m by ~15m deer exclosure to assess the impact of herbivory post-disturbance. Trees were measured twice per year from 2008 to 2013 (except 2009 when trees were measured once) and once per year from 2014 to 2023. Data include tree species identity, diameter at breast height (DBH), canopy health (a qualitative assessment of approximate cover as full, partial or dead), presence/absence of sprouts, and location within the plot. All live trees equal to or larger than 2.5 cm DBH are included in the dataset.
Prairie manure application impacts on floral abundance, plant growth, plant community structure, insect and spider community abundance and activity density in experimental plots in Ames, Iowa (2021-2022).
This dataset contains results from a two-year field experiment at Iowa State University’s Horticulture Research Station to evaluate the effects of dairy manure application on native prairie plant and insect communities. We established replicated 4 m² plots across two field types, an established tallgrass prairie and a tilled crop field, and applied four manure treatments (weekly, biweekly, once per season, and control) using liquid slurry from a local dairy farm. Plant responses were monitored through weekly measurements of mortality, ground cover, floral abundance, plant height, and visual obstruction. Insect communities were sampled biweekly using vacuum suction for foliage and flower visitors and pitfall traps for ground-dwelling arthropods. Collected insects were identified to order, with Hymenoptera and Carabidae further resolved to family or genus.
Stem maps in 4 1-hectare plots in the FASET and DIRT experiments at the University of Michigan Biological Station, Pellston, MI (2006-07)
Our primary objective is to provide an improved understanding of the biological and climatic controls over carbon (C) and energy cycles during and after a successional shift from a mature aspen to a young mixed confer/deciduous forest ecosystem that will be widely distributed across the upper Great Lakes region in coming decades. In Spring 2008, we implemented the Forest Accelerated Succession ExperimenT (FASET) by stem girdling all aspen and birch (gt;6,700 trees, ~35% canopy LAI) within a 39 ha area. A suite of ongoing ecological and meteorological measurements conducted in treatment and control stands before (2007) and after (2008 onwards) the succession treatment are used to quantify effects of climate, species composition, and canopy structure on the forest C cycle. We have established paired treatment and control plots, and surveyed a 25 m grid system within our treatment plots, begun operation of a eddy-covariance tower within the 33 ha treatment plot, conducted intercomparisons of carbon exchange and N allocation between treatment and control plots, remote sensed forest canopy structure, and begun or continued collaborative projects with investigators utilizing this project as a platform for further studies. Our overarching hypothesis is that forest NEP across much of the upper Great Lakes region will increase following transition from aspen dominated ecosystems to those of later-successional species with biologically and structurally more complex canopies. Specific hypotheses: a) Tree mortality will prompt a short-term reduction in NEP. A rapid recovery and stabilization of NEP above that of the control forest will be linked to the magnitude of N leaching losses and the pattern of redistribution of available N. Stands with more species and structurally diverse canopies and greater allocation of N to photosynthetic tissues will have higher NEP. b) Successional change will increase spatial variation in microclimate and nutrient distribution, both of which con
Native seedlings recorded on field plots with and without invasive buffel grass during the monsoon season of 2013 near Tucson, Arizona, USA
Although buffel grass (Cenchrus ciliaris) invasions on several continents have significant ecological impacts, little information is available on its effect on seedling emergence and establishment of native vegetation. In highly impacted areas of the Sonoran Desert of North America, perennial plants are particularly vulnerable during their seedling stage. We studied the impact of buffel grass on the emergence and early survival of native seedlings in a field experiment. We marked out 2m x 2m field plots at three locations near Tucson, Arizona, with and without buffel grass. We removed the buffel grass from half of those with the invasion, and censused and marked native perennial seedlings that emerged in each plot for ten weeks during July-September (monsoon season) of 2013. Emergence and survival of native perennials in the field were both significantly higher where mature buffel grass was removed or had never invaded than where it remained. Our results highlight the need for more manipulative studies of density to improve mechanistic understanding of population dynamics, and to forecast how populations and communities will respond in the long term to perturbations such as invasion.
Species persistence and mean rank abundance in global Nutrient Network plots from 2007-2019
This dataset uses data from the NutNet dataset to examine how temporal and spatial rarity are related, how temporal and spatial rarity predict species loss in ambient and experimentally perturbed plots. We use data from all sites that had NPK and/or fencing treatments with a minimum of five years of cover data when data was downloaded on August 2, 2019; 49 sites in all were used. Perturbations were NPK treatments (nitrogen, phosphorus, potassium and micronutrients) and fencing (vertebrate herbivore exclusion). Temporal rarity was assessed as the percentage of years a species was found in a plot (calculated in R script) and spatial rarity was assessed as the mean rank percentile of a species across all years in a plot (included in data table). We found that persistence (i.e. temporal rarity) was a better predictor than local abundance (i.e. spatial rarity) of whether a species would be absent in a neighboring plot, despite the rarity axes being correlated. Additionally, perturbations reduced persistence most strongly in highly persistent species and low abundance species, further suggesting these are unique dimensions of rarity.
Extracellular enzyme activities in plots dominated by trees that associate with arbuscular mycorrhizal or ectomycorrhizal fungi in the nitrogen fertilized and reference watershed at the Bear Brook Watershed in Maine, USA during the final year of N fertilization (2016) and during the year after N fertilization ceased (2017).
Our objective was to detect possible differences in N fertilization responses of extracellular enzymes in plots dominated by trees that associate with arbuscular mycorrhizal fungi (AM) or ectomycorrhizal fungi (ECM). To do this, we established a plot network of 6 AM and 6 ECM dominated (>65% diameter at breast height) 10 x 10 m plots in the lower elevation hardwood zone of both the reference and N fertilized watersheds (N=24 plots) at Bear Brook Watershed, in Maine USA. We assayed the potential activity of hydrolytic enzymes that release N (N-acetylglucosaminidase; NAG), phosphorus (acid phosphatase; AP), and simple carbon (ß-glucosidase; BG). The activities of these enzymes were measured separately in bulk mineral, rhizosphere, and organic horizon soils in the final year of N fertilization at Bear Brook in 2016 and during the year after N fertilization ceased in 2017.
Bird Abundances at the Hubbard Brook Experimental Forest (1969-present) and on three replicate plots (1986-2000) in the White Mountain National Forest (Reformatted to a Darwin Core Archive)
This data package is formatted as a Darwin Core Archive (DwC-A, event core). For more information on Darwin Core see https://www.tdwg.org/standards/dwc/. This Level 2 data package was derived from the Level 1 data package found here: https://pasta.lternet.edu/package/metadata/eml/edi/355/2, which was derived from the Level 0 data package found here: https://pasta.lternet.edu/package/metadata/eml/knb-lter-hbr/81/7. The abstract below was extracted from the Level 0 data package and is included for context: Bird abundances have been determined from timed censuses, territory maps and nest locations at the Hubbard Brook Experimental Forest from 1969 to the present. This data set includes counts of the number of adult birds (males and females) per 10 ha at HBEF (1969 - present) and on three additional plots within the White Mountain National Forest (1986 - 2000). 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.
Coarse woody debris volume and mass from line transect inventory from reference stands and inventory plots of the Pacific Northwest, 1997 to 2005
These data can be used to provide an inventory of the volume of coarse woody debris stored in forests.
Dimensions, cover, volumes, mass and nutrient stores of Coarse Woody Debris (bark and wood from logs, snags, and stumps) from forests plots in the western United States and Mexico, 1977 to 2005
These data provide an inventory of the mass and nutrients stored within various forest types by coarse woody debris (CWD). CWD inventoried includes standing dead trees (greater than 10 cm diameter at breast height) and dead and downed wood (greater than 10 cm large end and >1 long). The majority of measurements are from permanent sample plots associated with the Andrews LTER permanent sample plots network. This includes clusters of plots at and near the H. J. Andrews Experimental Forest (OR), Cascade Head Experimental Forest (OR), Mount Rainier National Park (WA), Olympic National Park (WA), and Fraser Experimental Forest (CO). There are also data from plots in the Yucatan in Mexico; however, the live tree data for these plots is not available. The species of CWD inventoried are primarily those found in the Pacific Northwest; the dominants being Douglas-fir, western hemlock, mountain hemlock, western redcedar, Pacific silver fir, noblel fir, lodgepole pine, ponderosa pine, sitka spruce, and Englemann spruce. The majority of measurements were made in the 1975 to 1995 period; however plots are periodically remeasured and the intent to eventually remeasure all the plots except those in Mexico. In each plot measurements of log and snag dimensions (length and diameters), as well as decay class and species were recorded in the stands (td01201 file). These dimension data are combined with data on density and nutrient content for each species and decay class (td01202 file) and plot area and slope (td01203 file) to calculate CWD volume, cover, biomass and nutrient storage (td01204 file). When data on density and nutrient concentrations is not known, a list of substitutions is used (td01206). The adjust tree diameters if measurements are taken at the base of the dead tree, taper regressions are used (td01205).
Mass of forest floor litter from cores in reference stands and inventory plots in the Pacific Northwest, 1992 to 2003
These data provide an inventory of the mass of forest floor organic matter stored within various forest types. This data is used to determine total organic matter, carbon, and nutrient stores in forests.
Ecohydrology and Ecophysiology intensively measured plots in Watershed 1, Andrews Experimental Forest, 2005-2011
This database was developed to store data for ecophysiology and ecohydrology studies in Watershed 01 (WS01) at the H.J. Andrews Experimental Forest. The data include a combination of continuous sensor measurements (e.g. for soil moisture, soil temperature, air temperature, and relative humidity data) and repeated sampling (e.g., litterfall, dissolved organic carbon (DOC), rock content of soils). WS01 was clear cut between 1962 and 1966, burned, and replanted to varying degrees of success with Pseudotsuga menziesii, and a set of long-term plots that lie on transects normal to the main stream system was installed in 1962 to monitor plant succession and biomass development (TP073). The plots for these ecohydrological studies were co-located with a subset of TP073 plots to facilitate cross-referencing and cross-analysis of information. The boundaries of the TW006 plots are all at least 5 meters outside of the boundaries of the plant succession and biomass plots so as not to interfere with the long term integrity of those plots. An initial set of eight plots were installed for TW006 in 2004. All of these plots were located near transect #1 of the TP073 plots; i.e. the transect closest to the mouth of the watershed (see http://oregonstate.edu/feel/mapsVideos/transect_diagram.jpg, http://oregonstate.edu/feel/mapsVideos/airshed_base.pdf, and for a “virtual tour” of the watershed that illustrates the plot locations see http://oregonstate.edu/feel/mapsVideos/WS01_3d_spinningWheel2.AVI.MOV). Each of the eight plots (also known as “telemetry plots”) is associated with a bank of solar collectors and batteries that provide power for a network of sensors, and data is transmitted by telemetry via a relay station to the Andrews Headquarters. An additional set of 16 plots was established in 2009 to extend data collection through a broader area of the watershed and to represent the full range of vegetation cover classes. The locations of these was based on a stratified random sampling
Annual tree productivity in permanent plots within the H.J. Andrews Experimental Forest
Tree cores were taken from trees in permanent plots within the H.J. Andrews Experimental Forest to estimate annual bole biomass increment. The purpose of measuring this was to determine how many trees need to be sampled within a stand in order to determine NPP accurately. Increment cores were extracted from all trees greater than 5 cm diameter at breast height in each site and measured for annual growth increment (cm). This data was used to explore a method for using increment cores in combination with long-term permanent plots and remeasurement records to estimate annual bole biomass increment.
Above ground plant and below ground stem biomass in the Arctic LTER dry heath tundra experimental plots, 2006, Toolik Lake, Alaska
Above ground plant and below ground stem biomass, percent nitrogen, and percent carbon were measured in the Arctic LTER dry heath tundra experimental plots. Treatments included control, and nitrogen and phosphorus amended plots for 10 years, and exclosure plots with and without added nitrogen and phosphorus.
Plot descriptions and location data from datalogger, 1m x 1m chamber flux and point frame plots sampled near Toolik Field Station in Alaska the summer of 2012.
"2012_GS_PFandCH_GPS" contains GPS locations of all datalogger, 1m x 1m chamber flux and point frame plots sampled IVO Toolik Field Station in Alaska during the summer of 2012. The sorting variables (YEAR, DATE, SITE, GROUP, PLOT, TREAT, PLOT SIZE) are identical to those in other files with data collected that season. The main purpose of this file is for reference and as an aid in interpretation of data analyses and among-site comparisons.
Photosynthetically Active Radiation data taken with the Delta-T SunScan wand every 15 cm of 1m x 1m chamber flux and point frame plots as well as four remotely monitored canopies at the Toolik Field Station in AK, Summer 2012.
Within-canopy PAR was measured with a Delta-T SunScan wand every 15 cm from the ground to above the canopy under both direct and diffuse light. The data includes all outputs from the SunScan wand: time of measurement, spread of PAR sensors, total irradiance, total diffuse light, and individual outputs of 64-PAR sensors on the SunScan wand. These measurements were taken for 1m x 1m chamber flux (n=14) and point frame (n=19) plots as well as sites four montitored remotely by PAR sensors located above, within, and below shrub canopies. All plots were dominated either by tall Salix pulchra and Betula nana species and were located near the LTER shrub plots at Toolik Field Station , AK in the summer of 2012.
Harvest data including the shoot leaf area index, position in the canopy, and shoot and plant tissue area, count and mass for each shoot harvested at three levels in the canopy from 19 1m x 1m plots near LTER Shrub plots, Toolik Field Station, AK 2012.
Leaf and plant tissue area and mass from shoots harvested from 19 1m x 1m point frame plots near Toolik Field Station, AK during the summer of 2012. Six shoots were harvested from each plot, two from each canopy layer: upper, middle, and low. Each shoot came from a different plant, and the species selected was based on the species dominant in that canopy layer. The leaf area and mass were used to correct A/Ci and light response curves taken on each shoot [data published separately]. At the time of collection, the location relative to the point frame, height, and leaf area index (LAI) of each shoot was measured; those data are included here.
A/Ci curve parameters measured from shoots harvested at three levels in the canopy from 19 1m x 1m plots dominated by S. pulchra and B. nana shrubs near LTER Shrub plots at Toolik Field Station, AK the summer of 2012.
A/Ci curve parameters and modeled carboxylation, electron transport, and triose-phosphate utilization efficiency rates from shoots clipped from low, mid, and the top of tall, shrub canopies dominated either by Salix pulchra or Betula nana species. Six shoots were harvested from each 1m x 1m plot, two from each level in the canopy. These plots were located near the LTER shrub plots at the Toolik Field Staion, AK for point frame measurements, and all measurements took place the summer of 2012. The species harvested were chosen based on the species present in each plot, thus the species from each segment of the canopy may not be the same. Additional information about each shoot can be found in the "PF_ShootLightcurve_Data" and "PF_ShootHarvest_Data" pages, regarding the light response curves, area, mass, leaf area index, and leaf nitrogen content of each shoot. The file "PF_PercentCover" contains the species cover data for each plot.
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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.