Find research datasets worth reusing
Search datasets from major research repositories and use ShareScore to quickly assess how well each record supports discovery, access, and reuse.
47
datasets available to search
ShareScore release 0.9.0
Dataset results
47 results for “forest gaps”
Gap Partitioning Among Maples at Harvard Forest 1986-1989
We measured shoot architecture, photosynthesis, survival and growth by seedlings of three shade-tolerant species of maple (Acer pensylvanicum, A. rubrum, A. saccharum) in an experimental test of the gap partitioning hypothesis. Trees were felled to create a total of six cleared, elliptical canopy gaps of two sizes (8m x 12m, 75m2; 16m x 24m, 300m2). Naturally-established, undamaged, unbranched seedlings (15-30 cm tall, 10-20+ years old) of the three study species (2160 total, 720 per species) were transplanted into five plot locations (center and NW, NE, SW, and SE gap edges) within all six gaps and matching understory sites one year before gap creation. All plots were weeded regularly and spaded annually along the edges to remove above and below-ground competition. Measurements of microclimates and non-competitive seedling responses were made over one year before and two years following gap release. Architectural variation increased greatly over the two-year period. Striped maple (A. pensylvanicum) and red maple (A. rubrum) increased branch numbers, leaf numbers, and total leaf areas in gaps, especially large gaps, while sugar maple (A. saccharum) showed much smaller changes. Red maple tended to increase the number of leaves while leaf size decreased; striped maple increased leaf number but held leaf size constant. Diurnal patterns of photosynthesis differed within and between gap and understory sites. Red maple showed higher photosynthetic rates per unit leaf area than striped and sugar maple in all site/plot combinations except the large gap south plots, where striped maple exceeded red maple. Estimated diurnal shoot-level assimilation differentiated species more than unit area assimilation rates, and also altered the rank order of performance, with striped maple above red maple above sugar maple in all microsites except the large gap north. Population-level assimilation versus irradiance response curves exhibited a similar pattern, with red maple dominating unit
Data from paper: "Large-scale variations in the dynamics of Amazon forest canopy gaps from airborne lidar data and opportunities for tree mortality estimates"
<p>Data from the paper:</p> <p>Dalagnol, R. <em>et al.</em> Large-scale variations in the dynamics of Amazon forest canopy gaps from airborne lidar data and opportunities for tree mortality estimates. <em>Sci Rep</em> <strong>11, </strong>1388 (2021). https://doi.org/10.1038/s41598-020-80809-w</p> <p>Link: https://www.nature.com/articles/s41598-020-80809-w</p> <p> </p> <p>This repository contains:</p> <p>1) Data frame with data from static and dynamic gaps used in Figure 2 (Dalagnol_2020_Data_Multitemporal_gaps.csv). Each row is the aggregated measurement at 5-km resolution. The site component referes to the five site studied with multitemporal data. Site order from 1 to 5 is DUC, TAP, FN1, BON and TAL.</p> <p>2) Data frame with data from static gaps and environmental factors used in Table 1, Figure 3, 4, 5 (Dalagnol_2020_Data_Singledate_gaps_Modeling.csv). Each row is the aggregated measurement of one site observed by airborne lidar data.</p> <p>3) Raster file at 5-km resolution with dynamic gap fraction estimates presented in Figure 5 (dynamic_gap_fraction_amazon.tif).</p> <p> </p> <p>If you need anything else, please contact the corresponding author: Ricardo Dalagnol (ricds@hotmail.com).</p>
Manual soil moisture measurements from ten artificial forest gaps at the Coweeta Hydrologic Laboratory, North Carolina, 2000-2018
Ten artificial forest gaps were created in March 2002 at Coweeta, following two years of pretreatment data collection. Experimental gaps were created by pulling canopy trees with a winch until they were down. Trees, saplings, and seedlings were censused and tracked as part of a demography study. Soil moisture data was collected during the growing season as an explanatory variable for tree survivorship and mortality.
Forest gap dynamics with repeat lidar in Berchtesgaden National Park - Data and analysis scripts
<p>This repository holds data and code for the paper: Krüger, K., Senf, C., Jucker, T., Pflugmacher, D., Seidl, R. (2024). Gap expansion is the dominant driver of canopy openings in a temperate mountain forest landscape. Journal of Ecology. <span><a href="http://doi.org/10.1111/1365-2745.14320">http://doi.org/10.1111/1365-2745.14320</a> </span></p> <p><strong>NOTE:</strong> This is a static repository, but the project might evolve. See the connected GitHub repository for latest updates!</p> <p>All data to reproduce the results are available, all other layers can be generated with the code provided in this repository. The Canopy Height Models underlying the analysis and respective processing scripts for the lidar data, are available from the corresponding author upon reasonable request. Gap layers derived from the Canopy Height Models are available in this repository.</p> <p>Empty folders are set up to follow the directory structure of the scripts. </p>
Sapling regeneration within canopy gaps in a temperate montane riparian forest.
<p>This is a dataset of sapling regeneration within canopy gaps in a temperate montane riparian forest.</p> <p>The followings are details of each file.</p> <p><strong>GapSeedlings_v1.0.0.csv</strong></p> <ul> <li><code>Plot</code> Integer. The ID of plots, some plots include more than one gap.</li> <li><code>Gap</code> Factor. The ID of gaps.</li> <li><code>Quadrat</code> Integer. The ID of quadrats within a gap.</li> <li><code>stemID</code> Character. The ID of stems.</li> <li><code>Sp.</code> Factor. The species names.</li> <li><code>Family</code> Factor. The family name of the species.</li> <li><code>Substrate</code> Factor. Established substrates. NA means that it was not recorded.</li> <li><code>Heightyyyy</code> Numeric. Vertical heights of trees (cm) in yyyy. The individuals with <code>CensusIn2020</code> = 0, their <code>Height2020</code> is NA because they had not been censused in 2020.</li> <li><code>Lengthyyyy</code> Numeric. Length of trees (cm) in yyyy. The individuals with <code>CensusIn2020</code> = 0, their <code>Length2020</code> is NA because they had not been censused in 2020.</li> <li><code>DBH1_yyyy</code>, <code>DBH2_yyyy</code> Numeric. Diameter at breast height (mm) in yyyy. DBH1 and DBH2 were measured to cross at right angles. The individuals with <code>CensusIn2020</code> = 0, their <code>DBH2020_1</code> and <code>DBH2020_2</code> are NA because they had not been censused in 2020.</li> <li><code>Cmtyyyy</code> Character. Comments in yyyy.</li> <li><code>CensusIn2020</code> Factor. 1 means that the plot was censused in 2020, 0 does not.<br> </li> </ul> <p><strong>Map_Gaps.pdf</strong><br> <code>p. 1</code>: The overall picture of the positional relations between each gap.<br> <code>pp. 2-19</code>: The details of gaps.</p> <p> </p> <p><strong>Metadata_GapSeedlings.txt</strong><br> Metadata of "<strong>GapSeedlings_v0.1.0.csv</strong>".<br> It is the same as this description.</p>
Data for linked disturbance in the temperate forest: earthworms, deer, and canopy gaps
<p>Despite the large body of theory concerning multiple disturbances, there have been relatively few attempts to test the theoretical assumptions of how and if disturbances interact. Of particular importance is whether disturbance events are linked, as this can influence the probability and intensity of ecological change. Disturbances are linked when one disturbance event increases or decreases the likelihood or extent of another. To this end, we used two long-term, multi-disturbance experiments in northern Wisconsin to determine whether earthworm invasion is linked to canopy gap creation and white-tailed deer browsing. These three disturbances are common and influential within North American temperate forests, making any interactions among them particularly important to understand. We expected both deer and canopy gaps to favor invasive earthworms, particularly species that live close to or on the soil surface. However, we found only partial support for our hypotheses, as both deer exclosures and canopy gaps decreased earthworms in each experiment. Further, earthworm density increased the most over time in areas far from the gap center and in areas with deer present. Deer exclosures primarily decreased <em>Aporrectodea</em> and <em>Lumbricus</em> species, while gaps decreased <em>Dendrobaena</em> and <em>Lumbricus</em> species. Our findings show that earthworm invasion is linked to deer presence and gap-creating disturbances, which provides new insight toward multiple disturbance theory, aboveground-belowground dynamics, and temperate forest management.</p>
Multiple disturbances, multiple legacies: Fire, canopy gaps and deer jointly change the forest seed bank
Open the record for dataset details and reuse information.
Data for linked disturbance in the temperate forest: earthworms, deer, and canopy gaps
Open the record for dataset details and reuse information.
Data from: Assessing the recovery gap in forest restoration within the Brazilian Atlantic Forest
Open the record for dataset details and reuse information.
Data from: Provenance variation in functional traits of European forest trees: Meta-analysis reveals effects of taxa and age despite critical research gaps
Open the record for dataset details and reuse information.
Dataset from paper: "Mind the Gap: Reconciling tropical forest carbon flux estimates from Earth Observation and National Reporting requires transparency"
<p>This repository contains the processed data used in the publication of Heinrich et al., 2023 (Mind the Gap: Reconciling tropical forest carbon flux estimates from Earth Observation and National Reporting requires transparency). Carbon Balance and Management: https://cbmjournal.biomedcentral.com/articles/10.1186/s13021-023-00240-2 </p><p>When using this data, full reference to the raw data publications and the publication Heinrich et al., 2023 must be made.</p><p>The raw datasets used in this study are all available from their original sources.</p><p> </p>
Forest gaps around wind turbines attract bat species with high collision risk
<p><span>Globally, renewable energy is highly demanded, leading to a recent increase in the number of wind turbines at forested sites. For the deployment of turbines, forest areas must be cleared, which results in significant habitat changes. To assess the ecological consequences of these changes for forest-associated bats, we quantified the activity of three bat foraging guilds at turbine clearings, adjacent forest edges, and nearby forest canopies. Specifically, open-space and edge-space foraging bats were more active at turbine clearings and forest edges than at forest canopies. Narrow-space foragers were also more often recorded at turbine clearings than at forest canopies. An increased activity of open- and edge-space foragers at turbine clearings may increase the risk for casualties. </span><span>Therefore, if turbines need to be placed in forests, strict curtailment schemes should be practiced to mitigate collision risk for these bats. This may impair the efficacy of wind energy production at forested sites.</span></p>
[SUPPLEMENTARY FILES] DIVERSITY PATTERNS AND KNOWLEDGE GAPS OF ATLANTIC FOREST EPIPHYLLOUS BRYOPHYTES: A HIGHLY NEGLECTED GROUP
<p>Epiphyllous bryophytes are a group of plants with complex adaptations to colonize the leaves of vascular plants and are considered one of the most specialized and sensitive plants groups to environmental changes. Despite their specificity and ecological importance, these plants represent a largely neglected group in scientific research and ecological data. This limited information directly affects the understanding of diversity patterns and compromises the conservation of this group in fragmented ecossystems, such as the Atlantic Forest. </p><p> </p><p> </p>
Weak effects of birds, bats and ants on their arthropod prey on pioneering tropical forest gap vegetation
<p>The relative roles of plants competing for resources versus top-down control of vegetation by herbivores, in turn impacted by predators, during early stages of tropical forest succession remain poorly understood. Here we examine the impact of insectivorous birds, bats and ants exclusion on arthropods communities on replicated 5x5 m of pioneering early successional vegetation plots in lowland tropical forest gaps in Papua New Guinea. In plots from which focal taxa of predators were excluded we observed increased biomass of herbivorous and predatory arthropods, and increased density, and decreased diversity of herbivorous insects. However, changes in the biomass of plants, herbivores and arthropod predators were positively correlated or uncorrelated between these three trophic levels and also between individual arthropod orders. Arthropod abundance and biomass correlated strongly with the plant biomass irrespective of the arthropods' trophic position – a signal of bottom-up control. Patterns in herbivore specialization confirm lack of a strong top-down control and were largely unaffected by the exclusion of insectivorous birds, bats and ants. No changes of plant-herbivore interaction networks were detected except for decrease in modularity of the exclosure plots. Our results suggest weak top-down control of herbivores, limited compensation between arthropod and vertebrate predators, and limited intra-guild predation by birds, bats and ants. Possible explanations are strong bottom-up control, a low activity of the higher order predators, especially birds, possibly also bats, in gaps, and continuous influx of herbivores from surrounding mature forest matrix.</p>
Snow pit dataset from "Comparison of snowpack structure in gaps and under the canopy in a humid boreal forest"
<p>This original dataset contains snow pit measurements collected at Montmorency Forest (47.29°N, 71.17°W) from 22 November, 2018 to 6 June, 2019. The study site is a balsam fir – whit birch stand on a 12° slope of north-east aspect. The dataset is described in the publication “<strong><em>Comparison of snowpack structure in gaps and under the canopy in a humid boreal forest</em></strong>” from Bouchard et al., 2022. In this dataset you can find:</p> <p> </p> <ul> <li>inside forest gaps: <ul> <li>26 snow height measurements (26 data points)</li> <li>26 snowpack stratigraphy (380 data points)</li> <li>26 snow temperature profiles (427 data points)</li> <li>26 snow density profiles (803 data points)</li> <li>2 snow specific surface area (SSA) profiles (97 data points)</li> </ul> </li> </ul> <p> </p> <ul> <li>under the canopy: <ul> <li>26 snow height measurements (26 data points)</li> <li>26 snowpack stratigraphy (227 data points)</li> <li>26 snow temperature profiles (325 data points)</li> <li>26 snow density profiles (623 data points)</li> <li>2 snow SSA profiles (89 data points)</li> </ul> </li> </ul> <p> </p> <p>For density measurements, the height value corresponds to the center of the 3-cm thick box cutter. For the SSA, the value is measured optically at the top of the sample. This value is representative of the top 1 cm of the snow sample, as this is the typical e-folding depth of 1310 nm radiation in snow. Grain type codes for the snowpack stratigraphy corresponds to the <em>International Classification for Seasonal Snow </em>(Fierz et al., 2009):</p> <p> </p> <ul> <li>PP: Precipitation particle</li> <li>DF: Decomposed and Fragmented precipitation particles</li> <li>RG: Rounded Grains</li> <li>FC: Faceted Crystals</li> <li>DH: Depth Hoar</li> <li>MFpc: Melt Forms – rounded polycrystals</li> <li>MFcl: Melt Forms – clustered rounded grains</li> <li>MFcr: Melt Forms – melt-freeze crusts</li> <li>IF: Ice Formations</li> </ul>
Range-wide habitat use of the Harpy Eagle indicates four major tropical forest gaps in the Key Biodiversity Area network
<p>Quantifying habitat use is important for understanding how animals meet their requirements for survival and provides information for conservation planning. Currently, assessments of range-wide habitat use that delimit species distributions are incomplete for many taxa. The Harpy Eagle (Harpia harpyja) is a raptor of conservation concern, widely distributed across Neotropical lowland forests, that currently faces threats from habitat loss and fragmentation. Here, we use penalized logistic regression to identify species-habitat associations and predict habitat suitability based on a new International Union for the Conservation of Nature range metric, termed Area of Habitat. From the species-habitat model, we performed a gap analysis to identify areas of high habitat suitability in regions with limited coverage in the Key Biodiversity Area (KBA) network. Range-wide habitat use indicated that Harpy Eagles prefer areas of 70-75% evergreen forest cover, low elevation, and high vegetation species richness. Conversely, Harpy Eagles avoid areas of >10% cultivated landcover and mosaic forest, and topographically complex areas. Our species-habitat model identified a large continuous area of potential habitat across the pan-Amazonia region, and a habitat corridor from the Chocó-Darién ecoregion of Colombia running north along the Caribbean coast of Central America. Little habitat was predicted across the Atlantic Forest biome, which is now severely degraded. The current KBA network covered 18% of medium to high Harpy Eagle habitat exceeding a target biodiversity area representation of 10%, based on species range size. Four major areas of high suitability habitat lacking coverage in the KBA network were identified in north and west Colombia, western Guyana, and north-west Brazil. We recommend these multiple gaps of habitat as new KBAs for strengthening the current KBA network. Modelled area of habitat estimates as described here are a useful tool for large-scale conservation planning and can be readily applied to many taxa.</p>
Data and Script used in "Effects of canopy gaps on microclimate, soil biological activity and their relationship in a European mixed floodplain forest"
<p>The R code and data provided in this repository allow to reproduce the data carpentry, analysis and visualization of “Effects of canopy gaps on microclimate, soil biological activity and their relationship in a European mixed floodplain forest” (https://doi.org/10.1016/j.scitotenv.2024.173572).</p> <p> </p> <p>Folder structure</p> <p> </p> <p>Data abstracts:</p> <p>Data_abstract_climate.pdf</p> <p>Data_abstract_soil_biotics.pdf</p> <p>Data_abstract_soil_abiotics_openness.pdf</p> <p> </p> <p>Data:</p> <p>Climate_data.xlsx</p> <p>Soil_biotics.xlsx</p> <p>Soil_abiotics_openness.xlsx</p> <p> </p> <p>R Scripts:</p> <p>00-preamble.R loads all required packages</p> <p>01-data-carpentry.R loads all datasets and prepares the analysis of all experimental periods.</p> <p>02-data-analyses-microclimate.R compares understorey air and soil microclimate between forest types and treatments, presents diurnal and seasonal variations and tests the relationship of under- and overstorey openness on microclimate.</p> <p>03-data-analyses-decomposition.R compares decomposition rates and feeding activity between forest types and treatments and models the dependencies of soil biological activity on microclimate and soil abiotic factors.</p> <p> </p> <p>Information of related software and package versions used in the script:<br>R version 4.3.2 (2023-10-31 ucrt)<br>Platform: x86_64-w64-mingw32/x64 (64-bit)<br>Running under: Windows 10 x64 (build 19045)<br>Matrix products: default</p> <p> </p> <p>Contact</p> <p>Please contact me at annalena.lenk@uni-leipzig.de if you have further questions.</p>
Data for: Characterizing individual tree-level snags using airborne lidar-derived forest canopy gaps within closed-canopy conifer forests
<p><span>1. Airborne lidar is often used to calculate forest metrics about trees but it may also provide a wealth of information about the space between trees. Forest canopy gaps are defined by the absence of vegetative structure and serve important roles for wildlife, such as facilitating animal movement. Forest canopy gaps also occur around snags, keystone structures that provide important substrates to wildlife species for breeding, roosting, and foraging.</span></p> <p><span>2. We wanted to test a method for quantifying canopy gaps around individual snags and live trees, with the working hypothesis that snags would have more gaps surrounding them overall than live trees. We evaluated canopy gaps around individual snags (n=270) and live trees (n=2186) and evaluated correlations between canopy structure and snag occurrence in dense conifer stands of the Idaho Panhandle National Forest, USA. We paired airborne lidar with ground reference data collected at fixed-radius plots (n=53) to evaluate local gap structure. The R package ForestGapR was used to quantify canopy gaps throughout the canopy to determine where the differences were greatest. A canopy space profile was created for each tree by mapping gaps (a) vertically every 2 m in height (2–50 m above ground), and (b) horizontally across small (16 m<sup>2</sup>), medium (36 m<sup>2</sup>), and large (64 m<sup>2</sup>) footprint sizes.</span></p> <p><span>3. Our results suggest this method is robust for quantifying canopy gaps around individual trees. The canopy space profiles were distinctly different for snags and live trees, with more canopy gaps within the area surrounding snags relative to live trees. The greatest differences occurred at mid-canopy heights (~20 m above ground) and at the smallest footprint size (16 m<sup>2</sup>).</span></p> <p><span>4. These results show potential to improve understanding of gap dynamics in closed-canopy conifer forests, and we suggest snag modeling could be improved by incorporating lidar-derived canopy gap analyses alongside existing methodologies.</span></p>
Tropical bat ectoparasitism in continuous versus fragmented forests: A gap analysis and preliminary meta-analysis
<p><span>Tropical regions are experiencing rapid rates of forest fragmentation, which can have several effects on wildlife, including altered parasite dynamics. Bats are a useful host group to consider these effects of fragmentation because they are abundant in the tropics, serve important ecological roles, and harbour many parasites. Nevertheless, research on the effects of fragmentation on bat ectoparasites is still limited. To help guide ongoing and future research efforts, this study had two objectives: (1) conduct a gap analysis to characterize the state of currently available research on fragmentation effects on bat ectoparasites, and (2) conduct a preliminary meta-analysis to identify current trends. We systematically highlighted several research gaps: studies comparing the effects of fragmented versus continuous forests on ectoparasites are limited and have primarily been conducted in the Neotropics, with a focus on bats in the superfamily Noctilionidea (especially frugivorous phyllostomids). Our preliminary meta-analysis suggested that ectoparasite prevalence (but not the mean or variance in intensity) was higher in fragments than in continuous forests. Moreover, prevalence increased with increasing roost duration, and mean intensity was higher for bats with higher wing aspect ratios. Intensity variance was affected by an interaction between forest type and wing aspect ratio, such that variance increased for bats with high wing aspect ratios in continuous forests but decreased in fragments. These results suggest that fragmentation can shape aspects of bat ectoparasitism and could have implications for the ecology, health, and conservation of bats in fragmented landscapes. However, existing research gaps could bias our current understanding of habitat change and bat health, and future research should thus investigate these effects in the Paleotropics and with other bat families. </span><span><br></span></p>
The effect of flight efficiency on gap‐crossing ability in Amazonian forest birds
<p>We used this dataset to examine the role of flight efficiency on gap-crossing ability in Amazonian forest birds. We used data from the Biological Dynamics of Forest Fragments Projects on recaptures of banded birds in an Amazonian forest bisected by a road. For a total of 45 species, we estimated flight efficiency using the hand-wing index (a proxy for the wing's aspect ratio) and used it as a predictor of the probability of road crossing in phylogenetic binomial regression models. We found that flight efficiency was a strong predictor of road-crossing probability: species with high hand-wing indices crossed the road more frequently than those with low hand-wing indices. In contrast, other characteristics such as body mass, diet, flocking behavior, and foraging stratum did not show significant associations with road crossing probability. Our results suggest that proxies of flight efficiency such as the hand-wing index can be powerful tools for predicting the vulnerability of bird species to forest fragmentation.</p>
ScienceDex guides
Understand access before you commit
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.