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.
123
datasets available to search
ShareScore release 0.7.1
Dataset results
123 results for “Landscape ecology”
Social-Ecological Dynamics of Recreational Fishery Landscapes: Recreational angler catch and satisfaction in the Midwest, 2018 to 2024
The goal of this dataset is to understand angler information gathering and sharing, technology use, expectation-setting, site choice, and the factors influencing angler satisfaction in rural and urban environments. These data were collected through on-site creel surveys and instantaneous counts of fishing effort and associated angler vehicles. Traditional creel surveys are completed only at the end of an angler's fishing trip. These dual-intercept creel survey data are novel because anglers were intercepted both before and after their fishing trip. This survey design allowed us to collect unbiased estimates of anglers' expected catch. These data can be used to understand the role of angler expectations in angler satisfaction and behavior. Data collection were conducted in two counties in Wisconsin, USA. Vilas County is a primarily rural, forested, and glaciated region with many relatively small lakes. Dane County has a larger urban center (Madison, WI) that is surrounded by agricultural areas. Most of the Dane County lakes surveyed were part of the Yahara chain of lakes: Lakes Mendota, Monona, Wingra, Waubesa, and Kegonsa. Dane county has fewer, larger lakes with greater connectivity to each other. Vilas County was sampled in the summer of 2018, the summer of 2019, and the summer and winter of 2022. Dane County was sampled in the winter and summer of 2022.
The location of solar farms within England's ecological landscape: implications for biodiversity conservation
<p>Data associated to the article entitled 'The location of solar farms within England's ecological landscape: implications for biodiversity conservation'. </p> <p> </p>
Landscape and habitat data for Tetramorium ant species from Cordonnier et al. 2019 Landscape Ecology
<p>This README accompanies the file "data_Cordonnier_LandEcol.txt"</p> <p>Associated publication : </p> <p>Multi-scale impacts of urbanization on species distribution within the genus <br> <em>Tetramorium </em>- Landscape Ecology<br> M. Cordonnier, C. Gibert, A. Bellec, B. Kaufmann, G. Escarguel</p> <p> <br> ********************************** CONTENTS ***********************************<br> The data are in table form with TABs as variables field delimiters so they can <br> be readily imported in any statistical package or spreadsheet program. Please, <br> contact me if you need the file formatted otherwise. </p> <p>This file includes a description of the variables.</p> <p>The individuals described in this file were identified to species and analyzed for climate variables in</p> <p>Cordonnier, M., Bellec, A., Dumet, A., Escarguel, G., & Kaufmann, B. (2019). <br> Range limits in sympatric cryptic species: a case study in Tetramorium pavement <br> ants (Hymenoptera: Formicidae) across a biogeographical boundary. Insect <br> Conservation and Diversity, 12(2), 109-120.<br> </p> <p>*******************************************************************************<br> Variable names and descriptions</p> <p>ID Sample name<br> X Longitude in WGS 84 (World Geodetic System 1984) decimal degrees rounded to 5 decimal places<br> Y Latitude in WGS 84 (World Geodetic System 1984) decimal degrees rounded to 5 decimal places<br> SZ Name of the sampling area sensu Cordonnier et al. (2019)<br> SP Species identification based on mtDNA COI gene<br> PI10 Percentage of impervious surfaces within a 10 m buffer around the sample<br> PI30 Percentage of impervious surfaces within a 30 m buffer around the sample<br> PI500 Percentage of impervious surfaces within a 500 m buffer around the sample<br> MH1 Presence / absence of full soil with vegetation <br> MH2 Presence / absence of pavement <br> MH3 Presence / absence of unstabilized material (sand. gravel. compacted soil <br> with pebbles or small rocks) <br> MH4 Presence / absence of wood or root <br> MH5 Presence / absence of litter (woodchips or dead leaves) <br> MH6 Presence / absence of curb <br> MH7 Presence / absence of building <br> MH8 Presence / absence of feature (p.ex. lamp post. elec. pole. large rock) <br> MH9 Presence / absence of ditch or strong slope</p> <p>********************************* CONTACT **********************************<br> Please contact me at:</p> <p>Marion Cordonnier<br> e-mail: marion.cordonnier@hotmail.com</p> <p>*******************************************************************************<br> </p>
Data from publication: Castillioni, K., & Isbell, F. (2023). Early positive spatial selection effects of beta-diversity on ecosystem functioning. Landscape Ecology, 1-15.
Data from publication: Castillioni, K., & Isbell, F. (2023). Early positive spatial selection effects of beta-diversity on ecosystem functioning. Landscape Ecology, 1-15. Spatial beta-diversity may increase landscape productivity if there are positive spatial selection effects. Alternatively, dominant species in mixtures might not be the most productive species in monoculture leading to negative or neutral spatial selection effects. However, these hypotheses remain untested experimentally. Seedling survival can determine species establishment, influencing productivity later. To address this knowledge gap, we experimentally tested whether transplanted seedlings of dominant species optimally sort among habitat types (grassland dominated by Andropogon gerardii, savanna by Quercus macrocarpa, deciduous forest by Acer rubrum, coniferous forest by Pinus strobus, bog by Larix laricina), creating positive effects of landscape diversity on seedling survival and net biodiversity effects at Cedar Creek Ecosystem Science Reserve (CCESR) in Minnesota, USA. The study is named BetaDIV and consists of 100 plots (20 plots per habitat × 5 habitats). Each of the five habitats includes two true replicate monocultures for each of the five species and two true replicates for each of the five possible mixture compositions of four species (leaving each one out in turn to eventually explore the effect of species identity). Each plot is 1.5 by 1.5 m, with 12 seedlings planted 0.5 m apart in a 4 × 4 square grid, except in the plot corners. In the early June 2022, we tagged and planted all seedlings (i.e., bareroot seedlings for trees and plugs for the grass A. gerardii). Two weeks after the initial transplanting, we started tracking seedling survival (presented here) to investigate how seedlings responded to local habitat conditions. We conducted a seedling census for each of the 1200 tagged seedlings (12 seedlings per plot×100 plots), in early September 2022, which was two months at the end
Data from: Gene flow, ancient polymorphism, and ecological adaptation shape the genomic landscape of divergence among Darwin's finches
Genomic comparisons of closely related species have identified "islands" of locally elevated sequence divergence. Genomic islands may contain functional variants involved in local adaptation or reproductive isolation and may therefore play an important role in the speciation process. However, genomic islands can also arise through evolutionary processes unrelated to speciation, and examination of their properties can illuminate how new species evolve. Here, we performed scans for regions of high relative divergence (FST) in 12 species pairs of Darwin's finches at different genetic distances. In each pair, we identify genomic islands that are, on average, elevated in both relative divergence (FST) and absolute divergence (dXY). This signal indicates that haplotypes within these genomic regions became isolated from each other earlier than the rest of the genome. Interestingly, similar numbers of genomic islands of elevated dXY are observed in sympatric and allopatric species pairs, suggesting that recent gene flow is not a major factor in their formation. We find that two of the most pronounced genomic islands contain the ALX1 and HMGA2 loci, which are associated with variation in beak shape and size, respectively, suggesting that they are involved in ecological adaptation. A subset of genomic island regions, including these loci, appears to represent anciently diverged haplotypes that evolved early during the radiation of Darwin's finches. Comparative genomics data indicate that these loci, and genomic islands in general, have exceptionally low recombination rates, which may play a role in their establishment.
Data from: Leveraging satellite observations to reveal ecological drivers of pest densities across landscapes
<p>Landscape ecologists have long suggested that pest abundances increase in simplified, monoculture landscapes. However, tests of this theory often fail to predict pest population sizes in real-world agricultural fields. These failures may arise not only from variations in pest ecology but also from the widespread use of categorical land-use maps that do not adequately characterize habitat availability for pests. We used 1163 field-year observations of <em>Lygus hesperus</em> (Western Tarnished Plant Bug) densities in California cotton fields to determine whether integrating remotely sensed metrics of vegetation productivity and phenology into pest models could improve pest abundance analysis and prediction. Because <em>L. hesperus</em> often overwinters in non-crop vegetation, we predicted that pest abundances would peak on farms surrounded by more non-crop vegetation, especially when the non-crop vegetation is initially productive but then dries down early in the year, causing the pest to disperse into cotton fields. We found that the effect of non-crop habitat on pest densities varied across latitudes, with a positive relationship in the north and a negative one in the south. Aligning with our hypotheses, models predicted that <em>L. hesperus</em> densities were 35 times higher on farms surrounded by high versus low productivity non-crop vegetation (EVI area 350 vs. 50) and 2.8 times higher when dormancy occurred earlier versus later in the year (May 15 vs. June 30). Despite these strong and significant effects, we found that integrating these remote-sensing variables into land-use models only marginally improved pest density predictions in cotton compared to models with categorical land cover metrics alone. Together, our work suggests that the remote sensing variables analyzed here can advance our understanding of pest ecology, but not yet substantively increase the accuracy of pest abundance predictions.</p>
Fig. 1 in Species Diversity And Ecology Of Amphibians And Reptiles In Urbanized Landscapes Of The City Of Minsk
Fig. 1 Location of the largest habitats and stable populations of amphibians and reptiles in the urbanized areas of the Minsk city.
The location and vegetation physiognomy of ecological infrastructures determine bat activity in Mediterranean floodplain landscapes
<p>Ecological infrastructures (EI), defined as natural or semi-natural structural elements, are important to support biodiversity and could play a crucial role in counteracting the well-known impacts of intensive agriculture. Yet, the importance of EI remains largely unexplored in Mediterranean agricultural landscapes and for species providing essential ecosystem services such as bats. Here, we evaluated the role of different EI types – in terms of location (riparian vs terrestrial) and vegetation physiognomy (woody vs non-woody) – in shaping bat guild activity in crop fields located in the floodplains of the Iberian Peninsula. We recorded 60,732 bat sequences in 96 crop fields and characterized 106 EI patches via an adaptation of the Biodiversity Potential Index (BPI). We found that the activity of mid-range echolocators (MRE) and long-range echolocators (LRE) was twofold higher when the nearest EI patch was riparian (i.e., contiguous to a watercourse) than when it was terrestrial. When assessing changes in bat activity in crop fields in relation to a gradient distance from EI types, our results revealed both distinct and similar effects of the location and vegetation physiognomy of the EI on bat guilds. For instance, while only the LRE guild positively responded to the proximity of woody EI, both MRE and LRE showed a marked increase of activity when increasing distances to non-woody EI, thus suggesting low bat activity levels near these features. Our habitat quality assessment also revealed that woody EI and riparian EI had higher biodiversity potential and related habitat quality, thus contributing to our understanding of bat responses to EI type in crop fields. As riparian areas are rarely targeted in biodiversity-friendly measures in farmland, we strongly recommend including riparian EI (especially the woody type) in conservation planning as they are crucial for both biodiversity conservation and ecosystem functioning.</p>
Fig. 2 in Wildlife disease ecology in changing landscapes: Mesopredator release and toxoplasmosis
Fig. 2. Map of Tasmania showing blood collection sites for the three native carnivore species and the introduced feral cat. Places identified are those referred to in the text.
Fig. 1 in Wildlife disease ecology in changing landscapes: Mesopredator release and toxoplasmosis
Fig. 1. Map of Tasmania showing average cat densities from individual spotlighting districts over 8 years and blood collection sites for the Tasmanian pademelon. Positive T. gondii sites are those where at least one sample tested positive to IgG antibodies. Negative sites are those where no evidence of exposure to T. gondii was found in any sample.
Fig. 3 in Wildlife disease ecology in changing landscapes: Mesopredator release and toxoplasmosis
Fig. 3. Prevalence of IgG antibodies of Tasmanian mammals to T. gondii by trophic level; n represents the total number of samples tested. Standard error bars are shown.
Ecological Dynamics and Coexistence Patterns of Wild and Domestic Mammals in an Abandoned Landscape
<p>This repository contains all scripts and data used for analysis and figures for the paper <strong>Zuleger, Annika M., Perino, Andrea, Pereira, Henrique M. (2024): <em>Ecological Dynamics and Coexistence Patterns of Wild and Domestic Mammals in an Abandoned Landscape</em>. Wildlife Biology. DOI: 10.1002/wlb3.01319</strong></p> <p><strong>Full Changelog</strong>: https://github.com/AMZuleger/Dynamics_Coexistence_Peneda/commits/v1.0.0</p> <h2><strong>Abstract</strong></h2> <p>The issue of agricultural land abandonment in Southern Europe has raised concerns about its impact on biodiversity. While abandoned areas can lead to positive developments like creating new habitats and restoring native vegetation, they can also result in human-wildlife conflicts, particularly in areas with extensive farming and free-ranging livestock. To understand habitat selection and use of livestock and wild ungulates, it is essential to study their spatial and temporal distribution patterns. In this context, we conducted a long-term large mammal monitoring project using camera traps in the Peneda-Gerês National Park in Northern Portugal. Our primary focus was on exploring habitat preferences, occupancy dynamics, and potential spatial use correlations between domestic and wild species, utilizing dynamic occupancy models. Most wild species exhibited stable area use patterns, while domestic species experienced marginal declines, and the Iberian ibex displayed signs of repopulation. We observed distinct effects of habitat variables on occupancy, colonization, and extinction, revealing species-specific patterns of habitat utilization. Human disturbance had a notable impact on domestic species but did not affect wild ones. Camera sensitivity emerged as a critical factor, enhancing detection probability for all species. Additionally, habitat and weather variables exerted varying effects on detection probabilities, underscoring the necessity of accounting for these factors in modeling the detection process. We found shared habitat preferences between cattle and horses, both positively correlated with wolves, suggesting potential human-wildlife conflicts. Despite extensive spatial overlap, domestic and wild species seem to exhibit ecological independence due to distinct strategies and low predation pressure. Overall, the study emphasizes the multifaceted factors influencing habitat use. The observed species associations contribute to understanding ecological relationships and potential resource competition, emphasizing the importance of considering environmental variables for effective wildlife conservation and management.</p> <div> <h2><strong>Structure</strong></h2> </div> <ul> <li>R_Ecological_Dynamics_and_Coexistence_Patterns_rv.R --> R Script to perform all analysis from the publication <ul> <li>This is the only file needed to perform the entire analysis. Code will automaticall download data from GitHub and produce all Results and Figures.</li> </ul> </li> </ul> <div> <h3><strong>Data</strong></h3> </div> <ul> <li>Presence-absence tables for each species (per grid cell and week) from 2015 to 2022 (e.g. Domestic cattle.csv)</li> <li>SiteCovs_2015_grid.csv --> intial site covariates for the first primary sampling period</li> <li>yearlySiteCovs_grid.rds --> yearly site covariates for each primary sampling period</li> <li>ObsCovs.rds --> observation covariates for each secondary sampling period</li> </ul> <h2><strong>Authors</strong></h2> <p>Annika M. Zuleger*, Andrea Perino and Henrique M. Pereira</p> <p>*Corresponding author: Annika Mikaela Zuleger, German Centre for Integrative Biodiversity Research (iDiv) Halle-Jena-Leipzig, Puschstraße 4, 04103 Leipzig, Germany Email: <a href="mailto:annika_mikaela.zuleger@idiv.de">annika_mikaela.zuleger@idiv.de</a></p>
Figure 1 in 'Mainland-island' population structure of a terrestrial salamander in a forest-bocage landscape with little evidence for in situ ecological speciation
Figure 1. ContinentalFrancewiththedepartmentMayennehighlighted (A) andhabitatmodelforthe Fire salamander indepartment Mayenne (B). Themap representsthe habitat suitability model Ps = (1/ (1 + exp(−0.0303*percent_forest_cover-0.00562*altitude-0.0299*percent_hedgerow_cover + 1.769))) and was visualized with ILWIS 3.6 software58, available at https://52north.org/software/software-projects/ilwis/. Habitat suitability increases from deep blue with a probability of occurrence of zero to deep red with a probability of occurrence at unity (see colour bar). Prime fire salamander habitats are found at higher altitudes and are forested (in black) or with a dense hedgerow cover. Populations genetically investigated are located in and around the largely deciduous forests Forêt de Bourgon (FB) and Bois de Hermet (BH) and listed in Table 1.The outer geographicalcoordinates of the department are 1.239–0.049W and 47.733–48.568N.
Figure 3 in 'Mainland-island' population structure of a terrestrial salamander in a forest-bocage landscape with little evidence for in situ ecological speciation
Figure 3. (A) Clustering of pairwise Fst-values of Kottenforstfire salamanderpopulations (localities K01-K47) with the UPGMA-method. Numbers K01-K27 represent populations in the western section of the forest and K28-K47 represent populationsin the eastern section of the forest. The basal cluster at Fst <0.04 is composed of two groups (shaded) composed of mostly eastern (14/16 = 88%) or mostlywestern localities (14/15 = 93%). Populations breeding in streams are shown by the letter S. Note that populations that join the dendrogram at higher Fst-values are characterized by mostlysmall effectivepopulation sizes (Ňe ≤ 10, indicated by small open dots; X – Ňe not determined). B top panel - Populationsplotted along the firstand second axis of a principal component analysis. Middle panel - Ellipses represent means ± standarddeviation for sevenstream populations (left ellipse) and 40 non-streampopulations (right ellipse). Lower panel - Ellipsesrepresent means ± standard deviation forthe western (left) and eastern (right) sectionof the Kottenforst, forsmall populations (Ňe ≤ 10) shown by interruptedlines andfor larger populations (Ňe> 10) shown by uninterrupted lines. Notethat for the larger populations the ellipses for western and eastern localities do not overlap.
Figure 4. MicrosatellitepopulationgeneticdataforthefiresalamanderintheKottenforst, Germany21,24 in 'Mainland-island' population structure of a terrestrial salamander in a forest-bocage landscape with little evidence for in situ ecological speciation
Figure 4. MicrosatellitepopulationgeneticdataforthefiresalamanderintheKottenforst, Germany21,24 analyzed in the framework of allopatric speciation, i.e. a secondary spatial contact of a western pond-breeding lineage and an eastern stream-breeding lineage. The 95% credible cline regions are shown by grey shading. Solid and open round symbolsrepresent larger (Ňe> 10) andsmall populations (Ňe ≤ 10), respectively. Note that the stream-breeding populations that gave the composite genotype its name are all located in the eastern section of the Kottenforst (six data points indicated with a forward slash (/). One 'intermittent stream' in the western section is indicated by a backward slash. Also note the paucity of data at and around the steepest part of the clines. A – loadings on the first PC axis versus geographical distance. The clinecentre is at km 365.3 of the Universal Transverse Mercator (UTM) grid. Cline width is 3952 m. B – frequency of the stream-breeding genotype versus distance (after21). Thecline centre is at UTM km 365.1 and the cline widthis 1108 m. For model details see Supplementary Information VI.
Figure 2 in 'Mainland-island' population structure of a terrestrial salamander in a forest-bocage landscape with little evidence for in situ ecological speciation
Figure 2. (A) Clustering of pairwise Fst-values of firesalamander populations (Mayenne localities 1–41) with the UPGMA-method. The basal cluster at Fst <0.010 is mostly composed of forest populations (F, 17/21 = 81%) whereas populationsthat jointhe dendrogramat higher Fst-values are mostly fromthe bocage (B, 14/20 = 70%). At Fst> 0.025 the contribution of the bocage populations is eightout of eight. Notethat populations thatjoin the dendrogram at the highest Fst-values are characterizedby mostly small effective population sizes (Ňe ≤ 10, indicated by small open dots). (B) Populations plotted along the first and second axis of a principal component analysis. The 23 forest populations are shown by small solid round symbols and the solid ellipse represents the mean ± standard deviation. Eighteenpopulations from the bocageare shown by large open round symbols, with the mean ± standard deviation shown bythe widerellipse with the interrupted line.
The R package enerscape: A general energy landscape framework for terrestrial movement ecology
<ol> <li> <p class="western"><span>Ecological processes and biodiversity patterns are strongly affected by how animals move through the landscape. However, it remains challenging to predict animal movement and space use. Here we present our new R package <i>enerscape</i> to quantify and predict animal movement in real landscapes based on energy expenditure. </span></p> </li> <li> <p class="western"><span><i>Enerscape</i> integrates a general locomotory model for terrestrial animals with GIS tools in order to map energy costs of movement in a given environment, resulting in energy landscapes that reflect how energy expenditures may shape habitat use. <i>Enerscape</i> only requires topographic data (elevation) and the body mass of the studied animal. To illustrate the potential of <i>enerscape</i>, we analyze the energy landscape for the Marsican bear (<i>Ursus arctos marsicanus</i>) in a protected area in central Italy in order to identify least-cost paths and high-connectivity areas with low energy costs of travel.</span></p> </li> <li> <p class="western"><span><i>Enerscape</i> allowed us to identify travel routes for the bear that minimize energy costs of movement and regions that have high landscape connectivity based on movement efficiency, highlighting potential corridors. It also identifies areas where high energy costs may prevent movement and dispersal, potentially exacerbating human-wildlife conflicts in the park. A major strength of <i>enerscape</i> is that it requires only widely available topographic and body size data. As such, <i>enerscape</i> permits a first cost-effective way to estimate landscape use and movement corridors even when telemetry data is not readily available, such as for the example with the bear. </span></p> </li> <li> <p class="western"><span><i>Enerscape</i> is built in a modular way and other movement modes and ecosystem types can be implemented when appropriate locomotory models are available. In summary, <i>enerscape</i> is a new general tool that quantifies, using minimal and widely available data, the energy costs of moving through a landscape. This can clarify how and why animals move in real landscapes and inform practical conservation and restoration decisions.</span></p> </li> </ol>
Landscape connectivity, habitat isolation, and tick-borne pathogen ecology
Open the record for dataset details and reuse information.
Data from: Gene flow, ancient polymorphism, and ecological adaptation shape the genomic landscape of divergence among Darwin's finches
Open the record for dataset details and reuse information.
Data from: Network ecology in dynamic landscapes
Open the record for dataset details and reuse information.
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.