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155 results for “interaction scale”
Data from: Boreal tree growth exhibits decadal-scale ecological memory to drought and insect defoliation, but no negative response to their interaction
1. Interactions between drought and insect defoliation may dramatically alter forest function under novel climate and disturbance regimes, but remain poorly understood. We empirically tested two important hypotheses regarding tree responses to drought and insect defoliation: 1) trees exhibit delayed, persistent, and cumulative growth responses to these stressors; 2) physiological feedbacks in tree responses to these stressors exacerbate their impacts on tree growth. These hypotheses remain largely untested at a landscape scale, yet are critical for predicting forest function under novel future conditions given the connection between tree growth and demographic processes such as mortality and regeneration. 2. We developed a Bayesian hierarchical model to quantify the ecological memory of tree growth to past water deficits and insect defoliation events, derive antecedent variables reflecting the persistent and cumulative effects of these stressors on current growth, and test for their interactive effects. The model was applied to extensive tree growth, weather, and defoliation survey data from western and eastern regions of the Canadian boreal forest impacted by recent drought and defoliation events and characterized by contrasting tree compositions, climates, and insect defoliators. 3. Results revealed persistent negative tree growth responses to past water (all trees) and defoliation (host trees) stress lasting 3-6 and 10-12 years, respectively, depending on study region. Accounting for the ecological memory of tree growth to water and defoliation stress allowed for detection of interactions not previously demonstrated. Contrary to expectations, we found evidence for positive interactions among non-host trees likely due to reduced water stress following defoliation events. Regional differences in ecological memory to water stress highlight the role of climate in shaping forest responses to drought. 4. Synthesis. Study results suggest negative feedbacks in tree responses to drought and insect attack may be weaker than predicted for defoliator-dominated boreal forest systems. Instead, insect defoliation may offset the impacts of water deficit on boreal tree growth by reducing transpirational water demand. This offset mimics increased resistance to drought following forest thinning and may lessen growth and mortality losses due to increased aridity and more severe insect damage forecast for the boreal forest under global change.
SI Movies for "Dynamics of dominance: maneuvers, contests, and assessment in the posture-scale movements of interacting zebrafish"
<p>This is a repository of the Supplementary Movies from the paper "Dynamics of dominance: maneuvers, contests, and assessment in the posture-scale movements of interacting zebrafish".</p><h3>SM1</h3><p><br>This movie is a visualization of the tracking pipeline output, namely the 3D bodypoint positions of the two zebrafish over time. In this animation, we show the 3D locations of the head (circle), pec (square) and tail (cross) bodypoints of the winner (red) and loser (blue) throughout an entire experiment, the same experiment shown in Fig3(A) of the paper. The movie is downsampled from the 100fps recordings to 25fps to reduce file size. (1hr 23min 29sec)</p><h3>Notes on SM2-6</h3><p>In these movies we show two panels. The left panel shows an animation of the contestant 3D bodypoint positions. The right panel shows the XZ camera view of the tank with the XZ image coordinates of bodypoints drawn over the fish. The movies run at 100fps and are all 2 minutes long. The movies are each centered at a different time during the FishTank20200130_153857 recording, with one minute before, and one minute after, the chosen centered point.</p><h3>SM2</h3><p>This video is centred at the frame identified as the start of the first fight bout.</p><h3>SM3</h3><p>This video is centered at the frame identified as the middle of the first fight bout.</p><h3>SM4</h3><p>This video is centered at the frame identified as the end of the first fight bout.</p><h3>SM5</h3><p>This video is centered at the frame identified as the start of the second fight bout.</p><h3>SM6</h3><p>This video is centered at the frame identified as the end of the second fight bout.</p>
Cross-scale analysis reveals interacting predictors of annual and perennial cover in Northern Great Basin rangelands
<p>Exotic annual grass invasion is a widespread threat to the integrity of sagebrush ecosystems in Western North America. Although many predictors of annual grass prevalence and native perennial vegetation have been identified, there remains substantial uncertainty about how regional-scale and local-scale predictors interact to determine vegetation heterogeneity, and how associations between vegetation and cattle grazing vary with environmental context. Here, we conducted a regionally extensive, one-season field survey across burned and unburned, grazed, public lands in Oregon and Idaho, with plots stratified by aspect and distance to water within pastures to capture variation in environmental context and grazing intensity. We analyzed regional and local-scale patterns of annual grass, perennial grass, and shrub cover, and examined to what extent plot-level variation was contingent on pasture-level predictions of site favorability. Annual grasses were widespread at burned and unburned sites alike, contrary to assumptions of annual grasses depending on fire, and more common at lower elevations and higher temperatures regionally, as well as on warmer slopes locally. Pasture-level grazing pressure interacted with temperature such that annual grass cover was associated positively with grazing pressure at higher temperatures but associated negatively with grazing pressure at lower temperatures. This suggests that pasture-level temperature and grazing relationships with annual grass abundance are complex and context-dependent, though the causality of this relationship deserves further examination. At the plot-level within pastures, annual grass cover did not vary with grazing metrics, but perennial cover did; perennial grasses, for example, had lower cover closer to water sources, but higher cover at higher dung counts within a pasture, suggesting contrasting interpretations of these two grazing proxies. Importantly for predictions of ecosystem response to temperature change, we found that pasture-level and plot-level favorability interacted: perennial grasses had higher plot-level cover on cooler slopes, and this difference across topography was starkest in pastures that were less favorable for perennial grasses regionally. Understanding the mechanisms behind cross-scale interactions and contingent responses of vegetation to grazing in these increasingly invaded ecosystems will be critical to land management in a changing world.</p>
Small-scale fires interact with herbivore feedbacks to create persistent grazing lawn environments
<p>Fire-herbivory feedbacks strongly influence the formation of grazing lawns in savanna ecosystems. Preliminary findings suggest that small-scale (< 25 ha) fires can engineer grazing lawns by concentrating herbivores on the post-burn green flush; however, the persistence of such grazing lawns over the longer term and without repeated fire is unknown.</p> <p>We used high-resolution Light Detection and Ranging (LiDAR) to investigate the long-term effects of fire manipulation on short grass structure (height, cover, volume, and spatial continuity) and grazing lawn establishment in Kruger National Park, South Africa. We analysed the effects of fire exclusion and experimental burns applied over a 7-year period (2013-2019) followed by a one-year cessation of burning at varying spatial scales during the early and late dry seasons.</p> <p>Fires contributed a fourfold increase in short grass cover, regardless of fire season or size. The distribution of grass height differed significantly between fire-induced grazing lawns and recently unburnt parts of the landscape where controlled fires were excluded over the experimental period. The volume (corresponding to bulk density) of short grass on the landscape responded strongly to fires, with grass volume <20 cm in height increasing with both early and late dry season fires.</p> <p>Early dry season fires caused larger and more homogeneous short grass patches. Furthermore, early dry season fires were more influential in increasing the cover of the shortest grass height class (1-5 cm).</p> <p><em>Synthesis and applications</em>. Our results demonstrate that fire-induced grazing lawns can persist over the longer-term, even when fires are no longer applied, leading to the creation of vertical and horizontal heterogeneity in the grass layer. Small-scale fires, therefore, represent a feasible management approach to expanding grazing lawn extent, potentially benefiting grazer coexistence and diversity.</p>
Ultra-high scale cytometry-based cellular interaction mapping - Data repository
<p>This is the repository for datasets used in Vonficht, Jopp-Saile, Yousefian, Flore <em>et al. </em>Ultra-high scale cytometry-based cellular interaction mapping, <em>Nature Methods </em>(2025) <a href="https://doi.org/10.1038/s41592-025-02744-w" rel="nofollow">https://doi.org/10.1038/s41592-025-02744-w</a>. Associated analysis code can be found at <a href="https://github.com/agSHaas/ultra-high-scale-cytometry-based-cellular-interaction-mapping">https://github.com/agSHaas/ultra-high-scale-cytometry-based-cellular-interaction-mapping</a>, and the repository for the accompanying R package is hosted at <a href="https://github.com/agSHaas/PICtR">https://github.com/agSHaas/PICtR</a>. </p>
Data from: Net plant interactions are highly variable and weakly dependent on climate at the global scale
<p>Data were collected from the literature. The dataset is a compilation of published studies.</p> <p>An ISI Web of Science search covering the time period from 1900 onwards was conducted to identify the publications on plant interactions. Each publication was individually reviewed, and the reference list was inspected to identify additional relevant publications. We collected a total 1,220 publications for data compilation. We built a global dataset of 10,502 pairs of plant interaction data.</p>
Load, pressure, rubble pile geometry and video data from model-scale tests on shallow water ice-structure interaction
<p>The data is obtained from model-scale experiments on shallow water ice-structure interaction. During the conducted experiments, a ten-meter wide initially intact ice sheet was pushed against a sloping structure of the same width. As the ice failed against the structure, a grounded rubble pile accumulated in front of it. The structure consisted of ten identical one-meter-wide segments and the horizontal load on each of these segments was measured independently with load cells. These measurements are presented as load-time datasets. The horizontal load acting on the false bottom was measured with load cells and are also presented as load-time datasets. Furthermore, the ice pressure on two of the segments was measured with tactile sensors. These pressure measurements are presented as array-based pressure-time datasets. Video footage filmed from two different video angles is included in the data. In addition, the coordinates of the rubble pile geometries at the end of each experiment are published. The data includes the top and side rubble pile geometries. In total, seven experiments were conducted. The data can be used by researchers, engineers and designers who work with ice structure interaction related issues in order to, for instance, optimize the design of offshore structures, improve ice load predictions or develop future experiments and simulations. A full description of the experimental set-up and the published data is submitted to the journal Data in Brief. </p>
Scaling protein-water interactions in the Martini 3 coarse-grained force field to simulate transmembrane helix dimers in different lipid environments
<p>This dataset contains molecular dynamics (MD) trajectories used for preparation of the following manuscript: <br> "Scaling protein-water interactions in the Martini 3 coarse-grained force field to simulate transmembrane helix dimers in different lipid environments". </p>
Do large-scale associations in birds imply biotic interactions or environmental filtering?
<p><strong>Aim</strong>: There has been a wide interest in the effect of biotic interactions on species' occurrences and abundances at large spatial scales, coupled with a vast development of the statistical methods to study them. Still, the evidence whether the effects of within-trophic level biotic interactions (e.g. competition and heterospecific attraction) are discernible beyond local scales remains inconsistent. Here, we present a novel hypothesis-testing framework based on joint dynamic species distribution models (JDSDMs) and functional trait similarity to dissect between environmental filtering and biotic interactions. </p> <p><strong>Location</strong>: France and Finland. </p> <p><strong>Taxon</strong>: Birds. </p> <p><strong>Methods</strong>: We estimated species-to-species associations within a trophic level, independent of the main environmental variables (mean temperature and total precipitation) for common species at large spatial scale with joint dynamic species distribution models (VAST). We created hypotheses based on species' functionality (morphological and/or diet dissimilarity) and habitat preferences about the sign and strength of the pairwise spatio-temporal associations to estimate the extent to which they result from biotic interactions (competition, heterospecific attraction) and/or environmental filtering. </p> <p><strong>Results</strong>: Spatio-temporal associations were mostly positive (80%), followed by random (15%), and only 5% were negative. Negative spatio-temporal associations in different communities were due to a few species when they existed. The relationship between spatio-temporal association and functional dissimilarity among species was negative, which fulfills the predictions of both environmental filtering and heterospecific attraction. </p> <p><strong>Main conclusions: </strong>We showed that processes leading to species aggregation (mixture between environmental filtering and heterospecific attraction) seem to dominate assembly rules, and we did not find evidence for competition. Altogether, hypothesis-testing framework based on joint dynamic species distribution models and functional trait similarity is beneficial in ecological interpretation of species-to-species associations from the long-term large-scale data. </p>
Human-Robot Interaction Conversational User Enjoyment Scale (HRI CUES) Dataset - Anonymized
<p>Human-Robot Interaction Conversational User Enjoyment Scale (HRI CUES) and this corresponding dataset aim to provide tools for measuring user enjoyment from an external perspective to supplement self-reported user enjoyment responses in human-robot interaction research, with future potential application for autonomous detection of user enjoyment in real-time in robots and agents for adapting conversations contingently to provide enjoyable and long-lasting interactions.</p> <p>The dataset consists of 25 older adults' (12 men, 13 women) open-domain dialogue with an autonomous companion robot with an integrated large language model (GPT-3.5, text-davinci-003) from participatory design workshops conducted in March 2023. The conversations are annotated for user enjoyment based on HRI CUES by 3 expert annotators, as described in the paper (arXiv:2405.01354). Robot architecture and participatory design workshops are described in DOI: 10.21203/rs.3.rs-2884789/v1.</p> <p><strong>Exchanges</strong> file contains the participant ID, the number of the turn (conversation exchange by Robot-Participant response), the start and end of the turn, the anonymized transcript for the turn, and three annotator scores for the user enjoyment in the exchange. </p> <p><strong>Overall </strong>file contains the participant ID, self-reported user perception scores from the questionnaire ("I was satisfied with my conversation with the robot", "It was fun talking to the robot", "The conversation with the robot was interesting", "It felt strange talking to the robot") and three annotator scores for the user enjoyment in the overall interaction.</p> <p>The conversations are in Swedish. Participants' mean age is 74.6 (SD=5.8). 20 participants had no prior interaction with a robot, and only one had previously talked with a robot. The average interaction duration is 7.4 min (SD=1.5) with 12 to 29 turns. Each turn lasts 5 to 61 seconds (M=17.7, SD=7.2). The total duration of the interactions is 174 min, corresponding to 590 turns. </p> <p><em>Videos of the interactions are available upon request, contingent upon a signed agreement to maintain data confidentiality in accordance with GDPR regulations.</em></p> <p>Anonymization macros:</p> <p>[P_NAME]: Participant's name (may include surname). The robot always uses the first name even when the surname is given.</p> <p>[NAME_REMOVED]: A name of another person mentioned by the participant.</p> <p>[LOCATION_REMOVED]: Small town/village/area where the participant lives or lived.</p> <p>[MEDICAL_INFO_REMOVED]: Medical information shared by the participant.</p> <p>[AGE_REMOVED]: Participant's or other person's age.</p> <p>[INFORMATION_REMOVED]: Sensitive information shared by the participant.</p> <p>[MISTAKEN_NAME]: Speech recognition error resulted in the name being misunderstood.</p>
Biomass encounter rates limit the size scaling of feeding interactions: trial data
<p>Experimental trial data for the publication: Biomass encounter rates limit the size scaling of feeding interactions.</p>
Data from: Scale-dependent effects of landscape structure on pollinator traits, species interactions and pollination success
<p>Data: Plant-pollinator interactions, pollinator body size (inter-tegular distance, ITD) and plant reproductive success (number of seeds produced).<br><br>Data collected by Christie J. Webber. <br><br>Data collected in 14 experimental flowering plant patches during December 2012–February 2013. Patches were located in a 105 hectare sheep farm pasture in Oxford, North Canterbury, New Zealand (43°19'21"S 172°12'25"E).</p> <p>Files:</p> <ul> <li>Data_S1: contains plant-pollinator interactions sampled and pollinator inter-tegular distance (ITD). Data_S1 columns: patch ID where the interaction was recorded, plant species, pollinator ITD (mm), and pollinator family, genus and species.</li> <li>Data_S2: contains the number of seeds produced by each of the five flowers of each plant individual from each plant species on each patch. Data_S2 columns: patch ID where the measurement was taken, plant species, plant number (individual sampled), number of seeds.</li> </ul> <p>Dataset used in "Scale-dependent effects of landscape structure on pollinator traits, species interactions and pollination success" by G. Peralta, C.J. Webber, G.L.W. Perry, D.B. Stouffer, D.P. Vázquez and J.M. Tylianakis.</p>
Data from "Enhanced radiative forcing from aerosol-cloud interactions due to large-scale circulation adjustments" by Guy Dagan, Netta Yeheskel and Andrew I. L. Williams.
<p>This is the data presented in "Enhanced radiative forcing from aerosol-cloud interactions due to large-scale circulation adjustments" by Guy Dagan, Netta Yeheskel and Andrew I. L. Williams.</p> <p> </p> <p>Please read the README file for explanations about the data.</p> <p> </p>
Data from: Spatial scale, neighbouring plants and variation in plant volatiles interactively determine the strength of host-parasitoid relationships
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Cross-scale analysis reveals interacting predictors of annual and perennial cover in Northern Great Basin rangelands
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Data from: Scale-dependent effects of landscape structure on pollinator traits, species interactions and pollination success
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Data from: Interactions among symbionts operate across scales to influence parasite epidemics
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Data from: The interplay of multiple spatial scales influences plant–herbivore interactions
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Budworms, beetles, and wildfire: disturbance interactions influence the likelihood of insect-caused disturbances at a subcontinental scale
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Data from: Boreal tree growth exhibits decadal-scale ecological memory to drought and insect defoliation, but no negative response to their interaction
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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.