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558 results for “Species interactions”

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dryad36/100

Inferring the effect of species interactions on trait evolution

Models of trait evolution form an important part of macroevolutionary biology. The Brownian motion model and Ornstein-Uhlenbeck models have become classic (null) models of character evolution, in which species evolve independently. Recently, models incorporating species interactions have been developed, particularly involving competition where abiotic factors pull species toward an optimal trait value and competitive interactions drive the trait values apart. However, these models assume a fitness function rather than derive it from population dynamics and they do not consider dynamics of the trait variance. Here we develop a general coherent trait evolution framework where the fitness function is based on a model of population dynamics, and therefore it can, in principle, accommodate any type of species interaction. We illustrate our framework with a model of abundance-dependent competitive interactions against a macroevolutionary background encoded in a phylogenetic tree. We develop an inference tool based on Approximate Bayesian Computation and test it on simulated data (of traits at the tips). We find that inference performs well when the diversity predicted by the parameters equals the number of species in the phylogeny. We then fit the model to empirical data of baleen whale body lengths, using three different summary statistics, and compare it to a model without population dynamics and a model where competition depends on the total metabolic rate of the competitors. We show that the unweighted model performs best for the least informative summary statistic, while the model with competition weighted by the total metabolic rate fits the data slightly better than the other two models for the two more informative summary statistics. Regardless of the summary statistic used, the three models substantially differ in their predictions of the abundance distribution. Therefore, data on abundance distributions will allow us to better distinguish the models from one another, and infer the nature of species interactions. Thus our framework provides a conceptual approach to reveal species interactions underlying trait evolution and identifies the data needed to do so in practice.

opencc-zeroSep 2020View details →

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Data for: Fragmentation and disturbance drive montane mixed-flock species roles and interaction strength

Mixed-species flocks are a key facilitative interaction for tropical birds. Forest fragmentation leads to species loss and spatial turnover in these flocks, yet it is unknown how these changes to composition influence within-flock species interactions. We used network analysis to characterize flocking interactions along a fragment-size gradient in the Colombian Western Andes. We asked (1) how patch size, edge density, and vegetation structure explained network measures indicative of flock cohesion, (2) whether changes were driven by flocking species turnover or changes to the frequency of species co-occurrence, and (3) whether nuclear species, those that maintain flock stability and cohesion, changed in importance across the gradient. We constructed weighted social networks from flock compositions observed on 500-meter transects, and then calculated global network measures and the centrality of six nuclear species. Patch size and edge density did not correlate with interspecific co-occurrence patterns, but interaction strength increased with canopy height. Flocks contained numerous, weak interactions and there were no flock sub-types, suggesting flock composition was dynamic and unstructured. Several redundant nuclear species were present and varied in importance based on ecological conditions. A chlorospingus (Passerellidae) was most central in old-growth forest, whereas several tanager (Thraupidae) species became more central in smaller fragments and disturbed forest. When partitioning network dissimilarity, we found that 66% of dissimilarity resulted from species turnover, whereas only 34% resulted from changes to species co-occurrence. This finding suggests that coherence of flocking behavior itself is maintained even as extensive species turnover occurs from continuous forest to small fragments.

opencc-zeroSep 2020View details →

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The biotic interactions hypothesis partially explains bird species turnover along a lowland Neotropical precipitation gradient

Aim We evaluated the influence of climate in determining bird communities along precipitation gradients. We argue that mechanisms responsible for community turnover along precipitation gradients are similar to mechanisms operating along temperature and latitudinal gradients. We test the hypothesis that environmental conditions affect community composition in dry forests, whereas biotic interactions affect community composition in wet forests. Location Low-elevation forests along a precipitation gradient in Colombia where precipitation ranges from 700 – 4000 mm annually but neither temperature or elevation change. Time period Present day Major Taxa Studied Tropical Forest Birds. Methods We performed 291 bird counts in nine study areas across the ~3000 mm range of variation in precipitation. In each locality we obtained climatic characteristics, and a phylogenetic, morphological and physiological proxy data set to test predictions about the evolutionary relationships and distribution of traits in each community. Results Bird communities changed abruptly along the precipitation gradient and could be divided into dry and wet forest communities. Analyses of phylogenetic relationships, trait space, and observations at nests suggested that environmental filtering is more important in dry forest, especially for breeding. In contrast, we found little evidence that competition was more important in wet forest. Nest predation or competition for nest space, however, may be more critical in wetter forests. Conclusions The two distinct bird communities we documented suggest that lowland precipitation gradients, where temperature is constant can be as important as temperature gradients in generating high beta diversity. We conclude that the breeding process in bird communities might be crucial for determining community assembly along environmental gradients. Given that recent population declines in tropical birds have been attributed to changes in precipitation, by understanding the mechanisms underlying community assembly along precipitation gradients our study may improve our ability to understand those declines and predict the effects of climate change on neotropical avifauna.

opencc-zeroDec 2020View details →

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Data from: Thermal tolerances and species interactions determine the elevational distributions of insects

Aim: While physiological limits to thermal extremes are often thought to determine the abundance and geographic distribution of species, more recent evidence suggests that species interactions may be equally important. Moreover, the relative importance of these constraints may shift with changing abiotic conditions, such as climate change. Here, we explore the relative importance of physiological tolerances to heat and species interactions in determining the distribution of insects along two elevational gradients. The gradients contrast in precipitation but not temperature, allowing us to separate these two climatic factors. Location: Montane rainforest in Costa Rica. Time period: 2015-2016. Major taxa studied: Bromeliad-dwelling aquatic insect larvae. Methods: We estimated the elevation preferences of five insect taxa by surveying 170 bromeliads along the moist Atlantic and the dry Pacific slopes of Monteverde, and experimentally determined their critical thermal maxima (CTmax). We determined if species-specific heat tolerances predict their elevation preferences, using Deming regressions, and tested if potential predators mediated elevation effects on species distributions, using structural equation models. Results: On the moist Atlantic slope, heat tolerances of insects explained their elevational distributions: taxa with high heat tolerances preferred low elevations where conditions are warmest, while taxa with low heat tolerances preferred high elevations where it is coldest. By contrast, on the drier Pacific slope, the elevational abundance pattern of many insects reflected negative interactions from cranefly larvae. These larvae are known to become predatory under drought conditions and were disproportionally abundant at low elevations on the Pacific slope. Main conclusions: We show that under drought, indirect effects mediated by species interactions can override any direct physiological effects of environmental conditions on insect distributions. The relative importance of limits to physiological tolerance and species interactions thus depends on environmental context, an important insight given that environmental conditions are expected to shift with climate change.

opencc-zeroDec 2020View details →

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Data from: Non-linear effects of phenological shifts link inter-annual variation to species interactions

1. The vast majority of species interactions are seasonally structured and depend on species' relative phenologies. However, differences in the phenologies of species naturally vary across years and are altered by ongoing climate change around the world. 2. By combining experiments that shifted the relative hatching of two competing tadpole species across a productivity gradient with simulations of inter-annual variation in arrival times I tested how phenological variation across years can alter the strength and outcome of interspecific competition. 3. Shifting the relative timing of hatching (phenology) of a species fundamentally altered interspecific competition, and the effect of shifting the timing on competition was highly non-linear for most demographic rates. Furthemore, this relationship varied with productivity of the system. As a consequence, (i) shifts in relative timing of phenologies had small or large effects depending on the average natural timing of interactions, and (ii) changes in the inter-annual variation in onset of interaction alone can alter species interactions in simulations even when mean phenologies (timing) remain unchanged across years. 4. Traditionally, studies on phenologies focus on directional shifts in the mean of phenologies, but our results suggest that we also need to consider inter-annual variation in phenologies of interacting species to predict dynamics of natural communities and how they will be modified by climate change.

opencc-zeroDec 2017View details →

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Data from: Seed-dispersal networks in tropical forest fragments: area effects, remnant species, and interaction diversity

Seed dispersal interactions involve key ecological processes in tropical forests that help to maintain ecosystem functioning. Yet this functionality may be threatened by increasing habitat loss, defaunation and fragmentation. However, generalist species, and their interactions, can benefit from the habitat change caused by human disturbance while more specialized interactions mostly disappear. Therefore changes in the structure of the local, within fragment, networks can be expected. Here we investigated how the structure of seed-dispersal networks changes along a gradient of increasing habitat fragmentation. We analysed 16 bird seed-dispersal assemblages from forest fragments of a biodiversity-rich ecosystem. We found significant species-, interaction- and network-area relationships, yet the later was determined by the number of species remaining in each community. The number of frugivorous bird and plant species, their interactions, and the number of links per species decreases as area is lost in the fragmented landscape. In contrast, network nestedness has a negative relationship with fragment area, suggesting an increasing generalization of the network structure in the gradient of fragmentation. Network specialization was not significantly affected by area, indicating that some network properties may be invariant to disturbance. Still, the local extinction of partner species, paralleled by a loss of interactions and specialist-specialist bird-plant seed dispersal associations suggests the functional homogenization of the system as area is lost. Our study provides empirical evidence for network-area relationships driven by the presence/absence of remnant species and the interactions they perform.

opencc-zeroNov 2019View details →

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Data from: Influences of species interactions with aggressive ants and habitat filtering on nest colonization and community composition of arboreal twig-nesting ants

Ant community assembly is driven by many factors including species interactions (e.g. competition, predation, parasitism), habitat filtering (e.g. vegetation differences, food and nesting resources), and dispersal. Canopy ant communities, including dominant and twig-nesting ants, are structured by all these different factors, but we know less about the impacts of species interactions and habitat filters acting at the colonization or recruitment stage. We examined occupation of artificial twig nests placed in shade trees in coffee agroecosystems. We asked whether species interactions -- aggression from the dominant canopy ant, Azteca sericeasur (Hymenoptera: Formicidae) -- or habitat filtering -- species of tree where nests were placed, tree size, or surrounding vegetation -- influence colonization, species richness, and community composition of twig-nesting ants. We found 20 species of ants occupying artificial nests. Nest occupation was lower on trees with A. sericeasur, but did not differ depending on tree species or surrounding vegetation. Yet, there were species-specific differences in occupation depending on A. sericeasur presence and tree species. Ant species richness did not vary with A. sericeasur presence or tree species. Community composition varied with A. sericeasur presence, tree height, and surrounding vegetation. Our results suggest that species interactions with dominant ants are important determinants of colonization and community composition of twig-nesting ants. Habitat filtering by tree species did not affect twig-nesting ants, but changes in tree size or coffee management may contribute to differences in community composition with important implications for ant conservation in agricultural landscapes, as well as biological control of coffee pests.

opencc-zeroDec 2017View details →

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Data from: Pollen limitation and autonomous selfing ability interact to shape variation in outcrossing rate across a species range

Premise of the study: Hermaphroditic plants commonly reproduce through a mixture of selfing and outcrossing. The degree to which outcrossing rates reflect the availability of outcross pollen, genetic differentiation in the ability to autonomously self-fertilize, or both is often unclear. Despite the potential for autonomy and the pollination environment to jointly influence outcrossing, this interaction is rarely studied. Methods: We reviewed literature testing whether the pollination environment or floral traits causing autonomous selfing predict outcrossing rate variation among populations. We also measured outcrossing rates in 23 populations of Campanula americana and examined associations with the pollination environment, autonomy, and their interaction. Key Results: Our review revealed that traits facilitating selfing were often negatively associated with outcrossing rates while most aspects of the pollination environment poorly predicted outcrossing. Populations of C. americana varied from mixed mating to highly outcrossing but variation was unrelated to population size, density, pollen limitation, or autonomous selfing ability. Outcrossing rate was significantly influenced by an interaction between autonomous selfing ability and pollen limitation. In highly autonomous populations, elevated pollen limitation was associated with reduced outcrossing, while there was no relationship for less autonomous populations. Conclusions: Both the ability to self autonomously and pollen limitation interact to shape outcrossing rates in C. americana. This work suggests autonomy affords mating system flexibility, though it is not ubiquitous in all populations across the species range. Interactions between traits influencing autonomy and pollen limitation are likely to explain variation in outcrossing rates among populations of flowering plants.

opencc-zeroAug 2019View details →

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Data from: Genetics-based interactions of foundation species affect community diversity, stability, and network structure

We examined the hypothesis that genetics-based interactions between strongly interacting foundation species, the tree Populus angustifolia and the aphid Pemphigus betae, affect arthropod community diversity, stability and species interaction networks of which little is known. In a 2-year experimental manipulation of the tree and its aphid herbivore four major findings emerged: (i) the interactions of these two species determined the composition of an arthropod community of 139 species; (ii) both tree genotype and aphid presence significantly predicted community diversity; (iii) the presence of aphids on genetically susceptible trees increased the stability of arthropod communities across years; and (iv) the experimental removal of aphids affected community network structure (network degree, modularity and tree genotype contribution to modularity). These findings demonstrate that the interactions of foundation species are genetically based, which in turn significantly contributes to community diversity, stability and species interaction networks. These experiments provide an important step in understanding the evolution of Darwin's 'entangled bank', a metaphor that characterizes the complexity and interconnectedness of communities in the wild.

opencc-zeroDec 2016View details →

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Positive species interactions strengthen in a high-CO2 ocean

Negative interactions among species are a major force shaping natural communities and are predicted to strengthen as climate change intensifies. Similarly, positive interactions are anticipated to intensify, and could buffer the consequences of climate-driven disturbances. We used in situ experiments at volcanic CO2 vents within a temperate rocky reef to show that ocean acidification can drive community reorganization through indirect and direct positive pathways. A keystone species, the algal-farming damselfish Parma alboscapularis, enhanced primary productivity through its weeding of algae whose productivity was also boosted by elevated CO2. The accelerated primary productivity translated into increased densities of primary consumers (herbivorous invertebrates), which indirectly supported increased secondary consumers densities (predatory fish) (i.e. strengthening of bottom-up fuelling). However, this keystone species also reduced predatory fish densities through behavioural interference, releasing invertebrate prey from predation pressure and enabling a further boost in prey densities (i.e. weakening of top-down control). We uncover a novel mechanism where a keystone herbivore mediates bottom-up and top-down processes simultaneously to boost populations of a co-existing herbivore, resulting in altered food web interactions and predator populations under future ocean acidification.

opencc-zeroJun 2021View details →

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Data from: Reproductive interference and fecundity affect competitive interactions of sibling species with low mating barriers: experimental and theoretical evidence

When allopatric species with incomplete prezygotic isolation come into secondary contact, the outcome of their interaction is not easily predicted. The parasitoid wasp Encarsia suzannae (iES), infected by Cardinium inducing cytoplasmic incompatibility (CI), and its sibling species E. gennaroi (EG), not infected by bacterial endosymbionts, may have diverged because of the complementary action of CI and asymmetric hybrid incompatibilities. Whereas postzygotic isolation is now complete due to sterility of F1 hybrid progeny, prezygotic isolation is still incipient. We set up laboratory population cage experiments to evaluate the outcome of the interaction between ES and EG in two pairwise combinations: iES vs. EG and cured ES (cES, where Cardinium was removed with antibiotics) vs. EG. We also built a theoretical model aimed at exploring the role of life history differences and asymmetric mating on competitive outcomes. In three of four cages in each treatment, ES dominated the interaction. We found evidence for reproductive interference, driven by asymmetric mating preferences, which gave a competitive edge to ES, the species that better discriminated against heterospecifics. However, we did not find the fecundity cost previously shown to be associated with Cardinium infection in iES. The model largely supported the experimental results. The finding of only a slight competitive edge of ES over EG in population cages suggests that in a more heterogeneous environment the species could coexist. This is supported by evidence that the two species coexist in sympatry, where preliminary data suggest reproductive character displacement may have reinforced postzygotic isolation.

opencc-zeroDec 2016View details →

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Data from: Seasonality promotes grassland diversity: interactions with mowing, fertilization and removal of dominant species

1. Current biodiversity declines in species-rich grasslands are connected with the cessation of management, eutrophication and the expansion of dominant grass species. One of the theoretical mechanisms limiting biodiversity loss is the ability of subordinate species to avoid competitive exclusion by seasonal niche separation from dominant species. Here we explore how seasonality underpins the maintenance of diversity in temperate meadows under different management regimes and competition intensities in relation to species functional traits. 2. We studied eight different communities in a long-term meadow experiment that manipulated mowing, fertilization and dominant species (Molinia caerulea) removal. In each community, species-specific trait and biomass data were taken five times during the year to test whether seasonal variation in species composition and functional strategies enable species to coexist. 3. Mown unfertlized meadows exhibited pronounced seasonal variations in community composition and structure, linked to differences in resource-use strategies between mid-summer dominants and the spring and autumn subordinates. Higher specific leaf area and foliar nitrogen concentration in the fast-growing dominants, and increased water use (δ13C) and nutrient acquisition (δ15N) efficiency in resource-retentive subordinates, best predicted their temporal niche separation. Seasonal segregation of species with contrasting strategies increased after mowing cessation, and the resulting summer dominance of Molinia. Conversely, the seasonal dynamics were markedly reduced by fertilization, promoting tall grasses over sedges and forbs throughout the entire year, thereby decreasing the overall taxonomic and functional diversity. When Molinia was removed the compositional changes during the season became less pronounced, being significant only in mown unfertilized plots. 4. Seasonal shifts in community composition reduced the competitive interactions and promoted the coexistence of dominant and subordinate species. Seasonality reversed the negative mid-summer diversity-productivity relationship to a positive one during the spring and autumn, and seasonality only prevented diversity loss in unfertilized conditions possibly because competition is most intense in summer. In fertilized meadows, subordinate species are not able to escape competitive exclusion by shifting their phenological peaks to the spring or autumn periods because asymmetric competition is intense over the entire growing season. Studying seasonal dynamics is key to understanding the maintenance of grassland diversity under ongoing land use change.

opencc-zeroDec 2017View details →

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The nature of extraframework aluminum species and Brønsted acid site interactions under catalytic operating conditions

This dataset contains example VASP and CP2K input files with VASP optimized strucure files in cif format and xyz trajectories for ab-initio molecular dynamics simulations performed on extraframework aluminum species in H-ZSM-5 unit cells.

opencc-by-4.0Nov 2023View details →

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Crop diversity and within field multi-species interactions mediate herbivore abundances in cotton fields

Insect herbivore abundances in agricultural fields partly depend on surrounding landscape compositional heterogeneity (e.g., landscape complexity). Landscape complexity can directly (e.g., dilution of host crops) and indirectly (promoting herbivore biocontrol) regulate herbivores in agricultural fields. While much is known about direct (e.g., resource concentration) and indirect effects (i.e., promoting biocontrol) of landscape complexity on herbivore populations, more work is needed to study whether landscape complexity can regulate herbivore populations by mediating within field multi-species interactions among herbivores and their shared natural enemies. During 2019 and 2020, we estimated Bemisia tabaci and Aphis gossypii abundances, their dominant predators (coccinellids, spiders, Orius spp., and Geocoris spp.), and their interaction (using molecular analysis) in 38 cotton fields along a gradient of landscape diversity across Georgia, USA. Within cotton fields, we assessed the effect of predator abundances, their frequency of feeding on herbivores, and the correlation between herbivore abundances (B. tabaci and A. gossypii) on the B. tabaci and A. gossypii abundance. At the landscape scale, crop diversity and different cover types influenced the abundance of B. tabaci and A. gossypii within cotton fields. We found a complex interaction among pests at the field scale, with higher aphid abundance correlated with decreased whitefly abundance. Our results support crop diversification for improving suppression of generalist pests in cotton landscapes through promoting biocontrol and diluting host crop area. Our result further suggests that the landscape complexity effect on whiteflies can indirectly mediate aphid abundance in cotton fields, indicating the importance of within field species interactions.

opencc-zeroNov 2023View details →

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Data from: Warming had contrasting effects on the importance of facilitative interactions with a cushion nurse species on native and non-native species in the high-Andes of central Chile

Alpine habitats are regarded as particularly vulnerable to the effects of climate change. On one hand, global warming is supposed to contributes to alpine environments becoming less stressful. On the other hand, altered snowpack due to warmer temperatures can intensify the stress in these habitats. The presence of non-native plants on some of these habitats is due to the facilitative effects exerted by native nurse plants, becoming an additional threat. According to the stress gradient hypothesis the importance of facilitative interactions with nurse species is expected to diminish as environmental harshness decreases due to climate change, yet remains important if climate change heightens the stress in alpine habitats. However, the responses also depend on climate change's impact on the nurse species. We conducted an experimental warming experiment in the Andes of the central Chile to assess the effects of warmer temperatures on the growth, reproduction and photochemical efficiency of the cushion nurse plant Azorella madreporica. Further we performed a cushion removal experiment involving three native species (Gamocarpha ventosa, Nocaccea magellanica and Rytidosperma pictum) and two non-native species (Cerastium arvense and Taraxacum officinale) to assess whether facilitative interactions changed with warming. We expected that under warmer conditions facilitation continued be important for the native species but decreased for the non-natives as the latter are abundant at warmer low elevations. We found that warmer conditions increased the photochemical efficiency and growth of the nurse cushions. Removal of cushions resulted in high mortality rates for all species. However, under warmer conditions, native species exhibited lower survival rates, whereas non-natives showed no significant changes compared to control groups. In summary, warmer temperatures were beneficial for the nurses maintaining the importance of facilitative interactions for native species, but not for the non-natives.

opencc-zeroNov 2023View details →

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Datasets of positive and negative miRNA-target interactions from 4 species

The datasets provided accompany the paper "Empowering Prediction of miRNA-mRNA Interactions in Species with Limited Training Data through Transfer Learning." These datasets encompass all positive and negative data relevant to the paper. The datasets were created in a prior paper (https://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-021-04164-x) by Gilad Ben-Or. <div>   </div>

openapache2.0Dec 2023View details →

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Species richness and intraspecific variation interactively shape marine diatom community functioning

The data and code provided here is used to analyze and visualize all data associated with the manuscript "Species richness and intraspecific variation interactively shape marine diatom community functioning" which is under review at L&O Letters and is authored by Patrick K. Thomas, Marrit Jacob, Esteben Acevedo-Trejos, Helmut Hillebrand, and Maren Striebel. Data should be analyzed in R or R studio. The code should execute automatically with no modifications by the user as long as the four csv files are placed in the same working directory that R is set to. The R project (.Rproj) file may also be opened directly to create an R project that is automatically set to the correct directory. ABSTRACT: Biodiversity generally increases productivity in ecosystems; however, this is mediated by the specific functional traits that come with biodiversity loss or gain and how these traits interact with environmental conditions. Most biodiversity studies evaluate effects of species richness alone, despite our increasing understanding that intraspecific diversity can have equally strong impacts. Here, we manipulate both species richness and intraspecific richness (i.e., number of distinct strains) in marine diatom communities to explicitly test the relative importance of species and strain richness for biomass and trait diversity in six distinct temperature/nutrient environments. We show that species and strain richness both have significant effects on biomass and growth rates, but more importantly they interact with each other, indicating that cross-species diversity effects depend on within-species diversity and vice versa. This intertwined relationship thus calls for more integrative approaches quantifying the relative importance of distinct biodiversity components and environmental context on ecosystem functioning.

opencc-by-4.0Mar 2024View details →

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Data from: Higher-order species interactions cause time-dependent niche and fitness differences: experimental evidence in plant-feeding arthropods

trajectories.csv (the raw data) id: replicate identifier variant: co-existence status ("competition" or "monoculture") day: day of experiment species: mite species ("CRM" or "WCM") n: population density   model.R The R script with the GAMM fitted to the trajectory data (the GAMM model is saved as model.RData); also produces simulations from this model (saved as sim.csv).   model.RData The GAMM for growth rates.   sim.csv (simulations from the GAMM) day: day of experiment spec_var: combination of co-existence status ("competition" or "monoculture") and species ("CRM" or "WCM") X1:X1000: population densities simulated from the fitted GAMM (on the log scale)   NFD_over_time_monte_carlo_gam.py Python script to compute niche and fitness differences. Takes sim.csv (densities over time for different instantiations) and model.RData (stores the GAMM from R for the growth rates) as input and generates the file Data_NFD_monte_carlo_multi_c.csv which stores the niche and fitness differences computed for these communities.   figures.R The R script that produces Figures 2-4.   plot_biotic_model.py Python code to generate the figures S3 and S4 showing the simulations of a biotic resource competition model.    plot_abiotic_model.py Python code to generate the figures S1 and S2 showing simulations of an abiotic resource competition model.

opencc-by-4.0Nov 2023View details →

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Data on soil variables (with plot IDs) and grassland species traits used for the analysis of grassland vegetation data by Pillar, V.D. (2024) Trait divergence in plant community assembly is generated by environmental factor interactions. Journal of Vegetation Science, 35, e13259. Available from: https://doi.org/10.1111/jvs.13259

File <a href="../api/records/10983049/draft/files/Plot_IDs_990ua.txt/content" target="_blank" rel="noopener noreferrer">Plot_IDs_990ua.txt</a> contains the IDs of the 1-m2 plots used for the analysis of grassland vegetation data by Pillar, V.D. (2024) Trait divergence in plant community assembly is generated by environmental factor interactions. The plot data are stored in the sPlot database (PPBio South Brazilian Grassland Database). File <a href="../api/records/10983049/draft/files/E_990ua_21SoilVar.txt/content" target="_blank" rel="noopener noreferrer">E_990ua_21SoilVar.txt</a> contains data on soil variables evaluated in the 250 m transects, but here expanded to the 990 1-m2 plots (each transect was sampled using 10 1-m2 pots). File <a href="../api/records/10983049/draft/files/B_769spp_4t.txt/content" target="_blank" rel="noopener noreferrer">B_769spp_4t.txt</a> is the species trait database collected in the framework of several research projects in the Quantitative Ecology Lab (EcoQua) and Grassland Vegetation Studies Lab (LevCamp) of Universidade Federal do Rio Grande do Sul (UFRGS). Data gaps were filled by compiled from the TRY database and data imputation.

opencc-by-4.0Apr 2024View details →

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Biotic filtering by species' interactions constrains food-web variability across spatial and abiotic gradients

Despite intensive research on species dissimilarity patterns across communities (i.e. beta-diversity), we still know little about their implications for variation in food-web structures. Our analyses of 50 lake and 48 forest soil communities show that, while species dissimilarity depends on environmental and spatial gradients, these effects are only weakly propagated to the networks. Moreover, our results show that species and food-web dissimilarities are consistently correlated, but that much of the variation in food-web structure across spatial, environmental, and species gradients remains unexplained. Novel food-web assembly models demonstrate the importance of biotic filtering during community assembly by (1) the availability of resources, and (2) limiting similarity in species' interactions to avoid strong niche overlap and thus competitive exclusion. This reveals a strong signature of biotic filtering processes during local community assembly, which constrains the variability in structural food-web patterns across local communities despite substantial turnover in species composition.

opencc-zeroMar 2022View details →

ScienceDex guides

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These curated guides explain access requirements, typical timelines, costs, and reuse considerations for widely used research datasets.

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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.

allen-brain-atlas

neuroscienceopenDocumentation, web resources, and API references are available online.

Last verified 2026-04-30Open record

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.

abode-home-cage

behavioral-neuroscienceopenThe DataShare record exposes download links for annotations, documentation, license text, and the zipped per-snippet data directory.

Last verified 2026-04-30Open record

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.

dandi-nwb

electrophysiologyopenPublished Dandiset metadata and archive endpoints are available through the production DANDI API.

Last verified 2026-04-30Open record

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.

ibl

behavioral-neuroscienceopenPublic sessions can be searched and loaded from the IBL public data server through ONE.

Last verified 2026-04-29Open record

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.

openneuro

neuroscienceopenPublished datasets are available on demand over the internet.

Last verified 2026-04-29Open record