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.
33
datasets available to search
ShareScore release 0.9.0
Dataset results
33 results for “ecological levels”
National Park Service - South Florida/Caribbean Inventory & Monitoring Network - SARI SET Surface Water level data from Salt River Bay National Historical Park and Ecological Preserve, St. Croix, US Virgin Islands.
Surface water level data (m) was collected in Salt River Bay National Historic Park and Ecological Preserve (SARI) by the South Florida/Caribbean Inventory and Monitoring Network (SFCN) as part of the Soil Elevation Table (SET) vital sign monitoring program. Water level data collected from 2017 to 2024 is included in this dataset. The water level data was collected using HOBOware Onset Water Level Data Loggers. This data-package is complete.
Inferring the mammal tree: Species-level sets of phylogenies for questions in ecology, evolution, and conservation
<p>Big, time-scaled phylogenies are fundamental to connecting evolutionary processes to modern biodiversity patterns. Yet inferring reliable phylogenetic trees for thousands of species involves numerous trade-offs that have limited their utility to comparative biologists. To establish a robust evolutionary timescale for all ~6000 living species of mammals, we developed credible sets of trees that capture root-to-tip uncertainty in topology and divergence times. Our 'backbone-and-patch' approach to tree-building applies a newly assembled 31-gene supermatrix to two levels of Bayesian inference: (i) backbone relationships and ages among major lineages, using fossil node- or tip-dating; and (ii) species-level 'patch' phylogenies with non-overlapping in-groups that each correspond to one representative lineage in the backbone. Species unsampled for DNA are either excluded ('DNA-only' trees) or imputed within taxonomic constraints using branch lengths drawn from local birth-death models ('completed' trees). Joining time-scaled patches to backbones results in species-level trees of extant Mammalia with all branches estimated under the same modeling framework, thereby facilitating rate comparisons among lineages as disparate as marsupials and placentals. We compare our phylogenetic trees to previous estimates of mammal-wide phylogeny and divergence times, finding that (i) node ages are broadly concordant among studies, and (ii) recent (tip-level) rates of speciation are estimated more accurately in our study than in previous 'supertree' approaches where unresolved nodes led to branch length artifacts. Credible sets of mammalian phylogenetic history are now available for download at <a href="http://vertlife.org/phylosubsets">http://vertlife.org/phylosubsets</a>, enabling investigations of long-standing questions in comparative biology.</p>
Dataset: Multi-level network dataset of social-ecological interdependencies in ten Swiss wetlands based on qualitative interviews and quantitative surveys
<p>The dataset originated from quantitative online surveys and qualitative expert interviews with organizational actors relevant to the governance of ten Swiss wetlands from 2019 till 2021. Multi-level networks represent the wetlands governance for each of the ten cases. The collaboration networks of actors form the first level of the multi-level networks and are connected to multiple other network levels that account for the social and ecological systems those actors are active in. 521 actors relevant to the management of the ten wetlands are included in the collaboration networks; quantitative survey data exists for 71% of them. A unique feature of the collaboration networks is that it differentiates between positive and negative forms of collaboration specified based on actors' activity areas. Therefore, the data describes not only if actors collaborate but also how and where actors collaborate. Further additional two-mode networks (actor participation in forums and involvement in other regions outside the case area) are elicited in the survey and connected to the collaboration network. Finally, the dataset also contains data on ecological system interdependencies in the form of conceptual maps derived from 34 expert interviews (3-4 experts per case).</p>
Rethinking the fundamental unit of ecological remote sensing: Estimating individual level plant traits at scale
<p>derived data of leaf and plant structural traits for two National Ecological Observatory Network (NEON) Airborne Observatory Platform (AOP) sites. Dataset contains spatial explicit information for 4.5 million trees, and include: Nitrogen (%mass), Phosphorus (%mass), Leaf mass per area (g m<sup>-2</sup>), diameter at breast height (cm), crown area (m2), tree height (m) and other physical topographic variables (Albedo, Elevation, Slope, Aspect). data are associated to the </p>
Inferring the mammal tree: Species-level sets of phylogenies for questions in ecology, evolution, and conservation
Open the record for dataset details and reuse information.
Data and R code for “Individual-level variation in reproductive effort in chestnut oak (Quercus montana Willd.) and black oak (Q. velutina Lam.)”, Forest Ecology and Management, 2022
Masting is a population-level reproductive strategy, where individuals synchronize large but intermittent seed production. Despite the high degree of synchrony at the population level, there can be considerable variation in reproduction among individuals (intraspecific variation). Here, we use 18 years of acorn production data from individual chestnut oak and black oak from control and thinned stands, to understand what factors influence individual differences in reproductive effort and variability. We included a variety of tree-level measurements, environmental characteristics, and measurements from tree cores to determine if certain characteristics were associated variations in reproduction. We considered both mean annual acorn production per m2 crown and interannual variation in acorn production (CV) as response variables. We also classified individuals as super producers (i.e., those that consistently produce more acorns than others), good, fair and poor producers (i.e., those that consistently produce less or have a higher number of failure years). In chestnut oak, 14% of the individuals were classified as super producers and contributed 34% of the total acorns, while poor producers made up 35% of the trees and contributed only 16% to total acorn production. In black oak, super producers (14% of the individuals) contributed 31% of total acorns and poor producers (24% of the individuals) contributed only 9% of the acorns. Diameter at breast height (DBH) was the most consistent variable for explaining intraspecific variation in reproductive effort and variability (i.e., larger individuals had higher mean acorn production for both chestnut oak and black oak, and lower CV for black oak). Other variables that influenced reproduction and variation included elevation and clay content for chestnut oak, and slope for black oak. We found no significant effect from the thinning treatment on acorn production. Our results illustrate how tree-level and environmental characte
Text-fig. 3. SRXTM images of Miranthus elegans gen. et sp. nov.; Mira locality, Portugal. a, b: Volume renderings of flower bud in two different lateral views showing long pedicel, distinct calyx (ca) with almost equiaxial epidermal cells and corolla (co) with nearly smooth surface. c–e: Transverse sections (c, orthoslice xy1500; d, orthoslice xy1760; e, orthoslice xy1850) through flower bud at levels below the anthers showing stamen filaments (yellow) opposite the corolla lobes (co) and smaller staminodes (orange) in Early Flowers Of Primuloid Ericales From The Late Cretaceous Of Portugal And Their Ecological And Phytogeographic Implications
Text-fig. 3. SRXTM images of Miranthus elegans gen. et sp. nov.; Mira locality, Portugal. a, b: Volume renderings of flower bud in two different lateral views showing long pedicel, distinct calyx (ca) with almost equiaxial epidermal cells and corolla (co) with nearly smooth surface. c–e: Transverse sections (c, orthoslice xy1500; d, orthoslice xy1760; e, orthoslice xy1850) through flower bud at levels below the anthers showing stamen filaments (yellow) opposite the corolla lobes (co) and smaller staminodes (orange)
Text-fig. 5. SRXTM images of Miranthus elegans gen. et sp. nov.; Mira locality, Portugal. a, b: Transverse sections of flower (a, orthoslice xy0665 close to the apex of placenta; b, orthoslice xy0800 in middle part of placenta) showing remains of calyx with distinct bundles (arrows), ovary wall (ow) and numerous ovules (ov) on the central mushroom-shaped globose placenta (pl) with central column (cc). c: Transverse section of flower (orthoslice xy0620) through perianth and ovary (ow) at a level above the placenta showing ovules (ov) and cellular preservation of the sepal bundles (arrows shown for one sepal); note abaxial surface of sepals with thick-walled epidermal cells, thick cuticle, and fine pointed verrucae. d: Longitudinal section of flower (orthoslice xz0500) showing perigynous position of calyx and semi-inferior ovary (ow, ovary wall) with a central placenta (pl), central column (cc) and numerous ovules (ov); note spiny verrucae on abaxial surface of calyx lobes. Specimens, Mira 100-S153145 (a, b), Mira 100-S170155 (c, d, holotype). Scale bars = 600 µm (a–d). in Early Flowers Of Primuloid Ericales From The Late Cretaceous Of Portugal And Their Ecological And Phytogeographic Implications
Text-fig. 5. SRXTM images of Miranthus elegans gen. et sp. nov.; Mira locality, Portugal. a, b: Transverse sections of flower (a, orthoslice xy0665 close to the apex of placenta; b, orthoslice xy0800 in middle part of placenta) showing remains of calyx with distinct bundles (arrows), ovary wall (ow) and numerous ovules (ov) on the central mushroom-shaped globose placenta (pl) with central column (cc). c: Transverse section of flower (orthoslice xy0620) through perianth and ovary (ow) at a level above the placenta showing ovules (ov) and cellular preservation of the sepal bundles (arrows shown for one sepal); note abaxial surface of sepals with thick-walled epidermal cells, thick cuticle, and fine pointed verrucae. d: Longitudinal section of flower (orthoslice xz0500) showing perigynous position of calyx and semi-inferior ovary (ow, ovary wall) with a central placenta (pl), central column (cc) and numerous ovules (ov); note spiny verrucae on abaxial surface of calyx lobes. Specimens, Mira 100-S153145 (a, b), Mira 100-S170155 (c, d, holotype). Scale bars = 600 µm (a–d).
Fig. 1 in The nutritional ecology of Dectes texanus (Coleoptera: Cerambycidae): Does host choice affect the macronutrient levels in overwintering larvae?
Fig. 1. The mean (± SE) A) head capsule width, B) wet mass, C) levels of protein per unit mass, D) levels of carbohydrates per unit mass, and E) levels of lipids per unit mass in larvae from sunflower (Sun) and soybean (Soy) plant hosts. An asterisk indicates that the levels are significantly different.
Fig. 3 in Ecological, parasitological and individual determinants of plasma neopterin levels in a natural mandrill population
Fig. 3. Plasma neopterin concentrations (raw values) in relation to P. Gonderi parasitaemia in adult males.
Fig. 1 in Ecological, parasitological and individual determinants of plasma neopterin levels in a natural mandrill population
Fig. 1. Plasma neopterin concentrations (raw values) in relation to individual sex. The bottom and top of the box respectively represent the 25th and 75th quartiles, and the bold horizontal line the median. Whiskers show the interquartile range. Open squares indicate the mean of the distribution. Comparisons are denoted by "*" if significant.
Using genomics to guide seed-sourcing at the right taxonomical level for ecological restoration projects: the complex case of Carex bigelowii s.lat. in Norway
<p>There is a growing demand for ecological restoration using suitable seeds following international standards or national legal demands for local seed-sourcing. However, before selecting the appropriate geographic origin of seeds, it is vital to explore taxonomic complexity related to the focal taxa. We used ddRAD-seq to screen genomic diversity within <i>Carex bigelowii</i> s.lat. focussing on Norway. This species complex is considered a candidate for seeding, but presents considerable morphological, ecological, and genetic variation. The genetic structure of 132 individuals of <i>C</i>. <i>bigelowii</i> s.lat., including <i>C</i>. <i>nigra</i> as an outgroup, was explored using ordinations, clustering analyses, and a genetic barrier algorithm. Two highly divergent clusters were evident, supporting the recognition of two taxonomic units '<i>C</i>. <i>dacica</i>' and 'subsp. <i>bigelowii</i>'. Previously defined seed-sourcing regions for <i>C</i>. <i>bigelowii</i> s.lat. did not consider the known taxonomic complexity, and therefore interpreted the overall genetic structure as seed-sourcing regions, not taxa. We estimated genetic neighbourhood sizes within each taxon to be 100-150 km and 300 km, respectively, indicating species-specific delimitations of local seed-sourcing regions. Frequent hybrids, local genetic distinctiveness, and suggested ecotypes add complexity to the discussed seed-sourcing regions. Our results show how genomic screening of diversity and structure in a species complex can alleviate the taxonomic impediment, inform practical questions and legal requirements related to seed-sourcing, and together with traditional taxonomic work provide necessary information for a sound management of biodiversity.</p>
Vegetation cover and biodiversity reduce parasite infection in wild hosts across ecological levels and scales
<p><span>Land use changes and biodiversity loss critically disrupt ecosystem functioning and are major drivers of infectious disease outbreaks. <em>Trypanosoma</em> <em>cruzi</em>, the agent of Chagas disease, is a multi-host parasite whose epidemiology has changed due to the expansion of anthropogenic activities over natural areas. We aimed to understand the ecological processes increasing parasite prevalence at the individual, the community and the landscape levels using the largest database on small mammal infection by <em>T. cruzi</em> in Brazil. We applied machine learning techniques and structural equation models to show that allometric traits and the relative abundance of rodents in the community were important predictors of infection risk, followed by variables associated with the landscape environmental </span><span>quality</span><span>. Natural vegetation cover change and the taxonomic and functional dimensions of biodiversity indirectly reduced infection through its effect on the abundance distribution and composition of host communities. According to our findings, approaches to biodiversity conservation and restoration based on the integration of social inclusion and human welfare would contribute to regulating the prevalence of <em>T. cruzi</em> in wild hosts, which may reduce overall transmission risk.</span></p>
Using genomics to guide seed-sourcing at the right taxonomical level for ecological restoration projects: the complex case of Carex bigelowii s.lat. in Norway
Open the record for dataset details and reuse information.
Data from: Are caiman nests microhabitats? Assessing their ecological role across different levels of anthropogenic disturbance
Open the record for dataset details and reuse information.
Vegetation cover and biodiversity reduce parasite infection in wild hosts across ecological levels and scales
Open the record for dataset details and reuse information.
Data from: Which ecological factors influence the level of intraspecific diversity within post-glacial fishes? A case study using Coregonus and Salvelinus
Open the record for dataset details and reuse information.
Genetic and species-level biodiversity patterns are linked by demography and ecological opportunity
<p>The processes that give rise to species richness gradients are not well understood, but may be linked to resource-based limits on the number of species a region can support. Ecological limits placed on regional species richness should also affect population demography, suggesting that these processes could also generate genetic diversity gradients. If true, we might better understand how broad-scale biodiversity patterns are formed by identifying the common causes of genetic diversity and species richness. We develop a hypothetical framework based on the consequences of regional variation in ecological limits set by resource availability and heterogeneity to simultaneously explain spatial patterns of species richness and neutral genetic diversity. Repurposing raw genotypic data spanning 38 mammal species sampled across 801 sites in North America, we show that estimates of genome-wide genetic diversity and species richness share spatial structure. Notably, species richness hotspots tend to harbor lower levels of within-species genetic variation. A structural equation model encompassing eco-evolutionary processes related to resource availability, habitat heterogeneity, and contemporary human disturbance supports the spatial patterns we detect. These results suggest broad-scale patterns of species richness and genetic diversity could both partly be caused by intraspecific demographic and evolutionary processes acting simultaneously across species.</p>
The effects of foraging ecology and allometry on avian skull shape vary across levels of phylogeny
<p>Avian skull shape diversity is classically thought to result from selection for structures that are well-adapted for distinct ecological functions, but recent work has suggested that allometry is the dominant contributor to avian morphological diversity. If true this hypothesis would overturn much conventional wisdom regarding the importance of form-function relationships in adaptive radiations, but it is possible that these results are biased by the low taxonomic levels of the clades that have been studied. Using 3D morphometric data from the skulls of a relatively old and ecologically diverse order of birds, the Charadriiformes (shorebirds and relatives), we found that foraging ecology explains more than two-thirds of the variation in skull shape across the clade. However, we also found support for the hypothesis that skull allometry evolves, contributing more to shape variation at the level of the family than the order. Allometry may provide an important source of shape variation on which selection can act over short time scales, but its potential to evolve complicates generalizations between clades. Foraging ecology remains a better predictor of avian skull shape over macroevolutionary time scales. </p>
Data from: Ecological genomics meets community-level modeling of biodiversity: mapping the genomic landscape of current and future environmental adaptation
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.