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299 results for “niche models”
Data from: Effects of grain size and niche breadth on species distribution modeling
Scale is a vital component to consider in ecological research, and spatial resolution or grain size is one of its key facets. Species distribution models (SDMs) are prime examples of ecological research in which grain size is an important component. Despite this, SDMs rarely explicitly examine the effects of varying the grain size of the predictors for species with different niche breadths. To investigate the effect of grain size and niche breadth on SDMs, we simulated four virtual species with different grain sizes/niche breadths using three environmental predictors (elevation, aspect, and percent forest) across two real landscapes of differing heterogeneity in predictor values. We aggregated these predictors to seven different grain sizes and modeled the distribution of each of our simulated species using MaxEnt and GLM techniques at each grain size. We examined model accuracy using the AUC statistic, Pearson's correlations of predicted suitability with the true suitability, and the binary area of presence determined from suitability above the maximum True Skill Statistic (TSS) threshold. Habitat specialists were more accurately modeled than generalist species, and the models constructed at the grain size from which a species was derived generally performed the best. The accuracy of models in the homogenous landscape deteriorated with increasing grain size to a greater degree than models in the heterogenous landscape. Variable effects on the model varied with grain size, with elevation increasing in importance as grain size increased while aspect lost importance. The area of predicted presence was drastically affected by grain size, with larger grain sizes over predicting this value by up to a factor of 14. Our results have implications for species distribution modeling and conservation planning, and we suggest more studies include analysis of grain size as part of their protocol.
Figure 4 in Conservation gaps identification through patterns of species richness established from species niche models of mammals in a sector of Chaco Seco ecoregion
Figure 4. Response graphs of habitat suitability (ordinate axis) according to the explanatory variables that intervened in the adjustment of the model for brown brocket deer (A, B, C). The temperature is expressed in degrees Celsius.Source of bioclimatic variables (bio), site https://www.worldclim.org/data/bioclim.html.
Figure 8 in Conservation gaps identification through patterns of species richness established from species niche models of mammals in a sector of Chaco Seco ecoregion
Figure 8. Species richness maps obtained using three algorithms, (A) "fuzzy union″, (B) "species richness″ and (C) "total beta″.
Figure 7 in Conservation gaps identification through patterns of species richness established from species niche models of mammals in a sector of Chaco Seco ecoregion
Figure 7. Response graphs of habitat suitability (ordinate axis) according to the explanatory variables that intervened in theadjustment of themodel for collared peccary (A,B, C).Temperature is expressed in degrees Celsius and altitude in meters.Source of bioclimatic variables (bio), site https://www.worldclim.org/data/bioclim.html.
Telemetry data from: Realized thermal niche approach eliminates temperature bias in 3 bioenergetic model estimates
<h4>Raw data for Ivanova et al paper in Ecology and Evolution</h4><p>Datafile is an .rds file.</p>
Paleobiogeographic insights gained from ecological niche models: progress and continued challenges
<p>The spatial distribution of individuals within ecological assemblages, and their associated traits and behaviors, are key determinants of ecosystem structure and function. Consequently, determining the spatial distribution of species, and how distributions influence patterns of species richness across ecosystems today and in the past, helps us understand what factors act as fundamental controls on biodiversity. Here, we explore how ecological niche modeling has contributed to understanding the spatiotemporal distribution of past biodiversity, and past ecological and evolutionary processes. We first perform a semi-quantitative literature review to capture studies that applied ecological niche models (ENMs) in the past, identifying 668 studies. We coded each study according to focal taxonomic groups and whether and how the study used fossil evidence, whether it relied on evidence or methods in addition to ENMs, and spatial scale and temporal intervals. We used trends in publication patterns across categories to anchor discussion of recent technical advances in niche modeling, focusing on paleobiogeographic ENM applications. We then explored the contributions of ENMs to paleobiogeography, with a particular focus on examining patterns and associated drivers of range dynamics; phylogeography and within-lineage dynamics; macroevolutionary patterns and processes, including niche change, speciation, and extinction; drivers of community assembly; and conservation paleobiogeography. Overall, ENMs are powerful tools for elucidating paleobiogeographic patterns. ENMs are most commonly used to understand Quaternary dynamics, but an increasing number of studies use ENMs to gain important insight into both ecological and evolutionary processes in pre-Quaternary times. Deeper integration with traits and phylogenies may further extend those insights.</p>
Data from: Sequential use of niche and occupancy models identifies conservation and research priority areas for two data-poor endemic birds from the Colombian Andes
<p>The lack of high-quality information on data-poor species can hinder efforts to inform conservation actions via spatial distribution modeling. This is particularly true for tropical birds of conservation concern, for which ecological studies and assessments of their conservation status have received limited funding. Here we use a cost- and time-efficient protocol for assessing the distribution of range-restricted taxa and to identify priority areas for their conservation based on a sequential application of Environmental Niche Models (ENMs) and Occupancy-Detection Models. This approach first uses available geographical information and niche-theory to prioritize potential study sites, which can later be surveyed to obtain high-quality presence-absence data to accurately model distributional ranges with limited resources. We apply this protocol to identify priority areas for two Neotropical birds of conservation concern endemic to the Colombian Andes: Yellow-headed Brush-finch (<i>Atlapetes flaviceps</i>) and Tolima Dove (<i>Leptotila conoveri</i>). We first fitted ENMs using spatially-filtered datasets containing all available records up to 2018. We then conducted field surveys across climatically suitable areas identified for both species, carrying out a total of 1750 counts to generate input data for the occupancy models. Overall, our results suggested more extended and more continuous distribution ranges for both species than previously reported, but also identified population strongholds that are not currently represented within the national protected areas system. Both species occupied a narrow elevational belt (~1300–2600) of the Central Andes of Colombia primarily on the slopes of the Magdalena River valley, with isolated populations in the Western and Eastern Andes; these areas have undergone some of the most marked landscape transformations in Colombia. This straightforward protocol maximizes available information and minimizes costs, while allowing for estimation of occurrence probabilities for range-restricted, data-poor taxa.</p>
Evidence for niche conservatism in alpine beetles under a climate-driven species pump model
<p>Aim</p> <p>Past glacial climate cycles have generated lineage diversity in alpine habitats, acting as a climate-driven species pump. It is not clear how much this process contributes to ecological diversification of alpine species. To examine this problem, we test patterns of genetic and phenotypic divergence in two co-distributed species complexes of flightless alpine ground beetles. Greater differentiation in ecologically-important functional traits would indicate that ecological selection is an outcome of oscillating climate change, whereas greater differentiation in non-ecological traits would indicate niche conservatism.</p> <p>Location</p> <p>The Cascades Range and Trinity Mountains of western North America.</p> <p>Taxon</p> <p>Members of the <i>Nebria paradisi</i> and <i>N. vandykei</i> species complexes (Insecta: Coleoptera: Carabidae: Nebriinae)</p> <p>Methods</p> <p>We generated genome-wide single nucleotide polymorphism data and mitochondrial sequence data, as well as morphological and physiological data, to compare populations spanning the range of both species. Phylogenetic and population genetic analyses were used to infer the relationships among taxa and populations within each species complex, as well as historical population demography. Support vector machines were used to test for classification of taxa and populations based on ecomorphological, ecophysiological, and male reproductive traits. Mantel tests were then used to assess statistical associations between phenotypic and genetic divergence among populations.</p> <p>Results</p> <p>The <i>N. vandykei</i> and <i>N. paradisi</i> species complexes are each comprised of genetically distinctive populations exhibiting long-term demographic declines. Each phylogeny supports multiple monophyletic groups with geographical cohesion. By examining phenotypic traits among populations in both species' complexes, we show that reproductive trait divergence can discriminate species and population status more effectively than ecomorphological or ecophysiological traits. Reproductive and genetic divergence are significantly correlated in the <i>N. vandykei</i> species complex.</p> <p>Main Conclusions</p> <p>We found limited evidence of ecological selection acting on functional traits. Instead, reproductive and genetic divergence evolved among isolated populations in both species complexes, suggesting niche conservatism may be a common outcome in alpine species diversification.</p>
Fig. 11 in Modelling The Bioclimatic Niche Of A Cohort Of Selected Mite Species (Acari, Acariformes) Associated With The Infestation Of Stored Products
Fig. 11. Response of Gl. domesticus to maxTempColdestMonth.
Fig. 10 in Modelling The Bioclimatic Niche Of A Cohort Of Selected Mite Species (Acari, Acariformes) Associated With The Infestation Of Stored Products
Fig. 10. Response of L. destructor to continentality.
Fig. 6 in Modelling The Bioclimatic Niche Of A Cohort Of Selected Mite Species (Acari, Acariformes) Associated With The Infestation Of Stored Products
Fig. 6. Response of Gl. domesticus to PETcoldQ.
Fig. 8 in Modelling The Bioclimatic Niche Of A Cohort Of Selected Mite Species (Acari, Acariformes) Associated With The Infestation Of Stored Products
Fig. 8. Response of L. destructor to aridityIndexThornthwaite.
Fig. 7 in Modelling The Bioclimatic Niche Of A Cohort Of Selected Mite Species (Acari, Acariformes) Associated With The Infestation Of Stored Products
Fig. 7. Response of A. siro to aridityIndexThornthwaite.
Fig. 5 in Modelling The Bioclimatic Niche Of A Cohort Of Selected Mite Species (Acari, Acariformes) Associated With The Infestation Of Stored Products
Fig. 5. Response of L. destructor to PETcoldQ.
Fig. 4 in Modelling The Bioclimatic Niche Of A Cohort Of Selected Mite Species (Acari, Acariformes) Associated With The Infestation Of Stored Products
Fig. 4. Response of A. siro to PETcoldQ.
Fig. 3 in Modelling The Bioclimatic Niche Of A Cohort Of Selected Mite Species (Acari, Acariformes) Associated With The Infestation Of Stored Products
Fig. 3. Average monthly relative humidity.
Fig. 2 in Modelling The Bioclimatic Niche Of A Cohort Of Selected Mite Species (Acari, Acariformes) Associated With The Infestation Of Stored Products
Fig. 2. Average monthly precipitation.
Fig.1 in Modelling The Bioclimatic Niche Of A Cohort Of Selected Mite Species (Acari, Acariformes) Associated With The Infestation Of Stored Products
Fig.1. Average monthly temperature.
Fig. 9 in Modelling The Bioclimatic Niche Of A Cohort Of Selected Mite Species (Acari, Acariformes) Associated With The Infestation Of Stored Products
Fig. 9. Response of Gl. domesticus to aridityIndexThornthwaite.
Fig. 5 in Using Ecological Niche Modeling For Biodiversity Conservation Guidance In The Western Podillya (Ukraine): Amphibians
Fig. 5. Summarized species richness map (see text for explanation).
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.