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.
105
datasets available to search
ShareScore release 0.9.0
Dataset results
105 results for “Yellowstone”
Fish carcass deposition to suppress invasive lake trout through hypoxia causes limited, non-target effects on benthic invertebrates in Yellowstone Lake
Open the record for dataset details and reuse information.
Data from: Multi-level thresholds of residential and agricultural land use for elk avoidance across the Greater Yellowstone Ecosystem
Open the record for dataset details and reuse information.
Yellowstone Upper Basin Geyser binary eruption data (April 2007- October 2008; revised)
Open the record for dataset details and reuse information.
Data from: Multiple estimates of effective population size for monitoring a long-lived vertebrate: an application to Yellowstone grizzly bears
Open the record for dataset details and reuse information.
Code for: A metapopulation model of social group dynamics and disease applied to Yellowstone wolves
Open the record for dataset details and reuse information.
Data from: Harvest of transboundary gray wolves from Yellowstone National Park is largely additive
Open the record for dataset details and reuse information.
Data from: Yellowstone bison—should we preserve artificial population substructure or rely on ecological processes?
Halbert et al. (2012) analyzed microsatellite genotypes collected from 661 Yellowstone bison sampled during winters from 1999 through 2003 and identified 2 genetically distinct subpopulations (central, northern) based on genotypic diversity and allelic distributions. Based on these findings, they raised concerns about the management and long-term conservation of Yellowstone bison due to disproportionate culling of the 2 subpopulations in some winters. The data and findings of Halbert et al. (2012) are significant and useful for managers charged with conserving these iconic wildlife. However, their article provides information regarding the behavior and management of Yellowstone bison that does not accurately portray historic or current conditions. This response clarifies those conditions and challenges some of their apparent deductions and recommendations.
Data from: Twenty-four years after the Yellowstone fires: are postfire lodgepole pine stands converging in structure and function?
Disturbance and succession have long been of interest in ecology, but how landscape patterns of ecosystem structure and function evolve following large disturbances is poorly understood. After nearly 25 years, lodgepole pine (Pinus contorta var. latifolia) forests that regenerated after the 1988 Yellowstone Fires (Wyoming, USA) offer a prime opportunity to track the fate of disturbance-created heterogeneity in stand structure and function in a wilderness setting. In 2012, we resampled 72 permanent plots to ask (1) How have postfire stand structure and function changed between 11 and 24 yr postfire, and what variables explain these patterns and changes? (2) How has landscape-level (among-stand) variability in postfire stand structure and function changed between 11 and 24 yr postfire? We expected to see evidence of convergence beginning to emerge, but also that initial postfire stem density would still determine trajectories of biomass accumulation. After 24 yr, postfire lodgepole pine density remained very high (mean = 21,738 stems ha−1, range = 0 to 344,067 stems ha−1). Stem density increased in most plots between 11 and 24 yr postfire, but declined sharply where 11-yr-postfire stem density was > 72,000 stems ha−1. Stems were small in high-density stands, but stand-level lodgepole pine leaf area, foliage biomass, and live aboveground biomass increased over time and with increasing stem density. After 24 yr, mean annual lodgepole pine aboveground net primary production (ANPP) was high (mean = 5 Mg ha−1 yr−1, range = 0 to 16.5 Mg ha−1 yr−1). Among stands, lodgepole pine ANPP increased with stem density, which explained 69% of the variation; another 8% of the variation was explained by environmental covariates. Early patterns of postfire lodgepole pine regeneration, which were contingent on prefire serotiny and fire severity, remained the dominant driver of stand structure and function. We observed mechanisms that would lead to convergence in stem density (structure) over time, but it was landscape variation in functional variables that declined substantially. Stand structure and function have not converged across the burned landscape, but our evidence suggests function will converge sooner than structure.
Data from: Density-dependent intraspecific aggression regulates survival in northern Yellowstone wolves (Canis lupus)
1. Understanding the population dynamics of top predators is essential to assess their impact on ecosystems and to guide their management. Key to this understanding is identifying the mechanisms regulating vital rates. 2. Determining the influence of density on survival is necessary to understand the extent to which human-caused mortality is compensatory or additive. In wolves (Canis lupus), empirical evidence for density-dependent survival is lacking. Dispersal is considered the principal way in which wolves adjust their numbers to prey supply or compensate for human exploitation. However, studies to date have primarily focused on exploited wolf populations, in which density-dependent mechanisms are likely weak due to artificially low wolf densities. 3. Using 13 years of data on 280 collared wolves in Yellowstone National Park, we assessed the effect of wolf density, prey abundance and population structure, as well as winter severity, on age-specific survival in two areas (prey-rich vs. prey-poor) of the national park. We further analysed cause-specific mortality and explored the factors driving intraspecific aggression in the prey-rich northern area of the park. 4. Overall, survival rates decreased during the study. In northern Yellowstone, density-dependence regulated adult survival through an increase in intraspecific aggression, independent of prey availability. In the interior of the park, adult survival was less variable and density-independent, despite reduced prey availability. There was no effect of prey population structure in northern Yellowstone, nor of winter severity in either area. Survival was similar among yearlings and adults, but lower for adults older than 6 years. 5. Our results indicate that density-dependent intraspecific aggression is a major driver of adult wolf survival in northern Yellowstone, suggesting intrinsic density-dependent mechanisms have the potential to regulate wolf populations at high ungulate densities. When low prey availability or high removal rates maintain wolves at lower densities, limited inter-pack interactions may prevent density-dependent survival, consistent with our findings in the interior of the park.
Lemonade Creek, Yellowstone National Park, USA - Microbial Community Analysis - Genome and Transcriptome Data
<p>Genome and Transcriptome data used for analysis of microbial community function over a diurnal cycle in Lemonade Creek, Yellowstone National Park, USA.</p> <p> </p> <p><code>mags.tar</code> Non-redundant metagenome data (genome assemblies, predicted genes, and gene functional annotations).</p> <p> </p> <p>In each directory are the the following files:</p> <p>- <code>*.mRNA.faa</code> protein sequences of protein-coding genes</p> <p>- <code>*.mRNA.fna</code> nucleotide sequences of protein-coding genes</p> <p>- <code>*.mRNA.gff3</code> genomic location of protein-coding genes</p> <p>- <code>*.mRNA.emapper.tsv</code> eggNOG-mapper annotations for the protein-coding genes</p> <p>- <code>*.mRNA.interproscan.gff3</code> InterProScan annotations for the protein-coding genes</p> <p> </p> <p>In the <code>prokaryote</code> directory there are the following files:</p> <p>- <code>*.rRNA.fna</code> nucleotide sequences of rRNA genes</p> <p>- <code>*.rRNA.gff3</code> genomic location of rRNA genes</p> <p>- <code>*.tRNA.fna</code> nucleotide sequences of tRNA genes</p> <p>- <code>*.tRNA.gff3</code> genomic location of tRNA genes</p> <p>- <code>*.other.fna</code> nucleotide sequences of other genes (i.e., CRISPR, ncRNA, oriC, regulatory_region, repeat_region, tmRNA - if any were predicted)</p> <p>- <code>*.other.gff3</code> genomic location of other genes</p> <p> </p> <p><strong>Eukaryotes</strong></p> <p>Five MAGs from other eukaryotes that were assembled from a coassembly of the Soil samples.</p> <p> </p> <p><strong>Prokaryotes</strong></p> <p>The final dereplicated prokaryote MAGs (at 95% ID). The two <code>*stats*</code> files list the taxonomic information (from <code>GTDB-Tk</code>), completeness (from <code>CheckM</code>), and assembly stats (from the <code>stats.sh</code> script from the <code>bbmap</code> package) for each of the prokaryotic MAGs + the number of predicted protein-coding and non-protein-coding genes predicted in each MAG.</p> <p> </p> <p><strong>Viruses</strong></p> <p>The final dereplicated viral MAGs and vOTUs.</p> <p> </p> <p> </p> <p> </p> <p><code>read_mapping.tar</code> Abundance results from metagenome and metatranscriptome read mapping analysis against the non-redundant metagenome data and predicted genes (respectively). This analysis includes the cyanidiophyceae reference nuclear and organelle genomes.</p> <p> </p> <p><strong>mags</strong></p> <p>Results from <code>bbmaps</code> alignment of metagenome reads against a database of non-redudant metagenome MAGs + cyanidiophyceae reference nuclear and organelle genomes. <code>CoverM</code> was used to calculate MAG abundances.</p> <p> </p> <p><strong>genes</strong></p> <p><code>Salmon</code> abundance quantification of PolyA and RiboMinus metatranscriptome reads mapped against the predicted genes in the non-redudant metagenome MAGs + cyanidiophyceae reference nuclear and organelle genomes.</p>
Feast or famine: How is global change affecting forage supply for Yellowstone's ungulate herds?
<p>The ecological integrity of US national parks and other protected areas are under threat in the Anthropocene. For Yellowstone National Park (YNP), the impacts that global change has already had on the park's capacity to sustain its large migratory herds of wild ungulates is incompletely understood. Here we examine how two understudied components of global change, the historical increase in atmospheric CO2 and the spread of non-native, invasive plant species, may have altered the capacity of YNP to provide forage for ungulates over the last 200-plus years. We performed two experiments: (1) a growth chamber study that determined growth rates of important invasive and native YNP grasses that are forages for ungulates under pre-industrial (280 ppm) vs modern (410 ppm) CO2 levels, and (2) a field study that compared the effect of defoliation (clipping) on shoot growth of invasive and native mesic grassland plants under ambient CO2 conditions in 2019. The growth chamber experiment revealed that modern CO2 increased the growth rates of both invasive and native grasses, and invasive grasses grew faster regardless of CO2 conditions. The field results showed a continuum of positive to negative responses of shoot growth to defoliation, with a subgroup of invasive species responding most positively. Together the results indicated that the historical increase in CO2 and the spread of invasive species, some of which were planted to provide forage for ungulates in the early- and mid-1900s, have likely increased the capacity of forage production in YNP. However, rising CO2 has also resulted in regional warming and increased aridity in YNP, which will likely reduce grassland productivity. The challenge for global change biologists and park managers is to determine how competing components of global change have already and will increasingly affect forage dynamics and the sustainability of Yellowstone's iconic ungulate herds in the Anthropocene.</p>
FIGURE. FISH karyotype pattern diagram of 8 diploid hyacinth cultivars a.'Gypsy Queen'; b.'Purple sensation' c.'Pink pearl' d.'Gypsy princess' e.'Blue pearl' f.'Odysseus' g.'Yellowstone' h.'Red pearl' Red point: 45S rDNA loci; Green point: 45S rDNA loci; Yellow point: ITR sites in Physical mapping of 45S and 5S rDNA and telomeric repeat loci in eight diploid hyacinth cultivars
FIGURE. FISH karyotype pattern diagram of 8 diploid hyacinth cultivars a.'Gypsy Queen'; b.'Purple sensation' c.'Pink pearl' d.'Gypsy princess' e.'Blue pearl' f.'Odysseus' g.'Yellowstone' h.'Red pearl' Red point: 45S rDNA loci; Green point: 45S rDNA loci; Yellow point: ITR sites
Data from: Interactions among herbivory, climate, topography, and plant age shape riparian willow dynamics in northern Yellowstone National Park, USA
Understanding how the environmental context modifies the strength of trophic interactions within food webs forms a central challenge in community ecology. Here, we demonstrate the necessity of considering the influence of climate, landscape heterogeneity and demographics for understanding trophic interactions in a well-studied food web in Yellowstone National Park, USA. We studied riparian willow (Salix spp.) establishment and stem growth reconstructed from tree rings on the northern range of Yellowstone over a 30-year period that included the reintroduction of a top-predator, the gray wolf (Canis lupus). We used climate variables (annual precipitation, stream flow, and growing season length), herbivore abundance, and landscape descriptors (elevation and topographic wetness index) to predict establishment and growth processes through time before and after the introduction of wolves. We fitted Bayesian hierarchical models to establishment data and time series of individual stem heights from 1980 to 2008. Explaining variability in establishment required models with stream flow, annual precipitation, and elk abundance. Climate, trophic, and landscape covariates interacted with stem age to determine stem height and growth rate through time. Growth rates of most stems ages (2+) declined after the reintroduction of wolves. However, stem growth rates naturally declined with age, and the decline we observed was coincident with faster growth rates for the youngest stems. Mean stem heights at age have remained relatively stable through time for most age classes. Estimated effects of landscape topography had approximately the same magnitude of effect on stem growth rate at age as elk abundance. Synthesis: We show that the effects of modification of a food web cannot be predicted by studying trophic dynamics in isolation. No single driver explained patterns of willow establishment and growth over the past three decades in Yellowstone. Instead, interactions among trophic forces, interannual climate variability and landscape topography together shaped how the ecosystem responded to perturbations. Top-down effects of ungulates on riparian woody vegetation must be considered in the context of plant age, and climate and landscape heterogeneity.
Data from: Multiple anthropogenic interventions drive puma survival following wolf recovery in the Greater Yellowstone Ecosystem
Humans are primary drivers of declining abundances and extirpation of large carnivores worldwide. Management interventions to restore biodiversity patterns, however, include carnivore reintroductions, despite the many unresolved ecological consequences associated with such efforts. Using multistate capture-mark-recapture models, we explored age-specific survival and cause-specific mortality rates for 134 pumas (Puma concolor) monitored in the Greater Yellowstone Ecosystem during gray wolf (Canis lupus) recovery. We identified two top models explaining differences in puma survivorship, and our results suggested three management interventions (unsustainable puma hunting, reduction of a primary prey, reintroduction of a dominant competitor) have unintentionally impacted puma survival. Specifically, puma survival across age classes was lower in the 6-month hunting season than the 6-month non-hunting season; human-caused mortality rates for juveniles and adults, and predation rates on puma kittens, were higher in the hunting season. Predation on puma kittens, and starvation rates for all pumas, also increased as managers reduced elk (Cervus elaphus) abundance in the system, highlighting direct and indirect effects of competition between recovering wolves and pumas over prey. Our results emphasize the importance of understanding the synergistic effects of existing management strategies and the recovery of large, dominant carnivores to effectively conserve subordinate, hunted carnivores in human-dominated landscapes.
Mantle transition zone topography and low-velocity zone locations in the Yellowstone Region
<p>Earth's mantle transition zone (MTZ) is a possible global water reservoir and may be responsible for long-term (~100 Ma) ocean-mass regulation. Estimates of water capacities in MTZ minerals are ~1 wt%, far greater than that of rocks of the surrounding mantle. When water-rich material is displaced from the MTZ, partial melting occurs, generating a sharp reduction in seismic velocities detectable with seismic receiver functions (RFs). We estimated RFs for the MTZ beneath the Yellowstone region using earthquakes recorded by ~200 stations of the Earthscope Transportable Array. We found many LVZs both above and below the MTZ, consistent with water release upon phase transformation of hydrated MTZ rock into upper- and lower-mantle mineral assemblages with low water capacities. The locations of LVZs are consistent with mid-mantle flow induced by descent of a Farallon-slab fragment and ascent of the deeply-rooted Yellowstone plume as imaged by seismic tomography.</p>
Geophysical data collected at Obsidian Pool Thermal Area, Yellowstone National Park, in 2015-2016
<p>Geophysical data (EMI, GTEM, Seismic, Resistivity) collected over Obsidian Pool Thermal Area, Yellowstone National Park, in 2015 and 2016.</p>
Data from: State-space modeling to support management of brucellosis in the Yellowstone bison population
Open the record for dataset details and reuse information.
Data from: Twenty-four years after the Yellowstone fires: are postfire lodgepole pine stands converging in structure and function?
Open the record for dataset details and reuse information.
Data from: The genetics of extreme microgeographic adaptation: an integrated approach identifies a major locus underlying leaf trichome divergence in Yellowstone Mimulus guttatus
Open the record for dataset details and reuse information.
Data from: Multiple anthropogenic interventions drive puma survival following wolf recovery in the Greater Yellowstone Ecosystem
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.