cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.14288/1.0402330
title: Data for non-target interactions and humaneness evaluation on a captive-bolt trap for commensal rodents

description: The Goodnature® A24 automatic rat trap is a self-resetting captive-bolt trap powered by pressurized CO2. Little research has examined the humaneness of the trap or its potential to harm non-target mammals and birds. This study aimed to identify potential risks to non-target animals. 17 traps, each paired with a motion-activated video camera, were deployed at two sites where rodents were present. In a nine-week study, traps were baited but not activated, and a blocking device (“blocker”) was used in a cross-over design to evaluate its potential at reducing non-target strikes. Once the researchers were confident in avoiding non-target strikes, the traps were activated and recorded for 19 weeks across two different locations to evaluate humaneness. Surprisingly, only 11 trap triggers and eight kills were observed across the two locations. The eight observed kills included 3 house mice, 4 deer mice, and 1 grey squirrel. The Goodnature® A24 traps presented low risks to non-target animals, and the use of blockers effectively removed the risks to the common non-target species with the exception of one shrew in Study 1 and one squirrel in Study 2.
DOI: 10.14288/1.0403695
title: Replication Data for: The effects of cow dominance on the use of a mechanical brush

description: An animal’s social position within a group can influence its ability to access essential resources such as food or a lying area, but little is known about how social position affects the ability to express what are arguably less important but still rewarding behaviors, such as grooming. We set out to assess if dominance measured at the feeder is associated with increased use of a mechanical brush. Over a 2-year period, 161 dry cows were enrolled in a dynamically changing group of 20 individuals with access to a mechanical brush. We determined dominance using agonistic behaviors at the feeder and retrospectively analyzed brush use for the 12 most, and 12 least dominant individuals during the week before calving. Cows that were more dominant at the feeder used the brush more, especially during peak feeding times. Agonistic interactions at the brush did not differ between dominants and subordinates and were not related to brushing duration. These findings indicate that social position, calculated using competition for feed, affects mechanical brush access such that subordinates use the brush less than dominant cows independent of competition or time of day.
DOI: 10.14288/1.0401972
title: Investigating the impact of habitat fragmentation on woodland caribou (Rangifer tarandus) in British Columbia

description: The purpose of this project was to map varying qualities of woodland caribou habitat in BC and quantify fragmentation of different habitat classes between 1985 and 2018. Woodland caribou populations in British Columbia are in steep decline despite extensive intervention efforts by the BC and Canadian Governments. The main drivers behind woodland caribou decline are habitat loss and increased predation. Caribou rely on large, contiguous tracts of mature forest to forage for lichens in the winter, raise their young in the spring, and as protection from predation. Disturbances such as timber harvests, wildfires, and human development fragment these patches, and the young forests and open areas left behind draw deer and moose to the area, exposing caribou to predation. Linear features such as roads, power lines, pipelines, and recreational trails create additional corridors which are used by predators to more easily access caribou herds. By measuring forest fragmentation in caribou herd ranges using landscape metrics, I was able to determine how the landscape configuration and composition in several herd ranges have changed between 1985 and 2018 and compare it to the long-term population trends of those herds. Four herd ranges across British Columbia – Barkerville, Wells Gray, Muskwa, and Carcross – were assessed for road density and habitat suitability for the two time points using a habitat suitability model with slope, biogeoclimatic ecosystem classification (BEC) zone, land cover, and stand age as parameters. Using eight landscape metrics, I was able to quantify the extent of fragmentation between the time points. All herds experienced an increase in road density and overall loss of low and medium-quality habitat. Composition and configuration changes in the high-quality landscapes were variable and ultimately did not strongly correlate with long-term population trends. Integration of cervid habitat suitability was determined to be a critical area for further research.
DOI: 10.14288/1.0402156
title: Multispecies modelling reveals potential for habitat restoration to re-establish boreal vertebrate community dynamics

description: &lt;b&gt;Abstract&lt;/b&gt;&lt;br/&gt;&lt;p&gt;1. The restoration of habitats degraded by industrial disturbance is essential for achieving conservation objectives in disturbed landscapes. In boreal ecosystems, disturbances from seismic exploration lines and other linear features have adversely affected biodiversity, most notably leading to declines in threatened woodland caribou. Large-scale restoration of disturbed habitats is needed, yet empirical assessments of restoration effectiveness on wildlife communities remain rare.&lt;/p&gt; &lt;p&gt;2. We used 73 camera trap deployments from 2015-2019 and joint species distribution models to investigate how habitat use by the larger vertebrate community (&gt;0.2 kg) responded to variation in key seismic line characteristics (line-of-sight, width, density and mounding) following restoration treatments in a landscape disturbed by oil and gas development in northeastern Alberta.&lt;/p&gt; &lt;p&gt;3. The proportion of variation explained by line characteristics was low in comparison to habitat type and season, suggesting short-term responses to restoration treatments were relatively weak. However, we predicted that lines with characteristics consistent with restored conditions would support altered community composition, with reduced use by wolf and coyote, thereby indicating that line restoration will result in reduced contact rates between caribou and these key predators.&lt;/p&gt; &lt;p&gt;4. Our analysis provides a framework to assess and predict wildlife community responses to emerging restoration efforts. With the growing importance of habitat restoration for caribou and other vertebrate species, we recommend longer-term monitoring combined with landscape-scale comparisons of different restoration approaches to more fully understand and direct these critical conservation investments. Only by combining rigorous multispecies monitoring with large-scale restoration will we effectively conserve biodiversity within rapidly changing environments.&lt;/p&gt;
DOI: 10.14288/1.0402753
title: Data for: An analysis of neuroscience and psychiatry papers published from 2009 and 2019 outlines opportunities for increasing discovery of sex differences

description: This data supplements our publication "Harnessing the Power of Sex Differences: What a Difference Ten Years Did Not Make" which examined sex bias in neuroscience. This study looked at 6 different journals across 2 years (2009 and 2019) and investigated how neuroscience papers were using (or failing to use) sex and gender in their studies and analyses. This dataset contains an Excel file with data for each figure/table in a separate sheet, labelled ‘Source Data’, as well as all the data collected in a CSV file.
DOI: 10.14288/1.0402657
title: Dataverse Video Tutorials~CoLab Dataverse Instructions

description: Video tutorials on open data and how to navigate and use the Sepsis CoLab's Dataverse.
DOI: 10.14288/1.0402565
title: Data from: Genome-wide investigation of the multiple origins hypothesis for deep-spawning kokanee salmon (Oncorhynchus nerka) across its pan-Pacific distribution

description: &lt;b&gt;Abstract&lt;/b&gt;&lt;br/&gt;&lt;p&gt;Salmonids have emerged as important study systems for investigating molecular processes underlying parallel evolution given their tremendous life history variation. Kokanee, the resident form of anadromous sockeye salmon (&lt;i&gt;Oncorhynchus nerka&lt;/i&gt;), have evolved multiple times across the species’ pan-Pacific distribution, exhibiting multiple reproductive ecotypes including those that spawn in streams, on lake-shores, and at lake depths &gt;50 meters. The latter has only been detected in five locations in Japan and British Columbia, Canada. Here, we investigated the multiple origins hypothesis for deep-spawning kokanee, using 9,721 SNPs distributed across the genome analyzed for the vast majority of known populations in Japan (Saiko Lake) and Canada (Anderson, Seton, East Barrière Lakes) relative to stream-spawning populations in both regions. We detected 397 outlier loci, none of which were robustly identified in paired-ecotype comparisons in Japan and Canada independently. Bayesian clustering and principal components analyses based on neutral loci revealed six distinct clusters, largely associated with geography or translocation history, rather than ecotype. Moreover, a high level of divergence between Canadian and Japanese populations, and between deep- and stream-spawning populations regionally, suggest the deep-spawning ecotype independently evolved on the two continents. On a finer level, Japanese kokanee populations exhibited low estimates of heterozygosity, significant levels of inbreeding, and reduced effective population sizes relative to Canadian populations, likely associated with transplantation history. Along with preliminary evidence for hybridization between deep-spawning and stream-spawning ecotypes in Saiko Lake, these findings should be considered within the context of on-going kokanee fisheries management in Japan.&lt;/p&gt;
DOI: 10.14288/1.0406476
title: Data from: Genome-wide analysis reveals associations between climate and regional patterns of adaptive divergence and dispersal in American pikas

description: &lt;b&gt;Abstract&lt;/b&gt;&lt;br/&gt;&lt;p&gt;Understanding the role of adaptation in species responses to climate change is important for evaluating the evolutionary potential of populations and informing conservation efforts. Population genomics provides a useful approach for identifying putative signatures of selection and the underlying environmental factors or biological processes that may be involved. Here, we employed a population genomic approach within a space-for-time study design to investigate the genetic basis of local adaptation and reconstruct patterns of movement across rapidly changing environments in a thermally-sensitive mammal, the American pika (&lt;i&gt;Ochotona princeps&lt;/i&gt;). Using genotypic data at 49,074 single nucleotide polymorphisms (SNPs), we analyzed patterns of genome-wide diversity, structure, and migration along three independent elevational transects located at the northern extent (Tweedsmuir South Provincial Park, British Columbia, Canada) and core (North Cascades National Park, Washington, USA) of the Cascades lineage. We identified 899 robust outlier SNPs within- and among-transects. Of those annotated to genes with known function, many were linked with cellular processes related to climate stress including ATP-binding, ATP citrate synthase activity, ATPase activity, hormone activity, metal ion-binding, and protein-binding. Moreover, we detected evidence for contrasting patterns of directional migration along transects across geographic regions that suggest an increased propensity for American pikas to disperse among lower elevation populations at higher latitudes where environments are generally cooler. Ultimately, our data indicate that fine-scale demographic patterns and adaptive processes may vary among populations of American pikas, providing an important context for evaluating biotic responses to climate change in this species and other alpine-adapted mammals.&lt;/p&gt;
DOI: 10.14288/1.0406465
title: Plant-pollinator specialization: Origin and measurement of curvature

description: &lt;b&gt;Abstract&lt;/b&gt;&lt;br/&gt;&lt;p&gt;A feature of biodiversity is the abundance of curves displayed by organs and organisms. Curvature is a widespread, convergent trait that has important ecological and evolutionary implications. In pollination ecology, the curvature of flowers and pollinator mouthparts (e.g. hummingbird bills) along the dorsiventral plane has been associated with specialization, competition, and species co-existence. Six methods have historically been used to measure curvature in pollination systems; we provide a solution to this inconsistency by defining curvature using well-established concepts from differential geometry. Intuitively, curvature is the degree to which a line is not straight, but more formally, it is the rate at which the tangent of a curve changes direction with respect to arc length. Here, we establish a protocol wherein a line is fitted against landmarks placed on an image of a curved organ or organism, then curvature is computed at many points along the fitted line and the sum taken. The protocol is demonstrated by studying the development of nectar spur curvature in the flowering plant genus &lt;em&gt;Epimedium&lt;/em&gt; (Berberidaceae). By clarifying the definition of curvature, our aim is to make the language of comparative morphology more precise and broadly applicable to capture other curved structures in nature.&lt;/p&gt;
DOI: 10.14288/1.0406497
title: Rats move nesting materials to create different functional areas: short report

description: Here we documented how rats separate their living space into different functional regions. Five groups of female Sprague Dawley rats were housed in two-caging systems that consisted of two standard cages connected by a tube. Both cages were provided with the same amount of bedding and nesting materials, but only one contained food and water. Nesting cover and weight of each cage were measured once a week for five weeks during cage cleaning. We found that the cages with food and water had 9% less coverage but had gained 90% more weight when compared to cages where food and water were absent. These results indicate that, when provided with separate spaces, rats move nesting materials away from the cage containing food and water sources, but preferentially excrete in cages with water and food.
DOI: 10.14288/1.0406469
title: Disease-driven mass mortality event leads to widespread extirpation and variable recovery potential of a marine predator across the eastern Pacific

description: &lt;b&gt;Abstract&lt;/b&gt;&lt;br/&gt;&lt;p&gt;The prevalence of disease-driven mass mortality events is increasing, but our understanding of spatial variation in their magnitude, timing, and triggers are often poorly resolved. Here, we use a novel range-wide dataset comprised of 48,810 surveys to quantify how Sea Star Wasting Disease affected &lt;i&gt;Pycnopodia&lt;/i&gt; &lt;i&gt;helianthoides&lt;/i&gt;, the sunflower sea star, across its range from Baja California, Mexico to the Aleutian Islands, USA. We found that the outbreak occurred more rapidly, killed a greater percentage of the population, and left fewer survivors in the southern half of the species’ range. &lt;i&gt;Pycnopodia&lt;/i&gt; now appears to be functionally extinct (&gt; 99.2% declines) from Baja California, Mexico to Cape Flattery, Washington, USA and exhibited severe declines (&gt; 87.8%) from the Salish Sea to the Gulf of Alaska. The importance of temperature in predicting &lt;i&gt;Pycnopodia&lt;/i&gt; distribution rose 450% after the outbreak, suggesting these latitudinal gradients may stem from an interaction between disease severity and warmer waters. We found no evidence of population recovery in the years since the outbreak. Natural recovery in the southern half of the range is unlikely over the short-term and assisted recovery will likely be required for recovery in the southern half of the range on ecologically-relevant time scales.&lt;/p&gt;
DOI: 10.14288/1.0402765
title: Data for: Changing Water Resources Under El Niño, Climate Change, and Growing Water Demands in Seasonally Dry Tropical Watersheds

description: This dataset includes hydrological modelling results from a study on the impacts of the El Niño Southern Oscillation (ENSO), climate change, and growing water demands on water resources in the Potrero and Caimital watersheds and aquifer in Guanacaste, Costa Rica (see accompanying paper for details). 1) ENSO_df.csv: contains modelled daily streamflow, evapotranspiration, and groundwater recharge data for 5 ENSO scenarios (extreme La Niña to extreme El Niño). 2) CC_df.csv: contains modeled daily baseline and 4 climate change scenarios (2075-2100) for streamflow, groundwater recharge, groundwater storage, evapotranspiration, and water demand.
DOI: 10.14288/1.0403338
title: Replication Data for: Can Auxiliary Indicators Improve COVID-19 Forecasting and Hotspot Prediction?

description: &lt;p&gt;This dataset contains large files which can be used to reproduce the results in McDonald, D.J., Bien, J., Green, A., Hu, A.J., DeFries, N., Hyun, S., Oliveira, N.L., Sharpnack, J., Tang, J., Tibshirani, R., Ventura, V., Wasserman, L., and Tibshirani, R.J. “Can Auxiliary Indicators Improve COVID-19 Forecasting and Hotspot Prediction?,” Proceedings of the National Academy of Sciences, 2021. &lt;a&gt;https://doi.org/10.1101/2021.06.22.21259346&lt;/a&gt; &lt;/p&gt; &lt;p&gt; Short-term forecasts of traditional streams from public health reporting (such as cases, hospitalizations, and deaths) are a key input to public health decision-making during a pandemic. Since early 2020, our research group has worked with data partners to collect, curate, and make publicly available numerous real-time COVID-19 indicators, providing multiple views of pandemic activity in the U.S. This paper studies the utility of five such indicators---derived from de-identified medical insurance claims, self-reported symptoms from online surveys, and COVID-related Google search activity---from a forecasting perspective. For each indicator, we ask whether its inclusion in an autoregressive (AR) model leads to improved predictive accuracy relative to the same model excluding it. Such an AR model, without external features, is already competitive with many top COVID-19 forecasting models in use today. Our analysis reveals that (a) inclusion of each of these five indicators improves on the overall predictive accuracy of the AR model; (b) predictive gains are in general most pronounced during times in which COVID cases are trending in "flat" or "down" directions; (c) one indicator, based on Google searches, seems to be particularly helpful during "up" trends.&lt;/p&gt; &lt;p&gt;Complete descriptions as well as code are available from &lt;a&gt;https://github.com/cmu-delphi/covidcast-pnas/&lt;/a&gt; and are permanently accessible at &lt;a&gt;https://doi.org/10.5281/zenodo.5639567&lt;/a&gt;.&lt;/p&gt; &lt;p&gt; This material is based on work supported by gifts from Facebook, Google.org, the McCune Foundation, and Optum.&lt;/p&gt;
DOI: 10.14288/1.0406468
title: Data from: The ecology of spider sociality – A spatial model

description: &lt;b&gt;Abstract&lt;/b&gt;&lt;br/&gt;&lt;p&gt;The emergence of animal societies offers unsolved problems for both evolutionary and ecological studies. Social spiders are specially well suited to address this problem given their multiple independent origins and distinct geographical distribution. Based on long term research on the spider genus &lt;em&gt;Anelosimus&lt;/em&gt;, we developed a spatial model that recreates observed macroecological patterns in the distribution of social and subsocial spiders. We show that parallel gradients of increasing insect size and disturbance (rain, predation) with proximity to the lowland tropical rainforest would explain why social species are concentrated in the lowland wet tropics, but absent from higher elevations and latitudes. The model further shows that disturbance, which disproportionately affects small colonies, not only creates conditions that require group living, but also tempers the dynamics of large social groups. Similarly simple underlying processes, albeit with different players on a somewhat different stage, may explain the diversity of other social systems.&lt;/p&gt; &lt;p&gt; &lt;/p&gt;
DOI: 10.7910/dvn/nlih2k
title: Dataset related to diabetic patient at sundernagar

description: In rural Himachal Pradesh (HP), diabetes mellitus is a serious health concern that is made worse by a lack of knowledge, a delayed diagnosis, and insufficient treatment. In order to evaluate diabetes-related health behaviors, comorbidities, and treatment methods in rural areas, this study presents the Diabetes Comorbidities (DiaComor) questionnaire, a psychometric instrument. One hundred and one individuals from rural HP were given the DiaComor questionnaire, which included lifestyle, nutritional patterns, traditional health practices, and diabetes awareness.
DOI: 10.15468/dl.h22mrv
title: Occurrence Download

description: A dataset containing 522 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is one of (India, Philippines, Indonesia, Thailand, Malaysia)",
 "TaxonKey is Areca catechu L."
 ]
}

 The dataset includes 522 records from 49 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0008250-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.6084/m9.figshare.29208922
title: Supplementary Material from Morphometric characterisation of Holocene mandibles expands the ecological baseline for understanding gibbon extinction dynamics

description: Wumingshan_ESM_TableS2.xlsx
DOI: 10.6084/m9.figshare.29208922.v1
title: Supplementary Material from Morphometric characterisation of Holocene mandibles expands the ecological baseline for understanding gibbon extinction dynamics

description: Wumingshan_ESM_TableS2.xlsx
DOI: 10.6084/m9.figshare.29208928
title: Supplementary Material from Morphometric characterisation of Holocene mandibles expands the ecological baseline for understanding gibbon extinction dynamics

description: Wumingshan_ESM_TableS4.xlsx
DOI: 10.6084/m9.figshare.29208928.v1
title: Supplementary Material from Morphometric characterisation of Holocene mandibles expands the ecological baseline for understanding gibbon extinction dynamics

description: Wumingshan_ESM_TableS4.xlsx
DOI: 10.6084/m9.figshare.29208934.v1
title: Supplementary Material from Morphometric characterisation of Holocene mandibles expands the ecological baseline for understanding gibbon extinction dynamics

description: Wumingshan_ESM_TableS3.xlsx
DOI: 10.6084/m9.figshare.29208934
title: Supplementary Material from Morphometric characterisation of Holocene mandibles expands the ecological baseline for understanding gibbon extinction dynamics

description: Wumingshan_ESM_TableS3.xlsx
DOI: 10.6084/m9.figshare.29208940
title: Supplementary Material from Morphometric characterisation of Holocene mandibles expands the ecological baseline for understanding gibbon extinction dynamics

description: Wumingshan_ESM_TableS5.xlsx
DOI: 10.6084/m9.figshare.29208940.v1
title: Supplementary Material from Morphometric characterisation of Holocene mandibles expands the ecological baseline for understanding gibbon extinction dynamics

description: Wumingshan_ESM_TableS5.xlsx