cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.q15p9d0
title: Data from: Amphibian responses to livestock use of wetlands: new empirical data and a global review

description: Pastureland currently occupies 26% of Earth’s ice-free land surface. As
 the global human population continues to increase and developing countries
 consume more protein-rich diets, the amount of land devoted to livestock
 grazing will only continue to rise. To mitigate the loss of global
 biodiversity as a consequence of the ever-expanding amount of land
 converted from native habitat into pastureland for livestock grazing, an
 understanding of how livestock impact wildlife is critical. While previous
 reviews have examined the impact of livestock on a wide variety of taxa,
 there have been no reviews examining how global livestock grazing affects
 amphibians. We conducted both an empirical study in south-central Florida
 examining the impact of cattle on amphibian communities and a quantitative
 literature review of similar studies on five continents. Our empirical
 study analyzed amphibian community responses to cattle as both a binary
 (presence/absence) variable, and as a continuous variable based on cow pie
 density. Across all analyses, we were unable to find any evidence that
 cattle affected the amphibian community at our study site. The literature
 review returned 46 papers that met our criteria for inclusion. Of these
 studies, 15 found positive effects of livestock on amphibians, 21 found
 neutral/mixed effects, and 10 found negative effects. Our quantitative
 analysis of these data indicates that amphibian species that historically
 occurred in closed-canopy habitats are generally negatively affected by
 livestock presence. In contrast, open-canopy amphibians are likely to
 experience positive effects from the presence of livestock, and these
 positive effects are most likely to occur in locations with cooler
 climates and/or greater precipitation seasonality. Collectively, our
 empirical work and literature review demonstrate that under the correct
 conditions well-managed rangelands are able to support diverse assemblages
 of amphibians. These rangeland ecosystems may play a critical role in
 protecting future amphibian biodiversity by serving as an “off-reserve”
 system to supplement the biodiversity conserved within traditional
 protected areas.
description: ArchboldFig2
 (2)Literature Review
 (2)
DOI: 10.5061/dryad.kk17v5d
title: Data from: Space, time, and captivity: quantifying the factors influencing the fecal microbiome of an alpine ungulate

description: The community of microorganisms in the gut is affected by host species,
 diet and environment and is linked to normal functioning of the host
 organism. Although the microbiome fluctuates in response to host demands
 and environmental changes, there are core groups of microorganisms that
 remain relatively constant throughout the hosts lifetime. Ruminants are
 mammals that rely on highly specialized digestive and metabolic
 modifications, including microbiome adaptations, to persist in extreme
 environments. Here, we assayed the fecal microbiome of four mountain goat
 (Oreamnos americanus) populations in western North America. We quantified
 fecal microbiome diversity and composition among groups in the wild and
 captivity, across populations and in a single group over time. There were
 no differences in community evenness or diversity across groups, although
 we observed a decreasing diversity trend across summer months. Pairwise
 sample estimates grouped the captive population distinctly from the wild
 populations, and moderately grouped the southern wild group distinctly
 from the two northern wild populations. We identified 33 genera modified
 by captivity, with major differences in key groups associated with
 cellulose degradation that likely reflect differences in diet. Our
 findings are consistent with other ruminant studies and provide baseline
 microbiome data in this enigmatic species, offering valuable insights into
 the health of wild alpine ungulates.
description: Newick Rooted Tree
 FileNewick Rooted Tree File
 of the mountain goat fecal microbiomeAll_Tree_Rooted.nwkCaw Ridge, Alberta (Month) Feature ID (RSV) MatrixCount matrix of the given feature IDs from the fecal microbiome of mountain goats at Caw Ridge, Alberta classified for each month across June, July, and August. Included are the feature ID, confidence of classification from QIIME2, taxon assignment, and sequence.20190407_Month_FeatureID_RSV_Matrix.csvPopulation and Origin Feature ID (RSV) MatrixCount matrix of the given feature IDs from the fecal microbiome of mountain goats ranging from Alaska, USA to Alberta, Canada (four populations - three wild, one captive). Included are the feature ID, confidence of classification from QIIME2, taxon assignment, and sequence.20190407_Population_Origin_RSV_Matrix.csv
DOI: 10.5061/dryad.3vt2295
title: Data from: Plant phylogenetic diversity stabilizes large-scale ecosystem productivity

description: Aim Global carbon cycle models do not incorporate the stabilizing effect
 of biodiversity on productivity despite this phenomenon has been widely
 described in several local scale manipulative experiments. The reason is a
 lack of evidence supporting the importance of biodiversity on spatial
 scales at which climate models are built. Here, we test the hypothesis
 that diversity enhances productivity stability at a large-scale. Location
 South American dryland known as Caatinga (~830,000 km2). Time period
 2001-2010. Major taxa studied Woody plants. Methods We used the Enhanced
 Vegetation Index of Caatinga vegetation remnants, from 2001 to 2010, to
 calculate vegetation productivity stability across years. We used
 occurrence records of 606 woody species on floristic surveys to derive
 species richness and phylogenetic diversity at ~5km (0.0833°) and ~55 km
 (0.5°) resolution. Climate data was obtained in global databases. Results
 Plant phylogenetic diversity has a strong positive correlation with
 productivity stability even after controlling for several climatic
 variables, such as rainfall, temperature and cloudiness, in both
 resolutions. Species richness was not significant when climatic variables
 were included. Main conclusions This result expands in several orders of
 magnitude the spatial scale of the evidence that biodiversity strengths
 the resilience of key ecosystem functions. We highlight that, by
 incorporating plant phylogenetic diversity, regional and global climate
 models can generate more accurate predictions about future ecosystem
 functioning and services that are critical to humankind.
description: data_landscapeBiodiversity and climatic data used for the Landscape Analyses.data_regionalBiodiversity and climatic data used for the Regional Analyses.
DOI: 10.15468/dl.bby68j
title: Occurrence Download

description: A dataset containing 148468 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Gastropoda",
 "Country is Japan",
 "HasCoordinate is true"
 ]
}

 The dataset includes 148468 records from 162 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001749-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.56tz6h
title: Occurrence Download

description: A dataset containing 939 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is United States of America",
 "TaxonKey is Poeciliopsis occidentalis"
 ]
}

 The dataset includes 939 records from 25 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001798-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.t662q27
title: Data from: Smaller future floods imply less habitat for riparian plants along a boreal river

description: Climate-change projections suggest large changes in riverine flow regime,
 which will likely alter riparian communities. In northern Europe,
 forecasts propose lower annual spring flood peaks and higher winter flows,
 resulting in narrower riparian zones. To estimate the impact of climate
 change on habitat extent of riparian plants, we developed a framework
 estimating the sensitivity and exposure of individual species to
 streamflow change, and surveyed five reaches along the free-flowing Vindel
 River in northern Sweden. We modeled the hydrologic niche of riparian
 plant species based on the probability of occurrence along gradients of
 flood frequency and duration, and used predicted future water-level
 fluctuations (based on climate models and IPCC emission scenarios) to
 calculate changes in flow-related habitat availability of individual
 species. Despite projected increases in run-off, we predict most species
 to decrease in riparian elevational extent by on average 12−29% until the
 end of the century, depending on scenario. Species growing in the upper,
 spring-flood controlled part of the riparian zone will likely lose most
 habitat, with the largest reductions in species with narrow ranges of
 inundation duration tolerance (decreases of up to 54%). In contrast, the
 elevational extent of most amphibious species is predicted to increase,
 but conditions creating isoëtid vegetation will become rarer or disappear:
 Isoëtid vegetation is presently found in areas where ice formed in the
 fall settles on the riverbank during the winter as water levels subside.
 Higher winter flows will make these conditions rare. We argue that our
 framework is useful to project the effects of hydrologic change caused by
 climate change as well as other stressors such as flow regulation also in
 other regions. With few rivers remaining unaffected by dams and other
 human stressors, these results call for monitoring to detect species
 declines. Management to alleviate species losses might include mitigation
 of habitat degradation from land-use activities, more
 environmentally-friendly flow schemes, and more intensive management
 options such as mowing riparian meadows no longer regularly maintained by
 recurrent floods.
description: species_dataFile with data on species presence and absence in plots at different riparian elevations at sites along the Vindel River in northern Sweden. Species names and inundation data for the plots are explained in a separate worksheet. Refer to the associated paper for explanation of the inundation data and scenarios for the future.
DOI: 10.5061/dryad.9r1h22d
title: Data from: The global prevalence of latent tuberculosis: a systematic review and meta-analysis

description: In 1999, the WHO estimated that one-third of the world‟s population had
 latent tuberculosis infection (LTBI) which was recently updated to
 one-fourth. However, this is still based on controversial assumptions in
 combination with tuberculin skin test (TST) surveys. Interferon-gamma
 release assays (IGRAs) with a higher specificity than TST have since been
 widely implemented, but never used to estimate the global LTBI prevalence.
 We conducted a systematic review and meta-analysis of LTBI estimates based
 on both IGRA and TST results published between 2005 and 2018. Regional and
 global estimates of LTBI prevalence were calculated. Stratification was
 performed for low, intermediate and high TB incidence countries and a
 pooled estimate for each area was calculated using a random effects model.
 Among 3280 studies screened, we included 88 studies from 36 countries with
 41 IGRA (n=67 167) and 67 TST estimates (n=284 644). The global prevalence
 of LTBI was 24.8% (95% CI: 19.7-30.0%) and 21.2% (95% CI: 17.9-24.4%)
 based on IGRA and a 10 mm TST cut-off respectively. The prevalence
 estimates correlated well to WHO incidence rates (Rs=0.70,
 p&lt;0.001). In the first study of the global prevalence of LTBI
 derived from both IGRA and TST surveys, we found that one-fourth of the
 world‟s population is infected. This is of relevance as both tests,
 although imperfect, are used to identify individuals eligible for
 preventive therapy. Enhanced efforts are needed targeting the large pool
 of latently infected as these individuals continuously constitutes an
 enormous source of potential active TB.
description: LTBI global prevalence
 meta-analysis 2019 ERJLatent tuberculosis
 infection (LTBI) global prevalence survey database from meta-analysis
 published 2019 in European Respiratory Journal. Database contains included
 studies and the numbers needed for data analysis including PMID,
 publication year, first author, study design, study date
 etc.LTBI
 global prevalence database.xlsx
DOI: 10.5061/dryad.q4q8r89
title: Data from: A time series model for estimating temporal variation in phenotypic selection on laying dates in a Dutch great tit population

description: [No abstract entered]
description: great tit data used for
 the case studyThe great tit data is
 ready for model fitmytitbroodFinal.RdataR code for simulation studyThe details of the simulation study are given in the Supporting Information.simulation.Rgreat tit case studyThe folder contains the C++ template defining our model, Rscript to conduct model fit and selection, custom-defined functions for efficiently update candidate models and Rscript for output the results.
DOI: 10.5061/dryad.gv43sm2
title: Data from: Reorientation and propulsion in fast-starting zebrafish larvae: an inverse dynamics analysis

description: Most fish species use fast starts to escape from predators. Zebrafish
 larvae perform effective fast starts immediately after hatching. They use
 a C-start, where the body curls into a C-shape, and then unfolds to
 accelerate. These escape responses need to fulfil a number of functional
 demands, under the constraints of the fluid environment and the
 larva's body shape. Primarily, the larvae need to generate sufficient
 escape speed in a wide range of possible directions, in a short-enough
 time. In this study, we examined how the larvae meet these demands. We
 filmed fast starts of zebrafish larvae with a unique five-camera setup
 with high spatiotemporal resolution. From these videos, we reconstructed
 the three-dimensional swimming motion with an automated method and from
 these data calculated resultant hydrodynamic forces and, for the first
 time, 3D torques. We show that zebrafish larvae reorient mostly in the
 first stage of the start by producing a strong yaw torque, often without
 using the pectoral fins. This reorientation is expressed as the body
 angle, a measure that represents the rotation of the complete body, rather
 than the commonly used head angle. The fish accelerates its centre of mass
 mostly in stage 2 by generating a considerable force peak while the fish
 "unfolds". The escape direction of the fish correlates strongly
 with the amount of body curvature in stage 1, while the escape speed
 correlates strongly with the duration of the start. This may allow the
 fish to independently control the direction and speed of the escape.
description: Fast start
 dataThis file contains 1)
 metadata for multi-camera high-speed video of free-swimming zebrafish
 larvae 2) raw output from a motion reconstruction algorithm applied to
 these video data 3) post-processed output of these reconstructions,
 including resultant forces and torques.fast_start_data.zip
DOI: 10.5281/zenodo.17456075
title: [Supplemental Material] Guidelines to Prompt Large Language Models for Code Generation: An Empirical Characterization

description: A more user-friendly interface for this repository is available at the following link: https://anonymous.4open.science/r/PromptGuidelines-8262/README.mdPlease refer to the README file (either in the link above or below) for a better understanding of the provided materials.
DOI: 10.5061/dryad.4k24304
title: Data from: Phenotypic plasticity or evolutionary change? An examination of the phenological response of an arctic seabird to climate change

description: 1. Phenological adjustments are an important aspect of a population’s
 response to climate change. Changes in phenology can occur through either
 individual plasticity or evolutionary change within populations. Few
 studies have investigated both these processes in Arctic environments. 2.
 Using 42 years of individual and pedigree data, we evaluated the
 contribution of plasticity and evolution to variation in breeding
 phenology at a colony of a high Arctic sea-ice obligate seabird, Mandt’s
 black guillemot (Cepphus grylle mandtii). Mean clutch initiation (first
 egg in a clutch) advanced 7.8 days, and both environmental (snowmelt) and
 demographic (years of breeding experience) factors varied among years. 3.
 Earlier phenology was associated with earlier snowmelt and experienced
 mothers. Females advanced phenology at different rates as they aged but at
 similar rates in response to variation in snowmelt. Heritability of clutch
 initiation was negligible, and there was no evidence of evolution
 contributing to phenological changes. 4. Earlier laying was associated
 with increased annual number of fledglings and annual adult survival at
 the individual level suggesting that the phenological changes are adaptive
 and are driven by phenotypic plasticity, but not genetic responses. 5. We
 propose that species with a constrained breeding season (like many Arctic
 species) may have a limited ability beyond existing plasticity to respond
 to changing environmental conditions.
description: AlldatData used for the
 primary analyses of black guillemot phenology.Pruned Pedigree
 BLGUPedigree used in the
 estimation of heritability of phenology in black
 guillemotsBLGU_Ped.csv
DOI: 10.5281/zenodo.17431603
title: [Supplemental Material] Guidelines to Prompt Large Language Models for Code Generation: An Empirical Characterization

description: A more user-friendly interface for this repository is available at the following link: https://anonymous.4open.science/r/PromptGuidelines-8262/README.mdPlease refer to the README file (either in the link above or below) for a better understanding of the provided materials.
DOI: 10.5061/dryad.2k86k38
title: Data from: Linking forest management to moose population trends: the role of the nutritional landscape

description: Forested lands in the western USA have undergone changes in management and
 condition that are resulting in a shift towards climax vegetation. These
 changes can influence the quality and quantity of forage for herbivores
 that rely on early-seral plants. To evaluate how management of forested
 landscapes might affect nutrition for Shiras moose (A. a. shirasi) at
 large spatial scales, we focused on shrubs and evaluated summer diet
 composition, forage availability, and forage quality across 21 population
 management units encompassing &gt;36,000 km2 in northern Idaho, USA.
 We identified 17 shrub species in the diets of moose, 11 of which
 comprised the bulk of the diets. These forage shrubs varied markedly in
 both energy (mean digestible energy for leaves ranged from 9.62 to 12.89
 kJ/g) and protein (mean digestible protein for leaves ranged from 1.73 to
 7.90%). By adapting established field sampling methods and integrating
 recent advances in remote sensing analyses in a modeling framework, we
 predicted approximations of current and past (i.e., 1984) quantities of
 forage shrubs across northern Idaho. We also created a qualitative index
 of population trend for moose across population management units using
 harvest data. Predicted quantities of forage shrubs varied widely across
 the study area with generally higher values at more northern latitudes.
 The quantity of forage shrubs was estimated to have declined over the past
 30 years in about half of the population management units, with the
 greatest declines predicted for high-energy forage species. The population
 trend index was correlated with the percent change in availability of
 moderate-energy forage shrubs, indicating that availability of forage
 shrubs and change in availability over time might be affecting population
 dynamics for moose in northern Idaho. Our study highlights the importance
 of assessing how changes in forest management across broad spatiotemporal
 extents could affect wildlife and their habitats.
description: North Idaho shrub
 dataShapefile that includes
 location and shrub volume data for northern Idaho moose forage
 shrubsShrub
 data.zip
DOI: 10.82294/dvnfru6c5
title: Entrevistas semiestructuradas. Territorio: Guainía. Sector: Educación. Año: 2024

description: A partir de un proceso de acompañamiento situado, se recopilaron testimonios por medio de entrevistas semiestructuradas durante el año 2024, las cuales indagaron sobre 4 categorías que describían la práctica en educación artística de docentes, cultores, sabedores de la enseñanza del arte, que hacían parte de los programas de formación en educación artística y cultural del sector Educación (educación formal) en el departamento de Guainía.
DOI: 10.5061/dryad.m73k28k
title: Data from: Sea surface temperature dictates movement and habitat connectivity of Atlantic cod in a coastal fjord system

description: Whilst movements of organisms have been studied across a myriad of
 environments, information is often lacking regarding spatio-seasonal
 patterning in complex temperate coastal systems. Highly mobile fish form
 an integral part of marine food webs providing linkages within habitats,
 between patches of habitats and at different life stages. We investigated
 how movement, activity and connectivity patterns of Atlantic cod (Gadus
 morhua) are influenced by dynamic environmental conditions. Movement
 patterns of 39 juvenile and subadult Atlantic cod were assessed in two
 coastal sites in the Swedish Skagerrak for 5 months. We used passive
 acoustic telemetry and network analysis to assess seasonal and spatial
 movement patterns of cod and their relationships to different
 environmental factors, using statistical correlations, analysis of
 recurrent spatial motifs and generalised linear mixed models. Temperature,
 in combination with physical barriers, precludes significant connectivity
 (complex motifs) within the system. Sea surface temperature had a strong
 influence on connectivity (node strength, degree and motif frequency),
 where changes from warmer summer waters to colder winter waters
 significantly reduced movement activity of fish. As the seasons changed,
 movement of fish gradually decreased from large-scale (km) linkages in the
 summer to more localised movement patterns in the winter (limited to 100s
 m). Certain localised areas, however, were identified as important for
 connectivity throughout the whole study period, likely due to these
 multiple-habitat areas fulfilling functions required for foraging and
 shelter. This study provides new knowledge regarding inshore movement
 dynamics of juvenile and subadult Atlantic cod that use complex, coastal
 fjord systems. The findings show that connectivity, seasonal patterns in
 particular, should be carefully considered when selecting conservation
 areas to promote marine stewardship.
description: Acoustic telemetry
 detections_DryadDetections of Atlantic
 cod using acoustic telemetryStation_attributes_DryadInformation; co-ordinates, depth, name of the stations / acoustic receiversEnvironmental data_DyradDaily data from weather station. e.g. sea surface temperature, wind speed/direction