cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.37882
title: Data from: Using data from related species to overcome spatial sampling bias and associated limitations in ecological niche modeling

description: 1. Ecological niche modeling (ENM) is used widely to aid in conservation
 planning and management, often focusing on rare species characterized by
 the biased observations associated with restricted geographic ranges,
 habitat specialization, small population size, and limited natural history
 information. Generating reliable ENMs for such species is a challenge,
 however, owing to issues that arise from spatial sampling bias, such as
 model inaccuracy and overfitting. Here, using virtual scenarios, we assess
 the utility of integrating occurrence data for closely related species
 with varying degrees of niche overlap into ENMs of focal species. 2. We
 consider two approaches to merge related and focal species models:
 integrating occurrences of focal and related species directly as inputs
 with which to generate ENMs, versus creating ENMs based on occurrences of
 focal and related species separately and merging results based on Bayesian
 inference approaches. 3. Both single, integrated models and Bayesian
 inference approaches performed better than models based on focal species
 only when niche overlap between the focal and related species was large,
 across ENM algorithms examined. While assessing sensitivity and
 specificity separately, the performances of the two integration approaches
 over different ENM algorithms were complicated. 4. The results of the
 study offer a novel way forward in managing the challenge of creating
 useful, predictive models even for the rarest species, taking advantage of
 the reasonably general property of niche conservatism over
 small-to-moderate amounts of evolutionary time.
description: Virtual
 speciesThe virtual species used
 in the manuscript, which were generated in NicheA 3.0.virtualGPlus.zipR scriptsThe R scripts used to run the models and analysis the data.related_species.zip
DOI: 10.5061/dryad.4v52c
title: Data from: The effects of climate change on a mega-diverse country: predicted shifts in mammalian species richness and turnover in continental Ecuador.

description: Ecuador is one of 17 nations with the greatest diversity in the world,
 sheltering lowland and mountain regions that are considered global
 biodiversity hotspots. While these regions are projected to be highly
 impacted by climate change, it is not clear what would be the consequences
 for faunal diversity and conservation. To address this issue, we used an
 ensemble of 8 species distribution models (SDM) to determine future shifts
 and identify areas of high changes in species richness and species
 turnover of 201 mammals. Distributions were projected using two different
 climate change scenarios at the 2050 horizon. We also contrasted two
 extreme dispersal scenarios (no-dispersal versus full dispersal). Our
 results showed extended distributional shifts all over the country. For
 most groups, current mammal diversity in Ecuador is expected to decrease
 significantly under all climate change scenarios and dispersal
 assumptions. The Northern Andes and the Amazonian region would remain
 diversity hotspots but with a significant decrease in the number of
 species. All predictions, including the most conservative scenarios in
 terms of dispersal and climate change, predict very important changes in
 the distribution of mammal diversity in Ecuador. Primates might be the
 most severely affected because they would have fewer suitable areas
 compared to other mammals. Our work supports that it is imperative for
 sound conservation strategies in Ecuador to incorporate the impact of
 climate change.
description: Database_Species_Iturralde-Pólit-BITR-16-251Data base used for species modelling. Species id, geographic data and climatic dataDatabase_Species_Iturralde-Pólit.txt
DOI: 10.5061/dryad.km71p
title: Data from: Transgenerational effects of mild heat in Arabidopsis thaliana show strong genotype specificity that is explained by climate at origin

description: Transgenerational environmental effects can trigger strong phenotypic
 variation. However, it is unclear how cues from different preceding
 generations interact. Also, little is known about genetic variation for
 these life-history-traits. Here we present effects of grandparental and
 parental mild heat, and their combination, on four traits of the
 third-generation phenotype of 14 Arabidopsis thaliana genotypes. We tested
 for correlations of these effects with climate and constructed a
 conceptual model to identify the environmental conditions that favour the
 parental effect on flowering time. We observed strong evidence for
 genotype-specific transgenerational effects. On average, A. thaliana
 accustomed to mild heat, producing more seeds after two generations.
 Parental effects overruled grandparental effects in all traits but
 reproductive biomass. Flowering was generally accelerated by all
 transgenerational effects. Notably, the parental effect triggered earliest
 flowering in genotypes adapted to dry summers. Accordingly, this parental
 effect was favoured in the model when early summer heat terminated the
 growing season and environments were correlated across generations. Our
 results suggest that A. thaliana can partly accustom to mild heat over two
 generations and genotype-specific parental effects show non-random
 evolutionary divergence across populations that may support climate change
 adaptation in the Mediterranean.
description: Traits_dataThis file contains the traits measured in the third generation (S3) of the experiment. The column headers were chosen to be self-explaining. The second column, titled "transgen_temp", displays the sequence of temperature treatments across generations (S1-S2-S3). Due to the treatment having been scheduled to start of bolting, the block association changed with start of the treatment. Therefore, two blocking factors, block_before_flowering" and "block_after_flowering", are provided. The first is to be used in models for the early traits "diameter_day20" and "bolting_day", the second for the late traits "reproductive_biomass" and "average_seed_size".traits.csvclimate_dataThis file contains the climate data that was derived from Worldclim. The data file contains the same data provided in the supporting information Table S1. Please refer to the table caption for additional information.GenotypesSNPs used for generating the distance matrix for the PCoA. The file was saved in FASTA-format.
DOI: 10.5061/dryad.424b2
title: Data from: Are landscape attributes a useful shortcut for classifying vegetation in the tropics? A case study of La Amistad International Park

description: Effective vegetation classification schemes identify the processes
 determining species assemblages and support the management of protected
 areas. They can also provide a framework for ecological research. In the
 tropics, elevation-based classifications dominate over alternatives such
 as river catchments. Given the existence of floristic data for many
 localities, we ask how useful floristic data are for developing
 classification schemes in species-rich tropical landscapes and whether
 floristic data provide support for classification by river catchment. We
 analyzed the distribution of vascular plant species within 141 plots
 across an elevation gradient of 130 to 3200 m asl within La Amistad
 National Park. We tested the hypothesis that river catchment, combined
 with elevation, explains much of the variation in species composition. We
 found that annual mean temperature, elevation, and river catchment
 variables best explained the variation within local species communities.
 However, only plots in high-elevation oak forest and Páramo were distinct
 from those in low- and mid-elevation zones. Beta diversity did not
 significantly differ in plots grouped by elevation zones, except for
 low-elevation forest, although it did differ between river catchments.
 None of the analyses identified discrete vegetation assemblages within
 mid-elevation (700–2600 m asl) plots. Our analysis supports the hypothesis
 that river catchment can be an alternative means for classifying tropical
 forest assemblages in conservation settings.
description: Matrix of vascular plant
 species observations at 141 points in La Amistad Binational
 ParkMatrix of vascular plant
 species observations at 141 points in La Amistad Binational Park including
 three associated spreadsheets. 'Matrix' sheet is the matrix with
 species names shortened to 8 characters. 'Variables' sheet are
 the geographical coordinates, elevation, slope and climate variables for
 each sample point. 'Plot coords' are the geographical
 coordinates for each sample point. 'Short names' are the full
 binomials for the abbreviated species names used in the
 matrix.Data
 matrix.xlsx
DOI: 10.5061/dryad.d9065
title: Data from: A genetics-based approach confirms immune associations with life history across multiple populations of an aquatic vertebrate (Gasterosteus aculeatus)

description: Understanding how wild immune variation covaries with other traits can
 reveal how costs and trade-offs shape immune evolution in the wild.
 Divergent life history strategies may increase or alleviate immune costs,
 helping shape immune variation in a consistent, testable way. Contrasting
 hypotheses suggest that shorter life histories may alleviate costs by
 offsetting them against increased mortality; or increase the effect of
 costs if immune responses are traded off against development or
 reproduction. We investigated the evolutionary relationship between life
 history and immune responses within an island radiation of three-spined
 stickleback, with discrete populations of varying life histories and
 parasitism. We sampled two short-lived, two long-lived and an anadromous
 population using qPCR to quantify current immune profile and RAD-seq data
 to study the distribution of immune variants within our assay genes and
 across the genome. Short-lived populations exhibited significantly
 increased expression of all assay genes, which was accompanied by a strong
 association with population-level variation in local alleles and
 divergence in a gene that may be involved in complement pathways. In
 addition, divergence around the eda gene in anadromous fish is likely
 associated with increased inflammation. A wider analysis of 15 populations
 across the island revealed that immune genes across the genome show
 evidence of having diverged alongside life history strategies. Parasitism
 and reproductive investment were also important sources of variation for
 expression, highlighting the caution required when assaying immune
 responses in the wild. These results provide strong, gene-based support
 for current hypotheses linking life history and immune variation across
 multiple populations of a vertebrate model.
description: Uist 2015 Life History
 Arlequin InputInput file for Arlequin
 analysis based on 2013 sampled fish.Uist 2015 Life History
 Arlequin.arpUist 2015 Life History
 FastSTRUCTUREInput for FastSTRUCTURE
 in PLINK BED format.Uist 2015 Life History
 Bayenv SNPfileMain input for Bayenv2
 analysis.Uist 2015 Life History
 Bayenv LociLoci used in Bayenv
 analysis. Each pair of rows in the Bayenv SNPfile corresponds to 1 locus
 from this file.Uist 2015 Life History
 Bayenv Locus InfoGenome location
 information loci used in Bayenv analysisUist 2015 Life History
 qPCR PCA PLINKInput PLINK PED and MAP
 files for Adegenet PCA analysisUist 2015 Life History
 Sampling and Expression DataUist 2015 Life History Sampling
 Main Data.xlsx
DOI: 10.17632/pbjx4r5kfv
title: STRENGTHENING RURAL HEALTH WORKFORCE DEVELOPMENT THROUGH ORGANIZATIONAL SUPPORT AND GENERATIONAL ADAPTATION: EVIDENCE FROM THE PHILIPPINES

description: This dataset is associated with the qualitative study “Strengthening Rural Health Workforce Development Through Organizational Support and Generational Adaptation: Evidence from the Philippines.” It focuses on young and early career healthcare workers employed in rural health units (RHUs) and barangay health stations (BHSs) located in three geographically isolated and disadvantaged areas (GIDAs) in Northern Luzon, Philippines. 
The dataset is intended to support secondary analysis on rural health workforce development, organizational support, and generational expectations among rural healthcare workers in low and middle income country contexts. It currently consists of metadata only (no files uploaded at this stage), describing the planned structure and content of the data to be shared once de identification and additional ethical safeguards are completed. 
Planned data components include:
• De identified interview transcripts from 14 semi structured, face to face interviews with rural healthcare workers (physicians, nurses, midwives, nutritionists, barangay health workers, and administrative staff).
• A codebook derived from qualitative content analysis, including theme and sub theme definitions related to organizational support, mentorship, work environment, professional growth, cultural engagement, and generational values.
• A brief methodological note describing the sampling strategy, interview procedures, and analytic approach.
All data will be de identified to remove personal names, specific locations, and other potentially identifying details, in accordance with ethical approval (Philippine Region 1 Ethical Review Committee, Protocol No. NURDD826A2026). Under the CC BY 4.0 licence selected for this dataset, future users will be allowed to share, adapt, and build upon the data, provided appropriate credit is given, a link to the license is provided, and any changes are indicated.
DOI: 10.5061/dryad.4b7q9
title: Data from: Trophoblast survival signaling during human placentation requires HSP70 activation of MMP2-mediated HBEGF shedding

description: Survival of trophoblast cells in the low oxygen environment of human
 placentation requires metalloproteinase-mediated shedding of HBEGF and
 downstream signaling. A matrix metalloproteinase (MMP) antibody array and
 quantitative RT-PCR revealed upregulation of MMP2 post-transcriptionally
 in human first trimester HTR-8/SVneo trophoblast cells and placental
 villous explants exposed to 2% O2. Specific MMP inhibitors established the
 requirement for MMP2 in HBEGF shedding and upregulation. Because
 α-amanitin inhibited the upregulation of HBEGF, differentially expressed
 genes were identified by next-generation sequencing of RNA from
 trophoblast cells cultured at 2% O2 for 0, 1, 2 and 4 h. Nine genes, all
 containing HIF-response elements, were upregulated at 1 h, but only HSPA6
 (HSP70B’) remained elevated at 2–4 h. The HSP70 chaperone inhibitor VER
 155008 blocked upregulation of both MMP2 and HBEGF at 2% O2, and increased
 apoptosis. However, both HBEGF upregulation and apoptosis were rescued by
 exogenous MMP2. Proximity ligation assays demonstrated interactions
 between HSP70 and MMP2, and between MMP2 and HBEGF, supporting the concept
 that MMP2-mediated shedding of HBEGF, initiated by HSP70, contributes to
 trophoblast survival at the low O2 concentrations encountered during the
 first trimester, and is essential for successful pregnancy outcomes.
 Trophoblast survival during human placentation, when oxygenation is
 minimal, required HSP70 activity, which mediated MMP2 accumulation and the
 transactivation of anti-apoptotic ERBB signaling by HBEGF shedding.
description: CDD_HTRlnRNAseq_dataCDD_Data.xlsx
DOI: 10.15468/dl.htahxy
title: Occurrence Download

description: A dataset containing 1843466 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is India",
 "TaxonKey is Plantae"
 ]
}

 The dataset includes 1843466 records from 901 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001466-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.17632/pbjx4r5kfv.1
title: STRENGTHENING RURAL HEALTH WORKFORCE DEVELOPMENT THROUGH ORGANIZATIONAL SUPPORT AND GENERATIONAL ADAPTATION: EVIDENCE FROM THE PHILIPPINES

description: This dataset is associated with the qualitative study “Strengthening Rural Health Workforce Development Through Organizational Support and Generational Adaptation: Evidence from the Philippines.” It focuses on young and early career healthcare workers employed in rural health units (RHUs) and barangay health stations (BHSs) located in three geographically isolated and disadvantaged areas (GIDAs) in Northern Luzon, Philippines. 
The dataset is intended to support secondary analysis on rural health workforce development, organizational support, and generational expectations among rural healthcare workers in low and middle income country contexts. It currently consists of metadata only (no files uploaded at this stage), describing the planned structure and content of the data to be shared once de identification and additional ethical safeguards are completed. 
Planned data components include:
• De identified interview transcripts from 14 semi structured, face to face interviews with rural healthcare workers (physicians, nurses, midwives, nutritionists, barangay health workers, and administrative staff).
• A codebook derived from qualitative content analysis, including theme and sub theme definitions related to organizational support, mentorship, work environment, professional growth, cultural engagement, and generational values.
• A brief methodological note describing the sampling strategy, interview procedures, and analytic approach.
All data will be de identified to remove personal names, specific locations, and other potentially identifying details, in accordance with ethical approval (Philippine Region 1 Ethical Review Committee, Protocol No. NURDD826A2026). Under the CC BY 4.0 licence selected for this dataset, future users will be allowed to share, adapt, and build upon the data, provided appropriate credit is given, a link to the license is provided, and any changes are indicated.
DOI: 10.5061/dryad.4v130
title: Data from: Mechanics of evolutionary digit reduction in fossil horses (Equidae)

description: Digit reduction is a major trend that characterizes horse evolution, but
 its causes and consequences have rarely been quantitatively tested. Using
 beam analysis on fossilized centre metapodials, we tested how locomotor
 bone stresses changed with digit reduction and increasing body size across
 the horse lineage. Internal bone geometry was captured from 13 fossil
 horse genera that covered the breadth of the equid phylogeny and the
 spectrum of digit reduction and body sizes, from Hyracotherium to Equus.
 To account for the load-bearing role of side digits, a novel, continuous
 measure of digit reduction was also established—toe reduction index (TRI).
 Our results show that without accounting for side digits, three-toed
 horses as late as Parahippus would have experienced physiologically
 untenable bone stresses. Conversely, when side digits are modelled as
 load-bearing, species at the base of the horse radiation through Equus
 probably maintained a similar safety factor to fracture stress. We
 conclude that the centre metapodial compensated for evolutionary digit
 reduction and body mass increases by becoming more resistant to bending
 through substantial positive allometry in internal geometry. These results
 lend support to two historical hypotheses: that increasing body mass
 selected for a single, robust metapodial rather than several smaller ones;
 and that, as horse limbs became elongated, the cost of inertia from the
 side toes outweighed their utility for stabilization or load-bearing.
description: BeamBending-Data-AnalysisContains all data, scripts, output, and figures for the paper "Mechanics of evolutionary digit reduction in fossil horses (Equidae)"BeamBendingData.zip
DOI: 10.5061/dryad.nh044
title: Data from: Group living and male dispersal predict the core gut microbiome in wild baboons

description: The mammalian gut microbiome plays a profound role in the physiology,
 metabolism, and overall health of its host. However, biologists have only
 a nascent understanding of the forces that drive inter-individual
 heterogeneity in gut microbial composition, especially the role of host
 social environment. Here we used 178 samples from 78 wild yellow baboons
 (Papio cynocephalus) living in two social groups to test how host social
 context, including group living, social interactions within groups, and
 transfer between social groups (e.g., dispersal) predict inter-individual
 variation in gut microbial alpha and beta diversity. We also tested
 whether social effects differed for prevalent “core” gut microbial taxa,
 which are thought to provide primary functions to hosts, versus rare
 “non-core” microbes, which may represent relatively transient
 environmental acquisitions. Confirming prior studies, we found that each
 social group harbored a distinct gut microbial community. These
 differences included both non-core and core gut microbial taxa, suggesting
 that these effects are not solely driven by recent gut microbial
 exposures. Within social groups, close grooming partners had more similar
 core microbiomes, but not non-core microbiomes, than individuals who
 rarely groomed each other, even controlling for kinship and diet
 similarity between grooming partners. Finally, in support of the idea that
 the gut microbiome can be altered by current social context, we found that
 the longer an immigrant male had lived in a given social group, the more
 closely his gut microbiome resembled the gut microbiomes of the group’s
 long-term residents. Together, these results reveal the importance of a
 host’s social context in shaping the gut microbiome and shed new light
 onto the microbiome-related consequences of male dispersal.
description: Supplementary Methods,
 Results, Tables, and FiguresDRYAD.zip
DOI: 10.17632/rx7496g88p
title: The effects of temperature on the prey-handling behaviors of juvenile Pantherophis guttatus

description: This dataset contains raw and processed data from experiments examining the effects of body temperature on juvenile cornsnake (Pantherophis guttatus) feeding and performance. Measured variables include foraging behavior (active searching duration and attack latency), prey-handling behavior selection and complexity, peak constriction pressure, maximum number of body loops formed during constriction, ingestion success, meal retention, and growth measured as percent mass increase. Snakes were tested across multiple temperature treatments within standard husbandry ranges.
DOI: 10.25345/c5474752s
title: MassIVE MSV000100599 - Integrating High Energy Pulsed Electron Beam mutagenesis with high-throughput metabolomics (HEPE-HiTMS)
title: The combination of High Energy Pulsed Electron Beam mutagenesis with mass spectrometry is employed to discover new secondary metabolites from Streptomyces.
DOI: 10.17632/rx7496g88p.1
title: The effects of temperature on the prey-handling behaviors of juvenile Pantherophis guttatus

description: This dataset contains raw and processed data from experiments examining the effects of body temperature on juvenile cornsnake (Pantherophis guttatus) feeding and performance. Measured variables include foraging behavior (active searching duration and attack latency), prey-handling behavior selection and complexity, peak constriction pressure, maximum number of body loops formed during constriction, ingestion success, meal retention, and growth measured as percent mass increase. Snakes were tested across multiple temperature treatments within standard husbandry ranges.