cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.w0vt4b8s7
title: Data from: Genome-wide analysis reveals associations between climate and regional patterns of adaptive divergence and dispersal in American pikas

description: 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
 (Ochotona princeps). 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.
description: pika_97ind_14pop_49074snp.vcf: genotypic data for 97 individuals
 from 14 sample sites at 49,074 SNPs generated via RADseq.
 49074_populations.loci.fa: fasta file containing sequences for
 49,074 loci. pika_108ind_14pop+supp_5000snp.vcf:
 genotypic data for 108 individuals from 14 sample sites and 7 supplemental
 sites at 5,000 random neutral SNPs generated via RADseq.
DOI: 10.5061/dryad.pg4f4qrqd
title: Data for: Africa’s oldest dinosaurs reveal early suppression of dinosaur distribution

description: The vertebrate lineages that would shape Mesozoic and Cenozoic terrestrial
 ecosystems originated across Triassic Pangaea. By the Late Triassic
 (Carnian Stage, ~235 Ma), cosmopolitan ‘disaster faunas’ had given way to
 highly endemic assemblages on the supercontinent. Testing the tempo and
 mode of the establishment of this endemism is challenging—there were few
 geographic barriers to dispersal across Pangaea during the Late Triassic.
 Instead, palaeolatitudinal climate belts, and not continental boundaries,
 are hypothesized to have controlled distribution. During this time of high
 endemism, dinosaurs began to disperse and thus offer an opportunity to
 test the timing and drivers of this biogeographic pattern. Increased
 sampling can test this prediction: if dinosaurs initially dispersed under
 palaeolatitudinal-driven endemism, then an assemblage similar to those of
 South America and India—including the earliest dinosaurs—should be present
 in Carnian deposits in south-central Africa. Here, we report a new Carnian
 assemblage from Zimbabwe which includes Africa’s oldest definitive
 dinosaurs, including a nearly complete skeleton of the sauropodomorph
 Mbiresaurus raathi, gen. et sp. nov. This assemblage resembles those of
 other dinosaur-bearing Carnian assemblages, suggesting that a similar
 vertebrate fauna ranged high-latitude austral Pangaea. The distribution of
 the first dinosaurs is correlated with palaeolatitude-linked climatic
 barriers, and dinosaurian dispersal to the rest of the supercontinent was
 delayed until these barriers relaxed, suggesting that climatic controls
 influenced the initial composition of the terrestrial faunas that persist
 to this day.
DOI: 10.5061/dryad.dbrv15f24
title: Vascular plant community surveys across different reindeer grazing regimes in the Fennoscandian tundra

description: This dataset contains data from the experiment described in "Gibson
 K., Olofsson, J. Mooers, A. Ø., & Monroe, M. J. (2021)
 Pulse grazing by reindeer (Rangifer tarandus) can increase the
 phylogenetic diversity of vascular plant communities in the Fennoscandian
 tundra. Ecology and Evolution. In press."  The data is from
 a multi-year (2004-2007) quasi-experimental study in Northern
 Fennoscandia, which was designed to analyze the effect of
 reindeer grazing on vascular plant community diversity. Our study
 design used a permanent fence constructed in the 1960s and temporary
 fences constructed along the permanent fence to expose plant communities
 to three different grazing regimes: light (almost never grazed), pulse
 (grazed every other year) and press (chronic grazing for over forty
 years). The study deisgn consisted of plots setup at five
 different sites at least 100m apart from each other along the permanent
 fence. Each site was divided into the three grazing regimes
 (light, pulse and press). For each site and grazing regime, one replicate
 plot was placed in a drier area and other in a wetter
 area. Each plot (n = 36) was evenly split into
 nine subplots. This dataset is composed of
 plant survey data at the sub-plot level with a variable for the
 presence/absence and relative abundance of each surveyed species. The
 biodiversity metrics used in the associated manuscript can be calculated
 from these variables.  The main results of this experiment were
 that (1) the species richness and evenness of plant communities
 with pulse and press grazing did not differ from communities with light
 grazing, (2) there was a transition from shrub‐dominated
 communities with light grazing to graminoid‐dominated communities with
 pulse and press grazing and (3) communities with pulse, but not
 press, grazing were more phylogenetically dispersed than communities with
 light grazing.
description: Information on how the plant surveys were performed can be found
 in the associated manuscript referenced above. 
description: The README file contains an explanation of each of the variables
 in the dataset.
DOI: 10.5061/dryad.5dv41ns6h
title: Effects of Chlorella vulgaris on P release from ferric phosphate sediment by consecutive cultivation

description: Iron phosphate (Fe-P), the active compound is part of the main storage
 paths of phosphorus, especially in P-pollution environment. The re-release
 of Fe-P is a danger sign during microalgae remediation. In this work,
 pre-incubated Chlorella vulgaris is cultured in BG-11 culture medium with
 different amounts of quantifying Fe-P. The effects of Fe-P re-release on
 biomass, flocculation and removal of PO43- are investigated. The results
 indicated that Chlorella vulgaris can promote the dissolution and release
 of Fe-P when the pH is 7, the release amount of Fe-P (Q) in 200mL water
 reaches 0.055-0.45mg d-1 under the Chlorella vulgaris concentration of
 5.6×105-8×105cell mL-1. Meanwhile, the growth of Chlorella vulgaris will
 be inhibited due to flocculation behavior of Fe3+ in the release stage,
 this goes hand in hand with the specific growth rate of 0.3-0.4d-1 and
 below 30% phosphorus removal rate. However, this process in the long run
 means a favorable transformation that Fe-P becomes a bioavailable
 phosphorus as a resource under the action of Chlorella vulgaris.
 Microalgae outbreaks may also be triggered by persistent interactions
 between Fe-P and Chlorella vulgaris. The study provides an important
 reference for the application of Chlorella vulgaris in a Fe-P rich
 environment.
description: File can be opened using the Origin software and Excel.
DOI: 10.5061/dryad.bzkh1899d
title: Data from: Numerical biomechanics modelling of indirect mitral annuloplasty treatments for functional mitral regurgitation

description: Mitral valve regurgitation (MR) is a common valvular heart disease where
 an improper closure leads to leakage from the left ventricle into the left
 atrium. There is a need for less-invasive treatments such as percutaneous
 repairs for a large inoperable patient population. The aim of this study
 is to compare several indirect mitral annuloplasty (IMA) percutaneous
 repair techniques by finite element analyses. Two types of generic IMA
 devices were considered, based on coronary sinus vein shortening (IMA-CS)
 to reduce the annulus perimeter and based on shortening of the
 anterior-posterior diameter (IMA-AP). The disease, its treatments, and the
 heart function post-repair were modelled by modifying the living heart
 human model (Dassault Systèmes). A functional MR pathology that represents
 ischemic MR was generated and the IMA treatments were simulated in it,
 followed by heart function simulations with the devices and leakage
 quantification from blood flow simulations. All treatments were able to
 reduce leakage and the IMA-AP device achieved better sealing and there was
 a correlation between the IMA-CS device length and the reduction in
 leakage. The results of this study can help in bringing IMA-AP to market,
 expand the use of IMA devices, and help optimize future designs of such
 devices.
description: The data include: - The coordinates of the
 deformed valves in their systolic positions and information if the node is
 in contact or not. In addition, triangulation of the nodes based on their
 IDs is provided. All files are saved as CSV. - The
 coordinates of the SPH particles from the leakage models (CSV file) with
 STL files for the geometry of the cavities of the left verntricle and
 atrium.
DOI: 10.15468/jhr693
title: Revisiting Nesaulax Roman (Hymenoptera, Braconidae, Braconinae), with description of a new species from China

description: This dataset contains the digitized treatments in Plazi based on the original journal article Li, Yang, van Achterberg, Cornelis, Yan, Cheng-Jin, Zhu, Jia-Chen, Chen, Xue-Xin (2026): Revisiting Nesaulax Roman (Hymenoptera, Braconidae, Braconinae), with description of a new species from China. ZooKeys 1267: 273-282, DOI: 10.3897/zookeys.1267.137062AbstractThe genus Nesaulax Roman, 1914 (Hymenoptera, Braconidae, Braconinae) is reported from China for the first time, and a new species (Nesaulax protuberator Li & van Achterberg, sp. nov.) is described and illustrated. Our pairwise genetic results indicated that four Nesaulax specimens from Thailand, Malaysia, and India in the BOLD system are conspecific with our newly described species. In addition, we report a new synonym: Nesaulax gracilis (Enderlein, 1920) syn. nov. of N. pravivena (Enderlein, 1920). A key to the species of the genus Nesaulax is provided for the first time.
DOI: 10.5061/dryad.3n5tb2rjc
title: Patterns of pollination interactions at community-level are related to the type and quantity of floral resources

description: 1. A fundamental question in community ecology is how the quantity of
 floral resources affects pollinator activity and how this relates to the
 structure and robustness of pollination networks. The issue has been
 mainly addressed at species level, while at community level several
 questions are still open. 2. Using a species-rich semi-natural grassland
 as model ecosystem, we explored the relationship between community-level
 quantity of floral resources, the number of flower visits at
 community-level and descriptors of the structure and robustness of
 pollination networks. To assess whether patterns of pollination
 interactions were consistent when using different types of floral
 resources, we measured three types of floral resources, namely the volume
 of nectar, the number of pollen grains and the number of flowers. 3.
 Community-level pollinator visitation rate showed a hump-shaped
 relationship with the quantity of floral resources. Results were
 consistent among models employing different measures of floral resources
 as independent variables. The relationship between the quantity of floral
 resources and the structure and robustness of the network was not
 consistent among different types of floral resources; only intermediate
 levels of nectar volume were associated with high levels of network
 robustness. 4. The pattern we found is in contrast with some former
 studies which reported positive linear relationships between the
 community-level visitation rate of pollinators and the quantity of floral
 resources. Rather, the observed hump-shaped pattern resembles the
 relationship previously found between the quantity of floral resources of
 a given plant species and its visitation rate per flower. Our results
 highlighted that, by using specific types of floral resources (e.g., the
 volume of nectar and the number of pollen grains) it is possible to reveal
 ecological processes that would be masked by using the number of flowers
 as the sole measure of floral resource.
DOI: 10.5061/dryad.kd51c5b6m
title: A global analysis of viviparity in squamates highlights its prevalence in cold climates

description: Aim: Viviparity has evolved more times in squamates than in any other
 vertebrate group. Therefore, squamates offer an excellent model system to
 study the patterns, drivers, and implications of reproductive mode
 evolution. Based on current species distributions we examined three
 selective forces hypothesized to drive squamate viviparity evolution: (1)
 cold climate, (2) variable climate, and (3) hypoxic conditions, and tested
 whether viviparity is associated with larger body size. Location: Global.
 Time period: present day. Taxon: Squamata. Methods: We compiled a dataset
 of 9,061 squamate species including their distributions, elevation,
 climate, body mass, and reproductive modes. We applied species-level and
 assemblage-level approaches for predicting reproductive mode, globally and
 within biogeographical realms. We tested the relationships of temperature,
 interannual and intra-annual climatic variation, elevation (as a proxy for
 hypoxic conditions), and body mass with reproductive mode, employing path
 analyses to account for correlations among the environmental predictors.
 Results: Viviparity was strongly associated with cold climates at both
 species and assemblage levels, despite the prevalence of viviparity in
 some warm climates. Viviparity was not clearly correlated with climatic
 variability or elevation. The probability of being viviparous was weakly
 positively correlated with body size. Conclusions: Although phylogenetic
 history is important, potentially explaining the occurrence of viviparous
 species in presently warm regions, current global squamate distribution is
 characterized by a higher relative abundance of viviparity in cold
 environments – supporting the prediction of the ‘cold-climate’ hypothesis.
 The roles of climatic variation and of hypoxia are less important and not
 straightforward. Elevation probably exerts various selective pressures and
 influences the prevalence of viviparity primarily through its effect on
 temperature rather than on oxygen concentration.
description: Required sofware: Microsoft office excel; R
DOI: 10.5061/dryad.crjdfn34r
title: Data and climate variable selection from: Effects of density, species interactions and environmental stochasticity on the dynamics of British bird communities

description: Our knowledge of the factors affecting species abundances is mainly based
 on time-series analyses of a few well-studied species at single or few
 localities, but we know little about whether results from such analyses
 can be extrapolated to the community level. We apply a Joint Species
 Distribution Model to long-term time-series data on British bird
 communities to examine the relative contribution of intra- and
 interspecific density dependence at different spatial scales, as well as
 the influence of environmental stochasticity, to spatio-temporal
 interspecific variation in abundance. Intraspecific density dependence has
 the major structuring effect on these bird communities. In addition,
 environmental fluctuations affect spatiotemporal differences in abundance.
 In contrast, species interactions had a minor impact on variation in
 abundance. Thus, important drivers of single-species dynamics are also
 strongly affecting dynamics of communities in time and space.
description: <strong>A)</strong> The raw data and corresponding
 information about location, habitat type and area (Marchant et al. 1990,
 Freeman et al. 2007). The raw data should be cited as Marchant et al.
 (1990) and Freeman et al. (2007).
 <strong>B)</strong> The three top-ranking
 combinations of species-specific time-windows of mean temperature (Temp)
 and precipitation sum (Prec) for each species, identified using a
 sliding-window approach. Months are denoted from 01 to 12 (January through
 December). The starting and closing month of the time-windows are
 indicated before and after the # symbol, so that for instance 09#08 runs
 from September through August. A number one indicates that the covariate
 was not included in the model. The topmost model for each species (in
 terms of AIC and deltaic values), which is selected for further analyses,
 is indicated in bold letters.
 <strong>References:</strong>
 Freeman, S. N., D. G. Noble,
 S. E. Newson, and S. R. Baillie. 2007. Modelling population changes using
 data from different surveys: the Common Birds Census and the Breeding Bird
 Survey. Bird Study 54:61-72. Marchant, J., R. Hudson, S. P. Carter, and P.
 Whittington. 1990. Population trends in British breeding birds.
 British Trust for
 Ornithology, Tring, Hertfordshire, UK
DOI: 10.5061/dryad.wdbrv15q1
title: Data from: Forest degradation limits the complementarity and quality of animal seed dispersal

description: Forest degradation changes the structural heterogeneity of forests and
 species communities, with potential consequences for ecosystem functions
 including seed dispersal by frugivorous animals. While the quantity of
 seed dispersal may be robust towards forest degradation, changes in the
 effectiveness of seed dispersal through qualitative changes are poorly
 understood. Here, we carried out extensive field sampling on the structure
 of forest microhabitats, seed deposition sites, and plant recruitment
 along three characteristics of forest microhabitats (canopy cover, ground
 vegetation, deadwood) in Europe’s last lowland primeval forest
 (Białowieża, Poland). We then applied niche modelling to study forest
 degradation effects on multi-dimensional seed deposition by frugivores and
 recruitment of fleshy-fruited plants. Forest degradation was shown to (1)
 reduce the niche volume of forest microhabitat characteristics by half,
 (2) homogenize the spatial seed deposition within and among frugivore
 species, and (3) limit the regeneration of plants via changes in seed
 deposition and recruitment. Our study shows that the loss of frugivores in
 degraded forests is accompanied by a reduction in the complementarity and
 quality of seed dispersal by remaining frugivores. In contrast,
 structure-rich habitats, such as old-growth forests, safeguard the
 diversity of species interactions, forming the basis for high-quality
 ecosystem functions.
description: For more information, see manuscript.
DOI: 10.5061/dryad.g4f4qrfr2
title: Causal coupling between European and UK markets triggered by announcements of monetary policy decisions

description: We investigate high-frequency reactions in the Eurozone stock market and
 the UK stock market during the time period surrounding the European
 Central Bank (ECB) and the Bank of England (BoE)'s interest rate
 decisions assessing how these two markets react and co-move influencing
 each other. The effects are quantified by measuring linear and non-linear
 transfer entropy combined with a Bivariate Empirical Mode Decomposition
 (BEMD) from a dataset of 1-minute prices for the Euro Stoxx 50 and the
 FTSE 100 stock indices. We uncover that central banks' interest rate
 decisions induce an upsurge in intraday volatility that is more pronounced
 on ECB announcement days and there is a significant information flow
 between the markets with prevalent direction going from the market where
 the announcement is made towards the other.
DOI: 10.5061/dryad.rv15dv48f
title: Relatedness modulates density-dependent cannibalism rates in Drosophila

description: 1. Cannibalism is taxonomically widespread, and can have large impacts on
 individual fitness and population-level processes. As such, identifying
 how cannibalism rates vary in response to ecological cues is important for
 predicting species evolution and population dynamics. 2. In this study, we
 aimed to identify several eco-evolutionary factors that affect cannibalism
 rate and measure how they interacted with one another. 3. To do this, we
 conducted two experiments using complimentary methods to measure how
 cannibalism rates varied among larval Drosophila melanogaster and
 Drosophila simulans in response to changes in conspecific relatedness,
 social familiarity and density. 4. We found that larvae were more likely
 to cannibalise non-related larval victims in both species, and that this
 effect increased at high densities in D. simulans. We found no evidence
 that Drosophila larvae use social familiarity to assess relatedness.
 Finally, in D. melanogaster, cannibalistic larvae prefer to cannibalise
 larvae that are being attacked by a greater number of conspecifics,
 implying that cues linked to conspecific abundance encourage cooperative
 cannibalism. 5. By showing that cannibalism frequency in Drosophila spp.
 is sensitive to relatedness and several other factors, we reveal the
 complex relationship between cannibalism frequency and species ecology.
 Also, by showing that the effect of relatedness on cannibalism frequency
 is density-dependent, we advance the current understanding of how
 ecological variables interact to affect kin selection. ANALYSIS CODE IS
 WRITTEN IN R.
DOI: 10.5061/dryad.vmcvdnctb
title: Age-by-maternal-age Markov chain with rewards analysis of variance in LRO in rotifers

description: This set of data and code files is a supplement to the American Naturalist
 paper: van Daalen et al. 2021 The contributions of maternal age
 heterogeneity to variance in lifetime reproductive output It provides the
 user the matrices (as first presented in Hernandez et al., 2020, PNAS) and
 the code to reproduce our analysis or apply the methods to their own data.
 Two multistate, age-by-maternal-age matrices with basic demographic
 information (survival and transitions, and fertility) are provided, as
 well as data to paramaterize a reward matrix. The code presents a Markov
 chain with rewards approach to calculating mean and variance in lifetime
 reproductive output from a multistate matrix model, and a method to
 decompose variance into contributions by individual heterogeneity (from
 maternal age) and stochasticity (due to inherent randomness in the
 outcomes of age-specific survival probabilities and age-specific
 reproductive output).
DOI: 10.15468/dl.6t9rkg
title: Occurrence Download

description: A dataset containing 102 species occurrences available in GBIF matching the query:
{
 "and" : [
 "CoordinateUncertaintyInMeters 0.0-5000.0",
 "TaxonKey is Eurycoma longifolia"
 ]
}

 The dataset includes 102 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002934-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.