cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.5542pr8
title: Data from: Taxon cycle predictions supported by model-based inference in Indo-Pacific trap-jaw ants (Hymenoptera: Formicidae: Odontomachus)

description: Non-equilibrium dynamics and non-neutral processes, such as
 trait-dependent dispersal, are often missing from quantitative island
 biogeography models despite their potential explanatory value. One of the
 most influential non-equilibrium models is the taxon cycle, but it has
 been difficult to test its validity as a general biogeographical
 framework. Here, we test predictions of the taxon-cycle model using six
 expected phylogenetic patterns and a time-calibrated phylogeny of
 Indo-Pacific Odontomachus (Hymenoptera: Formicidae: Ponerinae), one of the
 ant genera that E.O. Wilson used when first proposing the hypothesis. We
 used model-based inference and a newly developed trait-dependent dispersal
 model to jointly estimate ancestral biogeography, ecology (habitat
 preferences for forest interiors or “marginal” habitats, such as
 savannahs, shorelines, disturbed areas, etc), and the linkage between
 ecology and dispersal rates. We found strong evidence that habitat shifts
 from forest interior to open and disturbed habitats increased
 macroevolutionary dispersal rate. In addition, lineages occupying open and
 disturbed habitats can give rise to both island-endemics re-occupying only
 forest interiors and taxa that re-expand geographical ranges. The
 phylogenetic predictions outlined in this study can be used in future work
 to evaluate the relative weights of neutral (e.g., geographical distance
 and area) and non-neutral (e.g., trait-dependent dispersal) processes in
 historical biogeography and community ecology.
description: Odontomachus_MultilocusThis is the multi-locus (six genes) alignment with 112 Odontomachus specimens. This dataset has been used to infer the phylogenetic relationships within the genus Odontomachus.Odontomachus_MultiMarker.nexSingle-gene datasetsThese are the alignments of each of the six loci used in the study. These files have been run in MrBayes v3.2.3.SingleGene.zipBEAST xml filesThese are three relevant files for time-calibration analyses of Odontomachus. The multi-locus alignment with one specimen per species is in nexus format, whereas two xml files can be found, one following the calibration density approach (minimum ages of fossils) and the second following the Fossilized Birth Death model.BEAST.zipBioGeoBEARSThese are all relevant files to run the BioGeoBEARS R script available at http://phylo.wikidot.com/biogeobears#toc31. The input files were used for biogeographical analyses of Odontomachus, including stochastic mapping and the the trait-dependent biogeography model.Sampling localitiesSampling localities informationAppendixS2.xls
DOI: 10.5061/dryad.8bg44b0
title: Data from: Divergent temporal trends of net biomass change in western Canadian boreal forests

description: 1. Forests play a strong role in the global carbon cycle by absorbing
 atmospheric carbon dioxide through increasing forest biomass.
 Understanding temporal trends of forest net aboveground biomass change
 (ΔAGB) can help infer how forest carbon sequestration responds to on-going
 climate changes. Despite wide spatial variation in the long-term average
 of climate moisture availability (CMIaverage) across forest ecosystems,
 temporal trends of ΔAGB associated with CMIaverage remains unclear. 2. We
 tested the hypothesis that the extent of negative impacts of climate
 change on ΔAGB would decrease with CMIaverage using the data from
 permanent sample plots of varying ages from 17 to 210 years, monitored
 from 1958 to 2011 in western boreal forests of Canada. 3. We found that
 ΔAGB on average increased with CMIaverage. Temporally, ΔAGB declined
 sharply between 1958 and 2011 in plots with low CMIaverage owing to
 increased biomass loss from mortality accompanied by little growth gain,
 whereas ΔAGB changed little in plots with high CMIaverage. The temporal
 decrease of ΔAGB in drier areas was attributable to its negative responses
 to warming-induced temporal decreases in climate moisture availability. 4.
 Synthesis. Our results indicate that large-scale changes in forest carbon
 functioning associated with climate change depend on the long-term average
 of climate moisture availability. Our finding suggests a possible retreat
 of boreal biome at the drier distribution limits with predicted declines
 in water availability in the 21st century.
description: Data from: Divergent
 temporal trends of net biomass change in western Canadian boreal
 forestsdata.csv
DOI: 10.5061/dryad.8vr1001
title: Data from: Platichthys solemdali sp. nov. (Actinopterygii, Pleuronectiformes): a new flounder species from the Baltic Sea

description: The European flounders Platichthys flesus (Linnaeus, 1758) displays two
 contrasting reproductive behaviors in the Baltic Sea: offshore spawning of
 pelagic eggs and coastal spawning of demersal eggs, a behavior observed
 exclusively in the Baltic Sea. Previous studies showed marked differences
 in behavioral, physiological, and life-history traits of flounders with
 pelagic and demersal eggs. Furthermore, a recent study demonstrated that
 flounders with pelagic and demersal eggs represent two reproductively
 isolated, parapatric species arising from two distinct colonization events
 from the same ancestral population. Using morphological data we first
 established that the syntypes on which the original description of P.
 flesus was based belong the pelagic-spawning lineage. We then used a
 combination of morphological and physiological characters as well as
 genome-wide genetic data to describe flounders with demersal eggs as a new
 species: Platichthys solemdali sp. nov. The new species can be clearly
 distinguished from P. flesus based on egg morphology, egg and sperm
 physiology as well as via population genetic and phylogenetic analyses.
 While the two species do show some minor morphological differences in the
 number of anal and dorsal fin rays, no external morphological feature can
 be used to unambiguously identify individuals to species. Therefore, we
 developed a simple molecular diagnostic test able to unambiguously
 distinguish P. solemdali from P. flesus with a single PCR reaction, a tool
 that should be useful to fishery scientists and managers, as well as to
 ecologist studying these species.
description: 2b_RAD_datasetVCF file of the final, filtered 2b-RAD dataset (40 individuals, 5861 loci).Alignemnt_RAXMLSupermatrix of 5861 concatenated SNPs used for phylogeny constructionOutliers_genotypesComma delimited file containing the individual genotypes for each outlier locus. The first 235 individuals are reference P. flesus (labeled as "pelagic") and P. solemdali (labeled as "demersal") from Momigliano et al. (2017, PNAS 114 (23) 6074-6079). The rest of the data are the individuals genotyped in this study. Alleles from the same locus are separated with a "|", and coded as 1(A), 2(C), 3(G) and 4 (T).Libraries statsBasic descriptive stats for 2b-RAD libraries, including number of raw reads, deduplicated reads (removing PCR duplicates), quality filtered unique reads, coverage and number of genotyped loci for each individual.Libraries_stats.csv
DOI: 10.5061/dryad.nf1kf60
title: Data from: Facile synthesis of NiCo2S4/CNTs nanocomposites for high-performance supercapacitors

description: Herein, porous NiCo2S4/CNTs nanocomposites were synthesized via a simple
 hydrothermal method followed by the sulfurization process using different
 sulfide sources. By comparing two different sulfur sources, the samples
 using thioacetamide as sulfide source delivered more remarkable
 electrochemical performance with a high specific capacitance of 1765 F/g
 at 1 A/g and an admirable cycling stability with capacitance retention of
 71.7% at a high current density of 10 A/g after 5000 cycles in 2 M KOH
 aqueous electrolyte. Furthermore, an asymmetric supercapacitor (ASC)
 device was successfully fabricated with the NiCo2S4/CNTs electrode as the
 positive electrode and graphene as the negative electrode. The device
 provided a maximum energy density of 29.44 Wh/kg at a power density of 812
 W/kg. Even at a high power density of 8006 W/kg, the energy density still
 reaches 16.68 Wh/kg. Moreover, the ASC presents 89.8% specific capacitance
 retention after 5000 cycles at 5 A/g. These results reveal its great
 potential for supercapacitors in electrochemical energy storage field.
description: DataThe rar file contains
 the original data of Figure 1 to Figure 6, and Figure S1 to Figure
 S6.data.rar
DOI: 10.5061/dryad.77v1s92
title: Data from: Periodic, parasite-mediated selection for and against sex

description: Asexual lineages should rapidly replace sexual populations. Why sex then?
 The Red Queen hypothesis proposes that parasite-mediated selection against
 common host genotypes could counteract the per-capita birth rate advantage
 of asexuals. Under the Red Queen, fluctuations in parasite-mediated
 selection can drive fluctuations in the asexual population, leading to the
 coexistence of sexual and asexual reproduction. Does shifting selection by
 parasites drive fluctuations in the fitness and frequency of asexuals in
 nature? Combining long-term field data with mesocosm experiments, we
 detected a shift in the direction of parasite selection in the snail
 Potamopyrgus antipodarum and its coevolving parasite Microphallus sp. In
 the early 2000's, asexuals were more infected than sexuals. A decade
 later, the asexuals had declined in frequency and were less infected than
 sexuals. Over time, the mean infection prevalence of asexuals equaled that
 of sexuals, but varied far more. This variation in asexual infection
 prevalence suggests the potential for parasite-mediated fluctuations in
 asexual fitness. Accordingly, we detected fitness consequences of the
 shift in parasite selection: when they were less infected than sexuals,
 asexuals increased in frequency in the field and in paired mesocosms that
 isolated the effect of parasites. The match between field and experiment
 argues that coevolving parasites drive temporal change in the relative
 fitness and frequency of asexuals, potentially promoting the coexistence
 of reproductive modes in P. antipodarum.
description: Field-2001-2005field data on infection prevalence and asexual frequency from 2001-2005; from Vergara et al. 2014 Am NatField-2012-2016field data on infection prevalence and asexual frequency from 2012-2016Field-2012-2016_withmalesfield data on infection prevalence and asexual frequency from 2012-2016; modified for analyzing data with malesBins_adultsdata from experimental mesocosms; infection rate and asexual frequency in parent generationBins_adults_withmalesdata from experimental mesocosms; infection rate and asexual frequency in parent generation; modified for analysis with malesBins_babiesdata from experimental mesocosms; asexual frequency in offspring generationBins_adults-babiesdata from experimental mesocosms; parent and offspring data combinedGibsonetal2018_analysis-codes_field-datacodes for analysis and graphing of all field dataGibsonetal2018_analysis-codes_experimental-datacodes for analysis and graphing of all experimental data
DOI: 10.5061/dryad.3503s21
title: Data from: Population genomics of rapid evolution in natural populations: polygenic selection in response to power station thermal effluents

description: Background: Examples of rapid evolution are common in nature but difficult
 to account for with the standard population genetic model of adaptation.
 Instead, selection from the standing genetic variation permits rapid
 adaptation via soft sweeps or polygenic adaptation. Empirical evidence of
 this process in nature is currently limited but accumulating. Results: We
 provide genome-wide analyses of rapid evolution in two Fundulus
 heteroclitus populations subjected to recently elevated temperatures due
 to coastal power station thermal effluents. Bayesian and multivariate
 analyses of population genomic structure reveal a substantial portion of
 genetic variation that is most parsimoniously explained by selection at
 the site of thermal effluents. An FST outlier approach in conjunction with
 additional conservative requirements identify significant allele frequency
 differentiation that exceeds neutral expectations among exposed and
 closely related reference populations. Genomic variation patterns near
 these candidate loci reveal that individuals living near thermal effluents
 have rapidly evolved from the standing genetic variation through small
 allele frequency changes at many loci in a pattern consistent with
 polygenic selection on the standing genetic variation. Conclusions: While
 the ultimate trajectory of selection in these populations is unknown, our
 findings suggest that polygenic models of adaptation may play important
 roles in large, natural populations experiencing recent selection due to
 environmental changes that cause broad physiological impacts.
description: full_filt.vcfFully filtered vcf file containing the genotypes for the 239 individuals genotyped at 5,907 single nucleotide polymorphisms used in the final analysis of this study. Population of origin is encoded by first two letters of the sample id. Population locations are below. Site Lat Long HB 41.509056 -71.045806 SR 41.379712 -71.5263 BP 41.714325 -71.188497 RB 39.51444444 -74.31583333 OC 39.8082 -74.1850805 MG 40.05055556 -74.07027778
DOI: 10.5061/dryad.0m27218
title: Data from: Understanding the recruitment response of juvenile Neotropical trees to logging intensity using functional traits

description: Selective-logging remains a widespread practice in tropical forests, yet
 the long-term effects of timber-harvest on juvenile tree (i.e., sapling)
 recruitment across the hundreds of species occurring in most tropical
 forests, remain difficult to predict. This uncertainty could potentially
 exacerbate threats to some of the thousands of timber-valuable tree
 species in the Amazon. Our objective was to determine to what extent
 long-term responses of tree species regeneration in logged forests can be
 explained by their functional traits. We integrate functional trait data
 for 13 leaf, stem, and seed traits from 25 canopy tree species with a
 range of life histories, such as the pioneer Goupia glabra and the
 shade-tolerant Iryanthera hostmannii, together with over 30-years of
 sapling monitoring in permanent plots spanning a gradient of harvest
 intensity at the Paracou Forest Disturbance Experiment (PFDE), French
 Guiana. We anticipated that more-intensive logging would increase
 recruitment of pioneer species with higher specific leaf area, lower wood
 densities, and smaller seeds, due to the removal of canopy trees. We
 define a recruitment response metric, to compare recruitment responses to
 timber-harvest intensity across species. Although not statistically
 significant, sapling recruitment decreased with logging intensity for
 eight of 23 species, and these species tended to have large seeds and
 dense wood. A generalized linear mixed model fit using specific leaf area,
 seed mass, and twig density data explained about 45 percent of the
 variability in sapling dynamics. Effects of specific leaf area outweighed
 those of seed mass and wood density in explaining recruitment dynamics of
 the sapling community in response to increasing logging intensity. The
 most intense treatment at the PFDE, which includes stand-thinning of
 non-timber-valuable adult trees and poison-girdling for competitive
 release, showed evidence of shifting community composition in sapling
 regeneration at the 30-year mark, toward species with less dense wood,
 lighter seeds, and higher specific leaf area. Our results indicate that
 high-intensity logging can have lasting effects on stand regeneration
 dynamics and that functional traits can help simplify general trends of
 sapling recruitment for highly-diverse logged tropical forests.
description: BDD-2016-MJ (version
 épurée et corrigée)_Paracou Sapling DynamicsSapling census data from
 the Paracou Forest Disturbance Experiment, French Guiana. Data are from 64
 circular regeneration census plots (per experimental plot; n = 12). Plots
 are arranged in an 8x8 fashion (columns and lines 3-10). See methods
 and/or metadata for further details.
DOI: 10.5061/dryad.4ph0r22
title: Data from: From welcome culture to welcome limits? Uncovering preference changes over time for sheltering refugees in Germany

description: Europe recently experienced a large influx of refugees, spurring much
 public debate about the admission and integration of refugees and migrants
 into society. Previous research based on cross-sectional data found that
 European citizens generally favour asylum seekers with high employability,
 severe vulnerabilities, and Christians over Muslims. These preferences and
 attitudes were found to be homogeneous across countries and
 socio-demographic groups. Here, we do not study the general acceptance of
 asylum seekers, but the acceptance of refugee and migrant homes in
 citizens’ vicinity and how it changes over time. Based on a repeated
 stated choice experiment on preferences for refugee and migrant homes, we
 show that the initially promoted “welcome culture” towards refugees in
 Germany was not reflected in the views of a majority of a sample of German
 citizens who rather disapproved refugee homes in their vicinity. Their
 preferences have not changed between November 2015, the peak of “welcome
 culture,” and November 2016, after political debates, media reporting and
 public discourse had shifted towards limiting admission of immigrants. A
 minority of one fifth of the sample population, who were initially rather
 approving of refugee and migrant homes being established in their
 vicinity, were more likely to change their preferences towards a rather
 disapproving position in 2016. Experience of contact with refugees and
 migrants, higher education, and general pro-immigration attitudes explain
 acceptance of refugee and migrant homes as well as preference stability
 over time. Country of origin and religion of refugees and migrants are
 considered less important than decent housing conditions and whether
 refugee and migrants arrive as families or single persons. In this respect
 our results highlight the importance of humanitarian aspects of sheltering
 and integration of refugees and other migrants into society.
description: Data preferences both
 wavesComplete data at the
 choice task level for both waves 2015 and 2016datapreferencesbothwaves.xlsxCode_for_Latent_Gold
DOI: 10.5061/dryad.g05350g
title: Data from: Epitaxial K0.5Na0.5NbO3 thin films by aqueous chemical solution deposition

description: We report on an environmental friendly and versatile aqueous chemical
 solution deposition route to epitaxial K0.5 Na0.5NbO3 (KNN) thin films.
 The route is based on spin coating of an aqueous solution of soluble
 precursors on SrTiO3 single crystal substrates followed by pyrolysis at
 400 °C and annealing at 800 °C using rapid thermal processing. Strongly
 textured films with homogeneous thickness were obtained on three different
 crystallographic orientations of SrTiO3. Epitaxial films were obtained on
 (111) SrTiO3 substrates, while films consisting of an epitaxial layer
 close to the substrate followed by an oriented polycrystalline layer were
 obtained on (100) and (110) SrTiO3 substrates. A K2Nb4O11 secondary phase
 was observed on the surface of the thin films due to evaporation of alkali
 species, while the use of a NaCl/KCl flux reduced the amount of the
 secondary phase. Ferroelectric behavior of the films was investigated by
 PFM, and almost no dependence on the film crystallographic orientation was
 observed. The permittivity and loss tangent of the films with the NaCl/KCl
 flux were 870 and 0.04 (100-orientation) and 2250 and 0.025
 (110-orientation), respectively, at 1 kHz.
description: GIXRD
 dataAll GIXRD data used in
 the paper, i.e. GIXRD for KNN with and without salt flux on 100 STO, 110
 STO and 111 STO. In addition to this there is GIXRD data on KNN-E-100 thin
 film heat treated at 700, 800 and 900 degrees celsius (as referred to in
 the paper).GIXRD.xlsxTheta-2theta XRD dataAll theta-2theta data used in the paper, i.e. for KNN thin films with and without salt flux on 100 STO, 110 STO and 111 STO.Theta_2theta_XRD_data.xlsxPiezoresponse dataAll piezoresponse data used in the paper. This includes PR amplitude, PR phase, dielectric permittivity and loss tangent measurements.Piezoresponse_data.xlsxTGA dataData for the TGA measurement referred to in the paper (alkali loss observed at elevated temperatures.KNN-TG.txtTGA plotThe TGA measurement referred to in the paper (alkali loss observed at elevated temperatures), plotted.TGA-MS data.pngTEM image of plate-like grainsTEM image of plate-like grains at the surface of the KNN-ES-100 thin film, as referred to in the paper.Suppl_figure_B_TEM.JPG
DOI: 10.5061/dryad.406ms4g
title: Data from: Microclimatic buffering in forests of the future: the role of local water balance

description: Forest canopies buffer climate extremes and promote microclimates that may
 function as refugia for understory species under changing climate.
 However, the biophysical conditions that promote and maintain
 microclimatic buffering and its stability through time are largely
 unresolved. We posited that forest microclimatic buffering is sensitive to
 local water balance and canopy cover, and we measured this effect during
 the growing season across a climate gradient in forests of the
 northwestern United States (US). We found that forest canopies buffer
 extremes of maximum temperature and vapor pressure deficit (VPD) during
 the growing season, with biologically meaningful effect sizes. For
 example, during the growing season, maximum temperature and VPD under at
 least 50% forest canopy were 5.3°C and 1.1 kPa lower on average,
 respectively, compared to areas without canopy cover. Canopy buffering of
 temperature and vapor pressure deficit was greater at higher levels of
 canopy cover, and varied with water balance, implying that buffering
 effects are subject to changes in local hydrology. We project changes in
 the water balance for the mid-21st century and predict how such changes
 may impact the ability of western US forests to buffer climate extremes.
 Our results suggest that some forests will lose their capacity to buffer
 climate extremes as sites become increasingly water limited. Changes in
 water balance combined with accelerating canopy losses due to increases in
 the frequency and severity of disturbance will create potentially
 non-linear changes in the microclimate conditions of western US forests.
description: Processed_microclimate_dataThis data file contains the daily maximum and minimum temperature, relative humidity, and vapor pressure deficit at each sensor used in the final analysis of the manuscript. It also includes information about the sensor and subplot such as percent canopy cover and sensor height (10 cm or 2 m above ground level).