cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.7910/dvn/i9unl7
title: Temperature-dependent polarized Raman scattering in candidate topological superconductor 2M-WS2

description: The monoclinic 2M phase of tungsten disulfide (2M-WS₂) has emerged as a promising platform for topological superconductivity, combining topological surface states, anisotropic thermoelectric response, and superconductivity with a critical temperature of ~8.8 K. A detailed understanding of its electron-phonon coupling and phonon anharmonicity is, however, still lacking. Here, we investigate the phonon properties of few-layer 2M-WS₂ as functions of laser power, temperature, polarization, and magnetic field using polarized Raman spectroscopy down to 12.5 K. We uncover an unusual, non-linear temperature dependence of the Raman shifts in selected modes, consistent with strong, mode-dependent electron-phonon interactions that dominate over phonon-phonon scattering at low temperatures. Angle-resolved polarized Raman measurements further reveal a pronounced change in the polarization behavior of the A_g (4) mode at ~316 cm⁻¹ upon cooling, indicating a modification of the underlying lattice and electronic anisotropy. In contrast, the applied magnetic field has a negligible influence on the Raman response over the measured temperature range. Together, these results advance the microscopic understanding of vibrational dynamics and electron-phonon coupling in few-layer 2M-WS₂ and provide important insight into the lattice-electronic interplay relevant for its unconventional superconductivity and potential quantum and thermoelectric device applications.
DOI: 10.5061/dryad.gv13nm40
title: Data from: Genomic consequences of genetic rescue in an insular population of bighorn sheep (Ovis canadensis)

description: Genetic rescue is a management intervention whereby a small population is
 supplemented with individuals from other populations in an attempt to
 reverse the effects of inbreeding and increased genetic load. One such
 rescue was recently documented in the population of bighorn sheep (Ovis
 canadensis) within the National Bison Range wildlife refuge (Montana,
 USA). Here we examine the locus-specific effects of rescue in this
 population using a newly developed genome-wide set of 195 microsatellite
 loci and first-generation linkage map. We found that the rate of
 introgression varied among loci, and that 111 loci, 57% of those examined,
 deviated from patterns of neutral inheritance. The most common deviation
 was an excess of homozygous genotypes relative to neutral expectations,
 indicative of directional selection. As in previous study of this rescue,
 individuals with more introduced alleles had higher lifetime reproductive
 success and longevity. In addition, we found 30 loci, spread throughout
 the genome, which seem to have individual effects on these life history
 traits. Though the potential for outbreeding depression is a major concern
 when translocating individuals between populations, we found no evidence
 of such effects in this population.
description: NBR
 genotyoesMicrosatellite genotype
 data for bighorn sheep (Ovis canadensis) from National Bison Range in
 Montana, USA. Columns A-C contain locus names, linkage group (lg), and
 position on the linkage group respectively. Subsequent columns are
 individual genotypes. For individual genotypes row 1 indicates if the
 individual is an NBR founder (ParentPop1), a transplanted individual
 (ParentPop2), or a hybrid progeny (Hybrid); row 2 is the individual ID
 corresponding to the modeling table. Missing data is coded as
 NA/NA.NBR
 modeling_tableData used for analyses
 of geographic ancestry and individual fitness. Column headings for columns
 A-G are as follows: ID = individual ID (corresponding to that in genotype
 data, Gender = sex of the sheep, h.index = hybrid index value as
 calculated from INTROGRESS analyses, Year_Birth = year of birth or
 introduction, Longevity = longevity as of 2010, Progeny = number of
 progeny that individual contributed to the pedigree, Introduced = binary
 indicator if that sheep was introduced to the population or not.
 Subsequent columns are genotypes at each locus coded as a factor with
 three levels (0, 1, or 2) corresponding to the number of alleles predicted
 to be derived from founders during the INTROGRESS analysis. Missing data
 is coded as NA.
DOI: 10.5061/dryad.1jn5887
title: Data from: Ecological differentiation facilitates fine-scale coexistence of sexual and asexual Boechera

description: Premise of the study: Ecological differentiation (ED) between sexual and
 asexual organisms may permit the maintenance of reproductive polymorphism.
 Several studies of sexual/asexual ED in plants have shown that the
 geographic ranges of asexuals extend beyond those of sexuals, often in
 areas of higher latitude or elevation. But very little is known about ED
 at fine scales, wherein coexistence of sexuals and asexuals may be
 permitted by differential niche occupation. Methods: We used 149
 populations of sexual and apomictic lineages in the genus Boechera (rock
 cress) collected across a portion of this mustard’s vast range. We
 characterized reproductive mode, ploidy, and species identity or hybrid
 parentage of each individual, and then used a multi-pronged statistical
 approach to 1) identify ED between sexuals and asexuals; 2) investigate
 the impacts of two confounding factors, polyploidy and hybridization, on
 ED; and 3) determine the environmental variables underlying ED. Key
 results: We found that sexuals and asexuals are significantly ecologically
 differentiated across the landscape, despite fine-scale interdigitation of
 these two reproductive forms. Asexual reproduction was strongly associated
 with greater disturbance, reduced slope, and greater environmental
 variability. Although ploidy had little effect on the patterns observed,
 hybridization has a unique impact on the relationships between asexual
 reproduction and specific environmental variables. Conclusions: Ecological
 differentiation along the axes of disturbance, slope, and climatic
 variability, as well as the effects of heterozygosity, may contribute to
 the maintenance of sexuality and asexuality across the landscape,
 ultimately impacting the establishment and spread of asexual lineages.
description: MicrosatelliteData_Rushworthetal_AJB_2018This data file includes microsatellite allele calls for all individuals in this publication.EnvironmentAnalyses_Rushworthetal_AJB_2018This R code can perform all environmental analyses from this manuscript using the environmental data sets.FullEnvironmentalData_Rushworthetal_AJB_2018This data file contains identifying information for each individual and environmental variables for each population. Each individual is represented by a single row, and multiple rows represent a single population.PopEnvironmentalData_Rushworthetal_AJB_2018This data file contains environmental variables and identifying information for each population in the study. Each population is represented by a single row.FC3FullEnvironmentalData_Rushworthetal_AJB_2018This data file contains identifying information and environmental variables for the individuals relevant to FC3. Each row represents a single individual, and multiple rows make up a single population.FC3PopEnvironmentalData_Rushworthetal_AJB_2018This data file contains identifying information and environmental variables for the populations relevant to FC3. Each row represents a single population.
DOI: 10.5061/dryad.7sd66
title: Data from: Harnessing stratigraphic bias at the section scale: conodont diversity in the Homerian (Silurian) of the Midland Platform, England

description: Fossil abundance and diversity in geological successions are subject to
 bias arising from shifting depositional and diagenetic environments,
 resulting in variable rates of fossil accumulation and preservation. In
 simulations, this bias can be constrained based on sequence-stratigraphic
 architecture. Nonetheless, a practical quantitative method of
 incorporating the contribution of sequence-stratigraphic architecture in
 community palaeoecology and diversity analyses derived from individual
 successions is missing. As a model of faunal turnover affected by the
 stratigraphic bias, we use the ‘Mulde event’, a postulated mid-Silurian
 interval of elevated conodont turnover, which coincides with global
 eustatic sea-level changes and which has been based on regionally
 constrained observations. We test whether conodont turnover is highest at
 the boundary corresponding to the ‘event’ and post-‘event’ interval
 against the alternative that conodont turnover reflects habitat tracking
 and peaks at facies shifts. Based on the previously documented,
 parasequence-level stratigraphic framework of sections in the northern and
 central part of the Midland Platform, the relative controls of
 sequence-stratigraphic architecture, time and depositional environment
 over conodont distribution are evaluated using permutational multivariate
 analysis of variance. The depositional environment controls the largest
 part of variability in conodont assemblage composition, whereas the
 postulated ‘Mulde event’, or genuine temporal change in conodont
 diversity, cannot be detected. Depending on the binning of the
 stratigraphic succession, contrasting diversity and turnover patterns can
 be produced. The simple approach proposed here, emulating partitioning of
 β diversity into spatial and temporal components, may help to constrain
 the stratigraphic bias, even at the scale of an individual section.
description: Supplementary
 TextAdditional information
 on geological localities and conodont distribution.Supplementary_Text.pdfSupplementary Table 1 - Conodont countsCounts of individual conodonts in each sampleSupplementary table 2 - diversityAlpha and gamma diversity for each unit analysed in the studySupplementary_table2 - diversity.xlsxSupplementary table 3 - turnoverTurnover (beta diversity) between each pair of units analysed in the studySupplementary_table3 - turnover.xlsx
DOI: 10.5061/dryad.17h0t
title: Data from: Divergent natural selection drives the evolution of reproductive isolation in an Australian wildflower

description: Ecological speciation occurs when reproductive isolation evolves between
 populations adapting to contrasting environments. A key prediction of this
 process is that the fitness of hybrids between divergent populations
 should be reduced in each parental environment as a function of the
 proportion of local genes they carry, a process resulting in ecologically
 dependent reproductive isolation (RI). To test this prediction, we use
 reciprocal transplant experiments between adjacent populations of an
 Australian wildflower, Senecio lautus, at two locations to distinguish
 between ecologically dependent and intrinsic genetic reproductive
 barriers. These barriers can be distinguished by observing the relative
 fitness of reciprocal backcross hybrids, as they differ in the
 contribution of genes from either parent while controlling for any
 intrinsic fitness effects of hybridization. We show ecologically dependent
 fitness effects in establishment and survival of backcrosses in one
 transplant experiment, and growth performance in the second transplant
 experiment. These results suggests natural selection can create strong
 reproductive barriers that maintain differentiation between populations
 with the potential to interbreed, and implies a significant role for
 ecology in the evolutionary divergence of S. lautus.
description: survival and phenotype
 datasurvival and phenotype
 data for experiments from coffs harbour (CH) and Lennox Head
 (LH)15-0934.R2_data.xls
DOI: 10.5061/dryad.752153b
title: Data from: 18F-fluorodeoxyglucose positron-emission tomography (FDG-PET)-Radiomics of metastatic lymph nodes and primary tumor in non-small cell lung cancer (NSCLC) – A prospective externally validated study

description: Background: Lymph node stage prior to treatment is strongly related to
 disease progression and poor prognosis in non-small cell lung cancer
 (NSCLC). However, few studies have investigated metabolic imaging features
 derived from pre-radiotherapy 18F-fluorodeoxyglucose (FDG)
 positron-emission tomography (PET) of metastatic hilar/mediastinal lymph
 nodes (LNs). We hypothesized that these would provide complementary
 prognostic information to FDG-PET descriptors to only the primary tumor
 (tumor). Methods: Two independent cohorts of 262 and 50 node-positive
 NSCLC patients were used for model development and validation. Image
 features (i.e. Radiomics) including shape and size, first order
 statistics, texture, and intensity-volume histograms (IVH)
 (http://www.radiomics.io/) were evaluated by univariable Cox regression on
 the development cohort. Prognostic modeling was conducted with a 10-fold
 cross-validated least absolute shrinkage and selection operator (LASSO),
 automatically selecting amongst FDG-PET-Radiomics descriptors from (1)
 tumor, (2) LNs or (3) both structures. Performance was assessed with the
 concordance-index. Development data are publicly available at
 www.cancerdata.org and Dryad (doi:10.5061/dryad.752153b). Results: Common
 SUV descriptors (maximum, peak, and mean) were significantly related to
 overall survival when extracted from LNs, as were LN volume and tumor load
 (summed tumor and LNs’ volumes), though this was not true for either SUV
 metrics or tumor’s volume. Feature selection exclusively from imaging
 information based on FDG-PET-Radiomics, exhibited performances of (1) 0.53
 –external 0.54, when derived from the tumor, (2) 0.62 –external 0.56 from
 LNs, and (3) 0.62 –external 0.59 from both structures, including at least
 one feature from each sub-category, except IVH. Conclusion: Combining
 imaging information based on FDG-PET-Radiomics features from tumors and
 LNs is desirable to achieve a higher prognostic discriminative power for
 NSCLC.
description: Radiomics.PET.featuresPET features used in model development: imaging features computed for tumor (Tumor) and merging structure including involved lymph nodes (Nodes). Survival information (in years) is available for all patients under analysis (status: 1 - deceased, 0 - alive).PET.Nodes.FeaturesThis file comprises the data used in the sub-analysis as described in the "Supporting Information - Feature Selection" file.Nodes.subAnalysis.xlsx
DOI: 10.5061/dryad.g58811v
title: Data from: Correlation of neurochemical and imaging markers in migraine PACAP38 and DTI measures

description: Objective: This exploratory study examines whether interictal plasma
 pituitary adenylate cyclase-activating peptide 38-like immunoreactivity
 shows correlation with the microstructural integrity of the white matter
 in migraine. Methods: Interictal plasma pituitary adenylate
 cyclase-activating peptide 38-like immunoreactivity was measured by
 radioimmunoassay in 26 migraine patients (24 females) who underwent
 diffusion tensor imaging (DTI) afterwards using a 1.5T MR scanner. Data
 were analysed using Tract-based Spatial Statistics (TBSS) included in
 FMRIB’s Software Library (FSL). Results: Interictal plasma pituitary
 adenylate cyclase-activating peptide 38-like immunoreactivity showed
 significant correlation with mean diffusivity (p&lt;0.0179) mostly in
 the bilateral occipital white matter spreading into parietal and temporal
 white matter. Axial and radial diffusivity showed positive correlation
 with interictal pituitary adenylate cyclase.activating peptide 38-like
 immunoreactivity (p&lt;0.0432 and p&lt;0.0418, respectively) in
 the left optic radiation and left posterior corpus callosum. Fractional
 anisotropy did not correlate significantly with pituitary adenylate
 cyclase-activating peptide 38-like immunoreactivity. With disease duration
 as a nuisance regressor in the model, pituitary adenylate
 cyclase-activating peptide 38-like immunoreactivity correlated with axial
 and mean diffusivity in the left thalamus (p&lt;0.01). Conclusion: We
 report a link between pituitary adenylate cyclase-activating peptide 38, a
 pathobiologically important neurochemical biomarker, and imaging markers
 of the disease that may bolster further research into the role of
 pituitary adenylate cyclase-activating peptide 38 in migraine.
description: Supplementary
 materialDifferences in the
 relationship between PACAP38-LI and diffusion measures in migraine with
 and without aurasuppl_mat.pdf
DOI: 10.5061/dryad.4v700
title: Data from: Phenotype-dependent selection underlies patterns of sorting across habitats: the case of stream-fishes

description: Spatial and temporal heterogeneity within landscapes influences the
 distribution and phenotypic diversity of individuals both within and
 across populations. Phenotype-habitat correlations arise either through
 phenotypes within an environment altering through the process of natural
 selection or plasticity, or phenotypes remaining constant but individuals
 altering their distribution across environments. The mechanisms of
 non-random movement and phenotype-dependent habitat choice may account for
 associations within highly heterogeneous systems, such as streams, where
 local adaptation may be negated, plasticity too costly and movement is
 particularly important. Despite growing attention, however, few empirical
 tests have yet to be conducted. Here we provide a test of
 phenotype-dependent habitat choice and ask: 1) if individuals collected
 from a single habitat type continue to select original habitat; 2) if
 decisions are phenotype-dependent and functionally related to habitat
 requirements; and 3) if phenotypic-sorting continues despite increasing
 population density. To do so we both conducted experimental trials
 manipulating the density of four stream-fish species collected from either
 a single riffle or pool and developed a game-theoretical model exploring
 the influence of individuals’ growth rate, sampling and competitive
 abilities as well as interference on distribution across two habitats as a
 function of density. Our experimental trials show individuals selecting
 original versus alternative habitats differed in their morphologies, that
 morphologies were functionally related to habitat-type swimming demands,
 and that phenotypic-sorting remained significant (although decreased) as
 density increased. According to our model this only occurs when phenotypes
 have contrasting habitat preferences and only one phenotype disperses
 (i.e. selects alternatives) in response to density pressures. This
 supports our explanation that empirical habitat selection was due to a
 combination of collecting a fraction of mobile individuals with different
 habitat preferences and the exclusion of individuals via scramble
 competition at increased densities. Phenotype-dependent habitat choice can
 thereby account for observed patterns of natural stream-fish distribution.
description: DataJacobsonetal2017This file contains the density level, trial, selected habitat, partial warp and length and size variables for each of the individuals and species tested within artificial stream experiments.
DOI: 10.5061/dryad.5rg73
title: Data from: Field measurements of genotype by environment interaction for fitness caused by spontaneous mutations in Arabidopsis thaliana

description: As the ultimate source of genetic diversity, spontaneous mutation is
 critical to the evolutionary process. The fitness effects of spontaneous
 mutations are almost always studied under controlled laboratory conditions
 rather than under the evolutionarily relevant conditions of the field. Of
 particular interest is the conditionality of new mutations - i.e., is a
 new mutation harmful regardless of the environment in which it is found?
 In other words, what is the extent of genotype-environment interaction for
 spontaneous mutations? We studied the fitness effects of 25 generations of
 accumulated spontaneous mutations in Arabidopsis thaliana in two
 geographically widely separated field environments, in Michigan and
 Virginia. At both sites, mean total fitness of MA lines exceeded that of
 the ancestors, contrary to the expected decrease in the mean due to new
 mutations but in accord with prior work on these MA lines. We observed
 genotype-environment interactions in the fitness effects of new mutations,
 such that the effects of mutations in Michigan were a poor predictor of
 their effects in Virginia and vice versa. In particular, mutational
 variance for fitness was much larger in Virginia compared to Michigan.
 This strong genotype-environment interaction would increase the amount of
 genetic variation maintained by mutation-selection balance.
description: Raw fitness data for
 each individual planted in Michigan and VirginiaGermination and survival
 data were collected in the field. Upon senescence, shoot biomass was
 harvested and fruits were counted. Data was collected by Roles and Conner
 in Michigan and by Rutter and Fenster in Virginia. Columns are described
 in the ReadMe file. Additional details found in the paper and Supporting
 Information.data_Roles_etal.csv
DOI: 10.5061/dryad.h3r16
title: Data from: The impact of environmental heterogeneity and life stage on the hindgut microbiota of Holotrichia parallela larvae (Coleoptera: Scarabaeidae)

description: Gut microbiota has diverse ecological and evolutionary effects on their
 hosts. However, the ways in which it responds to environmental
 heterogeneity and host physiology remain poorly understood. To this end,
 we surveyed intestinal microbiota of Holotrichia parallela larvae at
 different instars and from different geographic regions. Bacterial 16S
 rRNA gene clone libraries were constructed and clones were subsequently
 screened by DGGE and sequenced. Firmicutes and Proteobacteria were the
 major phyla, and bacteria belonging to Ruminococcaceae, Lachnospiraceae,
 Enterobacteriaceae, Desulfovibrionaceae and Rhodocyclaceae families were
 commonly found in all natural populations. However, bacterial diversity
 (Chao1 and Shannon indices) and community structure varied across host
 populations, and the observed variation can be explained by soil pH,
 organic carbon and total nitrogen, and the climate factors (e.g., mean
 annual temperature) of the locations where the populations were sampled.
 Furthermore, increases in the species richness and diversity of gut
 microbiota were observed during larval growth. Bacteroidetes comprised the
 dominant group in the first instar; however, Firmicutes composed the
 majority of the hindgut microbiota during the second and third instars.
 Our results suggest that the gut’s bacterial community changes in response
 to environmental heterogeneity and host’s physiology, possibly to meet the
 host’s ecological needs or physiological demands.
description: supplemental
 data
DOI: 10.15468/dl.vr48j8
title: Occurrence Download

description: A dataset containing 815 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-78.01021 2.37722,-77.95802 -3.79317,-66.56327 -9.15485,-58.61386 -9.69894,-49.75288 -1.35663,-46.12805 2.33351,-50.9832 9.06416,-60.72529 9.06416,-78.01021 2.37722))",
 "TaxonKey is Cichla ocellaris"
 ]
}

 The dataset includes 815 records from 38 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000508-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.