cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.615s9q5
title: Data from: Genomic contingencies and the potential for local adaptation in a hybrid species

description: Hybridization is increasingly recognized as a potent evolutionary force.
 Though additive genetic variation and novel combinations of parental genes
 theoretically increase the potential for hybrid species to adapt, few
 empirical studies have investigated the adaptive potential within a hybrid
 species. Here, we address whether genomic contingencies, adaptation to
 climate or diet best explain divergence in beak morphology using
 genomically diverged island populations of the homoploid hybrid Italian
 sparrow Passer italiae from Crete, Corsica, and Sicily. Populations vary
 significantly in beak morphology, both between and within islands of
 origin. Temperature seasonality best explains population divergence in
 beak size. Interestingly, beak shape along all significant dimensions of
 variation was best explained by annual precipitation, genomic composition
 and their interaction, suggesting a role for contingencies. Moreover, beak
 shape similarity to a parent species correlates with proportion of the
 genome inherited from that species, consistent with the presence of
 contingencies. In conclusion, adaptation to local conditions and genomic
 contingencies arising from putatively independent hybridization events
 jointly explain beak morphology in the Italian sparrow. Hence,
 hybridization may induce contingencies and restrict evolution in certain
 directions dependent on the genetic background.
description: data_popmeanData for population level analyses. Dependent variables are centroid size and Relative Warps (RWs) for shape. Explanatory variables are hybrid index (HI), stable isotope values (delta C13 and delta N15) and climate variables extracted from the World Clim database.IndividualLevelDataForDryadData for individual level analyses. Dependent variables are centroid size and Relative Warps (RWs) for shape. Explanatory variables are hybrid index (HI), stable isotope values (delta C13 and delta N15) and climate variables extracted from the World Clim database.RW_islands_and_parentals_LocationData for investigating how the Italian sparrow beak shape and size compares to that of the parent species. Information on species, island of origin for Italian sparrows, Principal component scores for an analysis including the three species based on relative warps and centroid sizes from the geometric morphometrics analysis.
DOI: 10.5061/dryad.3b5q2fm6
title: Data from: Vicariance divergence and gene flow among islet populations of an endemic lizard

description: Allopatry and allopatric speciation can arise through two different
 mechanisms: vicariance or colonization through dispersal. Distinguishing
 between these different allopatric mechanisms is difficult and one of the
 major challenges in biogeographical research. Here, we address whether
 allopatric isolation in an endemic island lizard is the result of
 vicariance or dispersal. We estimated the amount and direction of gene
 flow during the divergence of isolated islet populations and subspecies of
 the endemic Skyros wall lizard Podarcis gaigeae, a phenotypically variable
 species which inhabits a major island and small islets in the Greek
 archipelago. We applied isolation-with-migration models to estimate
 population divergence times, population sizes and gene flow between
 islet–mainland population pairs. Divergence times were significantly
 correlated with independently estimated geological divergence times. This
 correlation strongly supports a vicariance scenario where islet
 populations have sequentially become isolated from the major island. We
 did not find evidence for significant gene flow within P. g. gaigeae.
 However, gene flow estimates from the mainland to the islet populations
 was positively affected by islet area and negatively by distance between
 the islet and mainland. We also found evidence for gene flow from one
 subspecies (P. g. weigandi) into another (P. g. gaigeae), but not in the
 other direction. Ongoing gene flow between the subspecies suggests that
 even in this geographically allopatric scenario with the sea posing a
 strong barrier to dispersal, divergence with some gene flow is still
 feasible.
description: DataDescriptionRunemark
 et alA file describing the
 headers and contents of the other uploaded filesMicrosatellite_data_Runemark_et_alMicrosatellite data of the individuals included in the study. The first column entitled population includes the abbreviation for population affinity of the individuals, see Fig. 1 in the paper. The following columns contain allele 1 and 2 for each loci used in the analysis; Lv319 1 is the first allele and Lv319 2 is the second.Microsatellite_data_Runemark_et_alMicrosatellite data of the individuals included in the study. The first column entitled population includes the abbreviation for population affinity of the individuals, see Fig. 1 in the paper. The following columns contain allele 1 and 2 for each loci used in the analysis.Geographic_locals_Runemark_et_alContains a table with full population names in the first column (the names of the islets or names from the geographic locals or churches nearby), the population abbreviations used in the microsatellite files and in Fig. 1 in the manuscript in the second, habitat (i. e. if it is an islet or mainland local) in the third column, and the coordinates (latitude,longitude) in the fourth column.
DOI: 10.5061/dryad.rf25h
title: Data from: Genetic divergence of a sympatric lake-resident–anadromous three-spined stickleback Gasterosteus aculeatus species pair

description: The genetic relationship between sympatric, morphologically divergent
 populations of anadromous and lake-resident three-spined stickleback
 Gasterosteus aculeatus in the Jim Creek drainage of Cook Inlet, Alaska,
 was examined using microsatellite loci and mitochondrial d-loop sequence
 data. Resident samples differed substantially from sympatric anadromous
 samples in the Jim Creek drainage with the magnitude of the genetic
 divergence being similar to that between allopatric resident and
 anadromous populations in other areas. Resident samples were genetically
 similar within the Jim Creek drainage, as were the anadromous samples
 surveyed. Neighbour-joining and Structure cluster analysis grouped the
 samples into four genetic clusters by ecomorph (anadromous v. all
 resident) and geographic location of the resident samples (Jim Creek,
 Mat-Su and Kenai). There was no evidence of hybridization between resident
 and anadromous G. aculeatus in the Jim Creek drainage, which thus appear
 to be reproductively isolated.
description: Microsatellite
 dataMicrosatellite data in
 Excel file. Locus names are in the first row. Alleles are in separate
 columns. Allele sizes are the sizes of the raw PCR products. Question
 marks (?) indicate missing data. Specimens are in first column with
 letters identifying population and numbers identifying specimens.
 Population codes are as follows: JimA is the anadromous population in Jim
 Lake, MudA is the anadromous population in Mud Lake, RS is Rabbit Slough,
 JimR is the resident population in Jim Lake, MudR is the resident
 population in Mud Lake, MudR03 is the resident population from Mud Lake
 collected in 2003, Gull is Gull Lake, MDCrk is Meadow Creek, Was is
 Wasilla Lake, and Tern is Tern Lake.microsat_data.xlsStructure_Indiv_Assignm_ResultsIndividual assignment results from the STRUCTURE analysis performed on all samples and the analysis performed using only the Jim Creek drainage anadromous and resident samples based on genetic data only. Numbers are individual q values for membership in each cluster across ten independent simulations pooled in CLUMPP. %M is the percentage of microsatellite data missing for each individual. An is the anadromous cluster, JRes is the Jim Creek drainage resident cluster, MatSu is the Mat-Su Valley cluster, and Kenai is the Kenai cluster. An2 and JRes2 are the anadromous and Jim Creek drainage resident clusters in the analysis that included only the Jim Creek drainage populations.
DOI: 10.5061/dryad.5228g
title: Data from: The loss of hemoglobin and myoglobin does not minimize oxidative stress in Antarctic icefishes

description: The unusual pattern of expression of hemoglobin (Hb) and myoglobin (Mb)
 among Antarctic notothenioid fishes provides an exceptional model system
 for assessing the impact of these proteins on oxidative stress. We tested
 the hypothesis that the lack of oxygen-binding proteins may reduce
 oxidative stress. Levels and activity of pro-oxidants, small-molecule and
 enzymatic antioxidants, and levels of oxidized lipids and proteins in
 liver, oxidative skeletal muscle, and heart ventricle were quantified in
 five species of notothenioid fishes differing in the expression of Hb and
 Mb. Levels of ubiquitinated proteins and rates of protein degradation by
 the 20S proteasome were also quantified. Although levels of oxidized
 proteins and lipids, ubiquitinated proteins, and antioxidants are higher
 in red-blooded fishes than in Hb-less icefishes in some tissues, this
 pattern does not persist across all tissues. Expression of Mb is not
 associated with oxidative damage in heart ventricle, whereas the activity
 of citrate synthase and contents of heme are positively correlated with
 oxidative damage in most tissues. Despite some tissue differences in
 levels of protein carbonyls among species, rates of degradation by the 20S
 proteasome are not markedly different, suggesting either alternative
 pathways for eliminating oxidized proteins or redox tone varies among
 species. Together, our data indicate that the loss of Hb and Mb does not
 correspond with a clear pattern of either reduced oxidative defense or
 oxidative damage.
description: Data Summary JEB
 O'Brien et al JEXBIO_2017_162503
DOI: 10.5061/dryad.919fn
title: Data from: Does phenotypic plasticity for adult size versus food level in Drosophila melanogaster evolve in response to adaptation to different rearing densities?

description: Recent studies using inbred lines of Drosophila have suggested that there
 is extensive genetic variability for phenotypic plasticity of body size
 versus food level. If true, we expect that the outcome of evolution at
 very different food levels should yield genotypes whose adult sizes show
 different patterns of phenotypic plasticity. We have tested this
 prediction with six independent populations of Drosophila melanogaster
 kept at extreme (low vs. high) densities for 125 generations. We found
 that the phenotypic plasticity of body size versus food level is not
 affected by selection or the presence of competitors of a different
 genotype. However, we document increasing among population variation in
 phenotypic plasticity due to random genetic drift. Several reasons are
 explored to explain these results including the possibility that the use
 of highly inbred lines to make inferences about the evolution of
 genetically variable populations may be misleading.
description: female thorax
 sizeEach line in this file
 correspond to the thorax size for one female. In addition to her size
 there is information about the (i)block, (ii) population, (iii) selection
 regime, and (iv) yeast level.evo.data
DOI: 10.5061/dryad.7b5s1s4r
title: Data from: The genetic basis of behavioral isolation between Drosophila mauritiana and D. sechellia

description: Understanding how species form is a fundamental question in evolutionary
 biology. Identifying the genetic bases of barriers that prevent gene flow
 between species provides insight into how speciation occurs. Here I
 analyze a poorly understood reproductive isolating barrier, prezygotic
 reproductive isolation. I perform a genetic analysis of prezygotic
 isolation between two closely related species of Drosophila, D. mauritiana
 and D. sechellia. I first confirm the existence of strong behavioral
 isolation between D. mauritiana females and D. sechellia males. Next, I
 examine the genetic basis of behavioral isolation by i) scanning an
 existing set of introgression lines for chromosomal regions that have a
 large effect on isolation; and ii) mapping quantitative trait loci (QTL)
 that underlie behavioral isolation via backcross analysis. In particular,
 I map QTL that determine whether a hybrid backcross female and a D.
 sechellia male will mate. I identify a single significant QTL, on the X
 chromosome, suggesting that few major-effect loci contribute to behavioral
 isolation between these species. In further work, I refine the map
 position of the QTL to a small region of the X chromosome.
description: QTL Results -
 013012Genotyping scores of the
 female backcross mapping population.
DOI: 10.5061/dryad.4d620q0
title: Data from: Where to start? development of a spatial tool to prioritise retrofitting of power line poles that are dangerous to raptors

description: 1.Avian electrocution on power lines is a major conservation issue on a
 global scale. Electrocution risk models have recently been proposed as an
 effective alternative to prioritising high‐risk pole retrofitting
 activities at a large scale. However, existing models ignore the specific
 features of the power poles supporting the power distribution lines and
 make the tenuous assumption that pole density and power line length are
 key factors to assessing the electrocution risk at a large scale. This
 assumption may be violated in areas with high variations in pole
 configuration. 2.In this study, we used data on raptors electrocuted on
 poles to develop a predictive model of raptor electrocution risk
 throughout an extensive geographic area in north‐western Spain, using
 boosted regression trees (BRT). With the best‐fitting model we predicted
 the hazard of a set of 188 741 poles and validated the model predictions
 with new data collected from the study area. 3.Our model highlights the
 relevance of combining both habitat and technical features to identify the
 most dangerous poles for raptors on a large geographic scale. A 9·86% of
 the total poles evaluated were characterised as high risk for raptors. The
 model showed good performance in external validation. The new
 electrocution events were registered at poles with high‐risk values.
 4.Synthesis and applications. In this study we improved the accuracy of
 the predictive models of raptor electrocution risk for large geographic
 areas. By incorporating the technical characteristics of the power poles
 into the models, we achieved a high level of prediction at the power pole
 level which is the ultimate correction unit. This will allow electric
 companies and wildlife managers to specify retrofitting activities of
 high‐risk power poles for raptors in large geographic areas, thus
 maximizing the effect of investment in the correction of dangerous power
 poles and conservation of the raptor populations.
description: Data
 layersThe file indicates the
 spatial layers that were used as inputs for the raptor electrocution risk
 modelling and provides the URLs at which they can be
 accessed.ElectrocutionData_WRC_JCyLThis is a file in .csv format which provides the electrocution records supplied by Wildlife Recovery Centres from the Community of Castile and Leon for the raptor electrocution risk modelling. Please see the attached README.pdf file for a description of the content of the file.ValidationDataThis is a file in .csv format which provides the electrocution records used for validating the model predictions. Please see the attached README.pdf file for a description of the content of the file.
DOI: 10.5061/dryad.6265g37
title: Data from: Productive activities, mental health and quality of life in disability: exploring the role enhancement and the role strain hypotheses

description: Background: Engagement in productive activities is an important
 determinant of mental health and quality of life (QoL). Persons with
 physical disabilities are often confronted with constraints to engage in
 productive activities and it remains largely unknown whether persons who
 nevertheless manage to be productive experience beneficial effects for
 mental health and QoL. This is the first study to analyse different
 productive activities (paid work, volunteering, education, housework) and
 its gender-specific associations with mental health and QoL in the
 disability setting, testing two contrasting hypotheses of Role Theory, the
 role strain and the role enhancement hypotheses. Methods: We used data
 from a representative sample of 1157 men and women of employable age who
 sustained a severe physical disability (spinal cord injury). Load of
 engagement in paid work, volunteering, education, and housework was
 classified into three groups (none; moderate; high). To assess the total
 productivity load, a score over the four items was calculated. Diversity
 of engagement was assessed with variables on the number and combination of
 activities. Tobit regressions were applied to evaluate associations of
 load and diversity of engagement in productive activities with mental
 health (Mental Health Inventory, SF-36) and QoL (WHOQoL-BREF items).
 Results: We found that the total productivity load and the load of paid
 work were positively related to mental health and QoL in men. Individuals
 with moderate engagement in volunteering reported better mental health
 (both genders) and QoL (in women) than those with higher or no engagement.
 Our results support the role enhancement hypothesis, as mental health (in
 men) and QoL (both genders) increased with the number of performed
 activities. In men who had paid work, mental health and QoL increased
 consistently with each additional unpaid activity. In contrast, engagement
 in paid work played a minor role for mental health and QoL in women.
 Conclusion: This study in the disability setting provided clear support
 for the role enhancement hypothesis. Future research on the mechanisms
 behind the observed associations is warranted to develop interventions and
 policies that strengthen resources important for engagement in productive
 activities as well as for mental health and QoL in persons with physical
 disabilities.
description: SwiSCI community survey
 2012, Basic Module, employable age groupData from the Swiss
 Spinal Cord Injury Cohort Study (SwiSCI) community survey 2012; Basic
 Module, persons in employable ageData from the Swiss Spinal Cord
 Inury community survey 2012
 participants.xlsx
DOI: 10.15468/dl.5exqq6
title: Occurrence Download

description: A dataset containing 176 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is Biodiversity and community assemblage of shallow habitats of the National Park of Banc d'Arguin (Mauritania): influence of habitat, season and site"
 ]
}

 The dataset includes 176 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000746-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.bexg7v
title: Occurrence Download

description: A dataset containing 552 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is Birds of the Chornobyl Radiation and Ecological Biosphere Reserve"
 ]
}

 The dataset includes 552 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000745-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.tk033rk
title: Data from: Sensory deficiencies affect resources selection and associational effects at two spatial scales

description: Many insect species have limited sensory abilities and may not be able to
 perceive the quality of different types of resources while approaching
 patchily distributed resources. These restrictions may lead to differences
 in selection rates between separate patches and between different resource
 types within a patch, which may have consequences for associational
 effects between resources. In this study, we used an oviposition assay
 containing different frequencies of apple and banana substrates divided
 over two patches to compare resource selection rates of wild type
 Drosophila melanogaster at the between and within patch scales. Next, we
 compared the wild type behavior with that of the olfactory deficient
 strain Orco2, and the gustatory deficient strain PoxnΔM22-B5 and found
 comparable responses to patch heterogeneity and similarly strong selection
 rates for apple at both scales for the wild type and olfactory deficient
 flies. Their oviposition behavior translated into associational
 susceptibility for apple and associational resistance for banana. The
 gustatory deficient flies, on the other hand, no longer had a strong
 selection rate for apple, strongly differed in between and within patch
 selection rates from the wild type flies, and caused no associational
 effects between the resources. Our study suggests that differences in
 sensory capabilities can affect resource selection at different search
 behavior scales in different ways, and in turn underlie associational
 effects between resources at different spatial scales.
description: Verschut_etal_Ecol_Evol_2018Data file contains the oviposition rates of mated Drosophila melanogaster females on apple and banana oviposition substrates divided over two patches.
DOI: 10.5061/dryad.8n4f6
title: Data from: Canopy height variation and environmental heterogeneity in the tropical dry forests of coastal Oaxaca, Mexico

description: Despite its importance for carbon storage and other ecosystem functions,
 the variation of vegetation canopy height is not yet well understood. We
 examined the relationship between this community attribute and
 environmental heterogeneity in a tropical dry forest of southern Mexico.
 We sampled vegetation in 15 sites along a 100-km coastal stretch of Oaxaca
 State, and measured the heights of all woody plants (excluding lianas).
 The majority of the ca. 4000 individuals recorded concentrated in the 4–8
 m height range. We defined three plant sets to describe overall community
 canopy height at each site: a set including all plants, a set made up by
 the tallest plants representing 10 percent of all individuals, and a set
 comprising the 10 tallest plants. For each site we computed maximum height
 and the mean and median heights of the three sets. Significant
 collinearity was observed between the seven resulting height variables,
 but null distributions constructed through bootstrap revealed their
 different behaviors as functions of species richness and density of
 individuals. Through linear modeling and a model selection procedure, we
 identified 21 models that best described the variation of canopy height
 variables. These models pointed out to soil (measured as PC1 of a
 principal component analysis performed on 10 soil variables), water
 stress, and elevation as the main drivers of canopy height variation in
 the region. In the event of increasing water stress resulting from global
 climate change, the studied tropical dry forests could become shorter and
 thus decrease their carbon storage potential.
description: Salas-Morales et al
 DataBaseThe data contained in
 this data base are from 15 localities in Coastal Oaxaca, Mexico. The
 format is an Excel Book. Page 'Location' includes names and
 geographical coordinates of the localities. Page 'Height'
 contains the heights in m for all trees recorded in 10 2 x 50-m transects
 at each locality; next to the height of each individual the growth form of
 the plant is provided; the number of individuals varies between
 localities. The third page ('Environment') includes results of
 soil analyses for soil samples from each location; these analyses may come
 from the upper or the lower soil horizon; additionally, climatic data for
 each location are included, which were obtained through linear
 interpolation of data recorded at meteorological stations in the region
 with long climatic records.