cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.p63d200
title: Data from: Differing patterns of stress and craving across the day in moderate-heavy alcohol consumers during their typical drinking routine and an imposed period of alcohol abstinence

description: Background: Stress is a known factor related to alcohol use. However, how
 the relationship between alcohol craving and stress varies across the day
 is not fully understood. As craving is a consistent predictor of alcohol
 use disorder (AUD), understanding stress and craving patterns across the
 day in routine, non-dependent, moderate-heavy alcohol consumers may help
 in understanding those who may be vulnerable to transitioning into AUD.
 Method: Moderate-heavy drinkers were recruited from the local community
 (n=32) and assessed for fluctuations in craving and stress intensity
 across the day via Ecological Momentary Assessment (EMA) during 3
 consecutive days of imposed alcohol abstinence (abstained trial) and their
 normal drinking routine (normal trial). A multilevel modeling statistical
 approach assessed differences in diurnal craving and stress patterns with
 the Alcohol Craving Experience Questionnaire (ACE) examined as a
 moderator. Results: Immediately following alcohol consumption on normal
 trials, EMA craving levels were significantly reduced compared to
 pre-drinking levels. Moreover, the post-drinking craving levels were lower
 than on abstained trials. Higher ACE scores were associated with
 significantly higher EMA craving across the day and higher peaks at
 midday. Higher ACE scores were also associated with greater EMA stress
 across the day. Drinking relieved stress relative to abstained trials, but
 not in individuals with higher ACE scores. Higher stress was associated
 with greater EMA craving, which was stronger among those with higher ACE
 scores. Conclusion: These findings suggest that ACE scores are important
 to understanding patterns of stress and craving experienced across the day
 in routine, non-dependent, moderate-heavy drinkers and may provide new
 insights for vulnerability to transitioning into AUD.
description: ACE_Sex_PlosOne_Mayhugh_etalACE Score and Sex of participantsLevel1_PrePostDrink_186_PlosOne_Mayhugh_etalStress: the stress rating, Crave: the craving rating, c_3PM_time: centered values of military time where 0 = 3PM, d_AfterD: = 1 if rating occurred immediately after drinking (0 = rating occurred immediately before drinking), Anom_ID: anonymized participant IDLevel1_RandomUpSleep_1365_PlosOne_Mayhugh_etald_wakeup: = 1 if it was answered because they just woke up, d_gotobed: = 1 if it was answered because they are going to sleep, d_iphone: = 1 if it was answered because of a random alert, Stress: the stress rating, Crave: the craving rating, c_3PM_time: centered values of military time where 0 = 3PM, d_PreD: = 1 if rating occurred pre drinking, d_PostD: = 1 if rating occurred post drinking, d_abstained: 1 = abstained days, 0 = normal drinking days, Anom_ID: anonymized participant ID
DOI: 10.5061/dryad.1v6p1
title: Data from: Genetic structure and effective population sizes in European red deer (Cervus elaphus) at a continental scale: insights from microsatellite DNA

description: We analysed more than 600 red deer (Cervus elaphus) from large parts of
 its European distribution range at 13 microsatellite loci, presenting the
 first continent-wide study of this species using nuclear markers.
 Populations were clearly differentiated (overall FST = 0.166, Jost’s Dest
 = 0.385), and the BAPS clustering algorithm yielded mainly geographically
 limited and adjacent genetic units. When forced into only three genetic
 clusters our data set produced a very similar geographic pattern as
 previously found in mtDNA phylogeographic studies: a western group from
 Iberia to central and parts of Eastern Europe, an eastern group from the
 Balkans to Eastern Europe and a third group including the threatened
 relict populations from Sardinia and Mesola in Italy. This result was also
 confirmed by a multivariate approach to analysing our data set, a
 discriminant analysis of principal components (DAPC). Calculations of
 genetic diversity and effective population sizes (linkage-disequilibrium
 approach) yielded the lowest results for Italian (Sardinia, Mesola; Ne
 between two and eight) and Scandinavian red deer, in line with known
 bottlenecks in these populations. Our study is the first to present
 comparative nuclear genetic data in red deer across Europe and may serve
 as a baseline for future analyses of genetic diversity and structuring in
 this widespread ungulate.
description: Dryad_Data microsat
 genotypes_Zachos et al_Red deer_J HeredityAll 668 13-locus
 genotypes of European red deer that our study is based
 on.
DOI: 10.5061/dryad.k53t495
title: Data from: Effects of capsaicin-induced sensory denervation on early implant osseointegration in adult rats

description: The presence of nerve endings around the implant, but the interaction
 between the peripheral nervous system and the implant osseointegration is
 still unclear. The purpose of this study was to test the effects of
 selective sensory denervation on early implant osseointegration. Forty
 male Sprague-Dawley rats were randomly divided into group A and group B,
 and they were treated with capsaicin and normal saline, respectively. One
 week later, titanium implants were placed in the bilateral femur of rats.
 Three and six weeks after the implantation, histological examination,
 micro-computed tomography and biomechanical testing were performed to
 observe the effect of sensory denervation on implant osseointegration. At
 three weeks and six weeks, bone area, trabecular bone volume/ total bone
 volume and bone density in group A were significantly lower than group B.
 Similarly, bone-implant contact rate, trabecular number and trabecular
 thickness in group A were obviously lower than group B at three weeks.
 However, the trabecular separation spacing in group A was greater than the
 group B at both time points. Biomechanical testing revealed that the
 implant bone binding ability of group A was significantly lower than that
 in group B. The research demonstrated that sensory innervation played an
 important role in the formation of osseointegretion. Selective- sensory
 denervation could reduce osseointegretion and lower the binding force of
 bone and implant.
description: BAthe raw data of
 BABICthe raw data of
 BICBV/TVthe raw data of
 BV/TVBVTV.xlsxcoon.dthe raw data of coon.dOIthe raw data of OIpull out forcethe raw data of pull out forceshear forcethe raw data of shear forceTBNthe raw data of TB.NTB.N.xlsxTB.Ththe raw data of TB.ThTBSPthe raw data of TB.SP
DOI: 10.5061/dryad.675t34s
title: Data from: Clade-specific evolutionary diversification along ontogenetic major axes in avian limb skeleton

description: The evolutionary diversification of birds has been facilitated by
 specializations for various locomotor modes, with which the proportion of
 the limb skeleton is closely associated. However, recent studies have
 identified phylogenetic signals in this system, suggesting the presence of
 historical factors that have affected its evolutionary variability. In
 this study, in order to explore potential roles of ontogenetic integration
 in biasing the evolution in the avian limb skeleton, evolutionary
 diversification patterns in six avian families (Anatidae, Procellariidae,
 Ardeidae, Phalacrocoracidae, Laridae, and Alcidae) were examined and
 compared to the postnatal ontogenetic trajectories in those taxa, based on
 measurement of 2641 specimens and recently collected ontogenetic series,
 supplemented by published data. Morphometric analyses of lengths of six
 limb bones (humerus, ulna, carpometacarpus, femur, tibiotarsus, and
 tarsometatarsus) demonstrated that: 1) ontogenetic trajectories are
 diverse among families; 2) evolutionary diversification is significantly
 anisotropic; and, most importantly, 3) major axes of evolutionary
 diversification are correlated with clade-specific ontogenetic major axes
 in the shape space. These results imply that the evolutionary variability
 of the avian limbs has been biased along the clade-specific ontogenetic
 trajectories. It may explain peculiar diversification patterns
 characteristic to some avian groups, including the long-leggedness in
 Ardeidae and tendency for flightlessness in Anatidae.
description: 181008_data_wj
DOI: 10.5061/dryad.6tv76
title: Data from: Unexpected high genetic diversity in small populations suggests maintenance by associative overdominance

description: The effective population size (Ne) is a central factor in determining
 maintenance of genetic variation. The neutral theory predicts that loss of
 variation depends on Ne, with less genetic drift in larger populations. We
 monitored genetic drift in 42 Drosophila melanogaster populations of
 different adult census population sizes (10, 50 or 500) using pooled RAD
 sequencing. In small populations, variation was lost at a substantially
 lower rate than expected. This observation was consistent across two
 ecological relevant thermal regimes, one stable and one with a stressful
 increase in temperature across generations. Estimated ratios between Ne
 and adult census size were consistently higher in small than in larger
 populations. The finding provides evidence for a slower than expected loss
 of genetic diversity and consequently a higher than expected long-term
 evolutionary potential in small fragmented populations. More genetic
 diversity was retained in areas of low recombination, suggesting that
 associative overdominance, driven by disfavored homozygosity of recessive
 deleterious alleles, is responsible for the maintenance of genetic
 diversity in smaller populations. Consistent with this hypothesis, the
 X-chromosome, which is largely free of recessive deleterious alleles due
 to hemizygosity in males, fits neutral expectations even in small
 populations. Our experiments provide experimental answers to a range of
 unexpected patterns in natural populations, ranging from variable
 diversity on X-chromosomes and autosomes to surprisingly high levels of
 nucleotide diversity in small populations.
description: EggToAdultViabilityNumber of flies emerging from 20 eggs. This trait was measured in a high number of replicate populations reared at different population sizes, different thermal regimes and tested at different test regimes.
DOI: 10.5061/dryad.kb60v
title: Data from: Heritable variation in colour patterns mediating individual recognition

description: Understanding the developmental and evolutionary processes that generate
 and maintain variation in natural populations remains a major challenge
 for modern biology. Populations of Polistes fuscatus paper wasps have
 highly variable colour patterns that mediate individual recognition.
 Previous experimental and comparative studies have provided evidence that
 colour pattern diversity is the result of selection for individuals to
 advertise their identity. Distinctive identity-signalling phenotypes
 facilitate recognition, which reduces aggression between familiar
 individuals in P. fuscatus wasps. Selection for identity signals may
 increase phenotypic diversity via two distinct modes of selection that
 have different effects on genetic diversity. Directional selection for
 increased plasticity would greatly increase phenotypic diversity but
 decrease genetic diversity at associated loci. Alternatively, heritable
 identity signals under balancing selection would maintain genetic
 diversity at associated loci. Here, we assess whether there is heritable
 variation underlying colour pattern diversity used for facial recognition
 in a wild population of P. fuscatus wasps. We find that colour patterns
 are heritable and not Mendelian, suggesting that multiple loci are
 involved. Additionally, patterns of genetic correlations among traits
 indicated that many of the loci underlying colour pattern variation are
 unlinked and independently segregating. Our results support a model where
 the benefits of being recognizable maintain genetic variation at multiple
 unlinked loci that code for phenotypic diversity used for recognition.
description: wasp.pedigree.dataPedigree and phenotype data
DOI: 10.5061/dryad.15nk1
title: Data from: Atypical panmixia in a European dolphin species (Delphinus delphis); implications for the evolution of diversity across oceanic boundaries.

description: Despite the scarcity of geographical barriers in the ocean environment,
 delphinid cetaceans often exhibit marked patterns of population structure
 on a regional scale. The European coastline is a prime example, with
 species exhibiting population structure across well defined environmental
 boundaries. Here we undertake a comprehensive population genetic study on
 the European common dolphin (Delphinus delphis, based on 492 samples and
 15 loci) and establish that this species shows exceptional panmixia across
 most of the study range. We found differentiation only between the eastern
 and western Mediterranean, consistent with earlier studies, and here use
 Approximate Bayesian Computations to explore different scenarios to
 explain the observed pattern. Our results suggest that a recent population
 bottleneck likely contributed significantly to the differentiation of the
 Eastern Mediterranean population (in Greek waters). This interpretation is
 consistent with independent census data which suggests a sharp population
 decline in the recent past. The implication is that an unperturbed
 population may currently show panmixia across the full study range. This
 exception to the more typical pattern of population structure seen for
 other regional dolphin species (and for common dolphin populations
 elsewhere in the world) suggests particular ecological or life history
 traits distinct to this species in European waters.
description: Ddelphis-Microsat-InputExcel table containing individual multilocus genotypes from European common dolphin (Delphinus delphis) using 15 microsatellite loci. Data is in Genalex format, as this allows easy conversion to different population genetics software formats. Samples were obtained from biopsies, strandings and bycatch. Geographic coordinates are include in the field, though check manuscript for more detailed information. Please also check the worksheet "Notes" for more information on data format.
DOI: 10.5061/dryad.sm47b
title: Data from: Capuchins, space, time and memory: an experimental test of what-where-when memory in wild monkeys

description: There is considerable controversy about the existence, extent and adaptive
 value of integrated multimodal memory in non-human animals. Building on
 prior results showing that wild capuchin monkeys in Argentina appear to
 recall both the location and amount of food at patches they had previously
 visited, I tested whether they also track and use elapsed time as a basis
 for decisions about which feeding patches to visit. I presented them with
 an experimental array of eight feeding sites, at each of which food
 rewards increased with increasing elapsed time since the previous visit,
 similar to the pattern of ripe fruit accumulation in natural feeding
 trees. Over the course of 68 days, comprising two distinct renewal rate
 treatments, one group repeatedly visited sites in the feeding array,
 generating 212 valid choices between sites. Comparison of observations
 against simulated movements and multinomial statistical models shows that
 the monkeys' choices were most consistent with dynamic memory for
 elapsed time specific to each of the eight sites. Thus, it appears that
 capuchin monkeys possess and use integrated memories of prior food patch
 use, including where the patch is relative to their current location, how
 productive the patch is and how long it has been since they last visited
 the patch. Natural selection to use such integrated memories in foraging
 tasks may provide an ecologically relevant basis for the evolution of
 complex intelligence in primates.
description: raw data 2008
 trimmedSequences of visits by
 one capuchin monkey group (Macuco group) to a set of experimental feeding
 sites during 2008 field season. Details of the variables are provided in
 comments in the upper left-hand cell of each of two
 worksheets.
DOI: 10.5061/dryad.6rh72
title: Data from: Postglacial recolonisation in a cold climate specialist in Western Europe: patterns of genetic diversity in the adder (Vipera berus) support the central-marginal hypothesis

description: Understanding the impact of postglacial recolonization on genetic
 diversity is essential in explaining current patterns of genetic
 variation. The central–marginal hypothesis (CMH) predicts a reduction in
 genetic diversity from the core of the distribution to peripheral
 populations, as well as reduced connectivity between peripheral
 populations. While the CMH has received considerable empirical support,
 its broad applicability is still debated and alternative hypotheses
 predict different spatial patterns of genetic diversity. Using
 microsatellite markers, we analysed the genetic diversity of the adder
 (Vipera berus) in western Europe to reconstruct postglacial
 recolonization. Approximate Bayesian Computation (ABC) analyses suggested
 a postglacial recolonization from two routes: a western route from the
 Atlantic Coast up to Belgium and a central route from the Massif Central
 to the Alps. This cold-adapted species likely used two isolated glacial
 refugia in southern France, in permafrost-free areas during the last
 glacial maximum. Adder populations further from putative glacial refugia
 had lower genetic diversity and reduced connectivity; therefore, our
 results support the predictions of the CMH. Our study also illustrates the
 utility of highly variable nuclear markers, such as microsatellites, and
 ABC to test competing recolonization hypotheses.
description: fstat-cladeFwsubcalde_6m_Dc_locustree description of the Figure 3figure 4relationship between the allelic richness and the distance between the current location of the populations and the distance to the putative refugia (in km)
DOI: 10.5061/dryad.54qb1
title: Data from: Negative effects of pesticides under global warming can be counteracted by a higher degradation rate and thermal adaptation

description: 1. An alarming finding for biodiversity is that global warming and
 pesticides often interact synergistically. Yet, this synergism may not
 capture the full picture because two counteracting processes may reduce
 the higher impact of pesticides under warming: higher pesticide
 degradation in the environment and thermal adaptation of populations. 2.
 We tested for the effects of warming and multiple pulses of the
 insecticide chlorpyrifos on life history and fitness-related physiological
 traits in the damselfly Ischnura elegans. To assess whether thermal
 adaptation is able to mitigate the impact of the pesticide under future
 warming, we exposed replicated populations from a colder, high latitude
 and from a warmer, low latitude in a common garden rearing experiment at
 20 and 24°C (the respective mean summer water temperatures at both
 latitudes). 3. At the higher temperature pesticide degradation was higher,
 leading to less accumulation after multiple pulses compared to the lower
 temperature. Accordingly, the pesticide caused less mortality and less
 oxidative damage at the higher temperature. This contradicts the general
 belief (based on studies that kept pesticide concentrations constant) of a
 higher impact of pesticides under warming. Furthermore, the reduction of
 the impact of the pesticide at the higher temperature was more pronounced
 in the warm-adapted low-latitude populations, indicating a counteracting
 role of thermal adaptation. 4. Policy implications. Our findings provide
 proof-of-principle for two key insights that will allow improving
 ecological risk assessment of pesticides under global warming: (i) higher
 pesticide degradation in the environment under warming may temper the
 impact of multiple pesticide pulses; (ii) gradual thermal evolution may
 further reduce the impact of pesticides at high latitudes under global
 warming.
description: Data Op de Beeck et al.
 2017JAPPLExcel file with data on
 life history (mortality and growth) and physiology of the damselfly
 Ischnura elegans as a response to the pesticide chlorpyrifos, warming and
 latitude.Dataset Op de Beeck et al.
 2017.xlsx
DOI: 10.5061/dryad.6g9b7
title: Data from: Disentangling the heritable and plastic components of the competitive and facilitative effects of an alpine foundation species

description: Differences in effects between phenotypes of foundation species on
 subordinate species have been reported, but no study has separated their
 heritable and plastic components. In a subalpine community of the French
 Pyrenees, we observed two phenotypes of Festuca gautieri: tight cushions
 in dry convex outcrops with few subordinate species, and loose cushions in
 wet concave slopes with many subordinate species, suggesting differences
 in effects of the two phenotypes on subordinates. Using two reciprocal
 transplantation gardens, we studied the responses of the two phenotypes to
 changes in environmental conditions, thus assessing the contribution of
 heritability and plasticity to the phenotypic variation. Using a target
 cross-transplantation experiment, we assessed the plasticity and
 heritability bases of their contrasting effects. We also quantified the
 recolonisation of resident plants within the reciprocally transplanted
 cushions. We found that morphological differences between cushions had
 both heritability and plasticity bases. The two competition experiments
 showed heritable increase in competitive effects from loose to tight
 cushions. This was counteracted by plasticity effects, which decreased
 competition from the benign to the stressful garden. Synthesis. We
 conclude that heritable effects overcome plasticity effects resulting in
 higher diversity in the loose phenotype from the benign habitats.
description: Al Hayek et al. -
 DataArchiving