cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.3c212
title: Data from: Toxicity and population structure of the Rough-Skinned Newt (Taricha granulosa) outside the range of an arms race with resistant predators

description: Species interactions, and their fitness consequences, vary across the
 geographic range of a coevolutionary relationship. This spatial
 heterogeneity in reciprocal selection is predicted to generate a
 geographic mosaic of local adaptation, wherein coevolutionary traits are
 phenotypically variable from one location to the next. Under this
 framework, allopatric populations should lack variation in coevolutionary
 traits due to the absence of reciprocal selection. We examine phenotypic
 variation in tetrodotoxin (TTX) toxicity of the Rough-Skinned Newt
 (Taricha granulosa) in regions of allopatry with its TTX-resistant
 predator, the Common Garter Snake (Thamnophis sirtalis). In sympatry,
 geographic patterns of phenotypic exaggeration in toxicity and
 toxin-resistance are closely correlated in prey and predator, implying
 that reciprocal selection drives phenotypic variation in coevolutionary
 traits. Therefore, in allopatry with TTX-resistant predators, we expect to
 find uniformly low levels of newt toxicity. We characterized TTX toxicity
 in northwestern North America, including the Alaskan panhandle where Ta.
 granulosa occur in allopatry with Th. sirtalis. First, we used
 microsatellite markers to estimate population genetic structure and
 determine if any phenotypic variation in toxicity might be explained by
 historical divergence. We found northern populations of Ta. granulosa
 generally lacked population structure in a pattern consistent with
 northern range expansion after the Pleistocene. Next, we chose a cluster
 of sites in Alaska, which uniformly lacked genetic divergence, to test for
 phenotypic divergence in toxicity. As predicted, overall levels of newt
 toxicity were low; however, we also detected unexpected among- and
 within-population variation in toxicity. Most notably, a small number of
 individuals contained large doses of TTX that rival means of toxic
 populations in sympatry with Th. sirtalis. Phenotypic variation in
 toxicity, despite limited neutral genetic divergence, suggests that
 factors other than reciprocal selection with Th. sirtalis likely
 contribute to geographic patterns of toxicity in Ta. granulosa.
description: T.granulosa_microsats.arpMicrosatellite genotypes grouped by populations. Formatted for the program ArlequinAK_Newt_input_full.arpNewt_TTX.csvPhenotypic data on newt TTX toxicity.AKnewtTTX.csv
DOI: 10.15468/dl.2b2cpr
title: Occurrence Download

description: A dataset containing 172 species occurrences available in GBIF matching the query:
{
 "and" : [
 "OccurrenceStatus is Present",
 "TaxonKey is Alpinia oxyphylla"
 ]
}

 The dataset includes 172 records from 24 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001316-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.67nb3
title: Data from: Inferring invasive species abundance using removal data from management actions

description: Evaluation of the progress of management programs for invasive species is
 crucial for demonstrating impacts to stakeholders and strategic planning
 of resource allocation. Estimates of abundance before and after management
 activities can serve as a useful metric of population management programs.
 However, many methods of estimating population size are too labor
 intensive and costly to implement, posing restrictive levels of burden on
 operational programs. Removal models are a reliable method for estimating
 abundance before and after management using data from the removal
 activities exclusively, thus requiring no work in addition to management.
 We developed a Bayesian hierarchical model to estimate abundance from
 removal data accounting for varying levels of effort, and used simulations
 to assess the conditions under which reliable population estimates are
 obtained. We applied this model to estimate site-specific abundance of an
 invasive species, feral swine (Sus scrofa), using removal data from aerial
 gunning in 59 site/time-frame combinations (480–19,600 acres) throughout
 Oklahoma and Texas, USA. Simulations showed that abundance estimates were
 generally accurate when effective removal rates (removal rate accounting
 for total effort) were above 0.40. However, when abundances were small
 (&lt;50) the effective removal rate needed to accurately estimates
 abundances was considerably higher (0.70). Based on our post-validation
 method, 78% of our site/time frame estimates were accurate. To use this
 modeling framework it is important to have multiple removals (more than
 three) within a time frame during which demographic changes are minimized
 (i.e., a closed population; ≤3 months for feral swine). Our results show
 that the probability of accurately estimating abundance from this model
 improves with increased sampling effort (8+ flight hours across the
 3-month window is best) and increased removal rate. Based on the inverse
 relationship between inaccurate abundances and inaccurate removal rates,
 we suggest auxiliary information that could be collected and included in
 the model as covariates (e.g., habitat effects, differences between
 pilots) to improve accuracy of removal rates and hence abundance
 estimates.
description: Removal_DataThese data were collected as part of management actions to remove feral swine in Texas and Oklahoma from 2005-2013 by USDA-APHIS-Wildlife Services. The "SiteNumber" is a generic identifier indicating the property in which removal events were conducted. The county and state information are provided for each property. The effort by pass represents the number of hours in a helicopter at that property at that pass. The number feral swine removed per pass is given as well.RemovalDataForPublication.xlsx
DOI: 10.5061/dryad.6h8pm
title: Data from: Nonlinear growth: an origin of hub organization in complex networks

description: Many real-world networks contain highly connected nodes called hubs. Hubs
 are often crucial for network function and spreading dynamics. However,
 classical models of how hubs originate during network development
 unrealistically assume that new nodes attain information about the
 connectivity (for example the degree) of existing nodes. Here, we
 introduce hub formation through nonlinear growth where the number of nodes
 generated at each stage increases over time and new nodes form connections
 independent of target node features. Our model reproduces variation in
 number of connections, hub occurrence time, and rich-club organization of
 networks ranging from protein–protein, neuronal and fibre tract brain
 networks to airline networks. Moreover, nonlinear growth gives a more
 generic representation of these networks compared with previous
 preferential attachment or duplication–divergence models. Overall, hub
 creation through nonlinear network expansion can serve as a benchmark
 model for studying the development of many real-world networks.
description: macaque_datasetThis dataset is in .mat format, and contains a connectivity matrix ("matrix") specifying macaque brain connectivity and maturation time bins of individual regions ("maturation_bins") and labels of the individual brain areas. Detailed information on this dataset is in the Electronic Supplementary Material file ESM.pdf for this publication.airport_datasetThis dataset is in .mat format, and contains a connectivity matrix ("matrix") specifying airline connections between international airports and inferred construction dates of airports ("construct_dates") and IATA codes of the respective airports ("airport_codes"). Detailed information on this dataset is in the Electronic Supplementary Material file ESM.pdf for this publication.NLA_growthMatlab function of the NLA scenario of the nonlinear growth model.NLP_growthMatlab function of the NLP scenario of the nonlinear growth model.
DOI: 10.5061/dryad.1415r
title: Data from: Stimulus salience as an explanation for imperfect mimicry

description: The theory of mimicry explains how a mimic species gains advantage by
 resembling a model species . Selection for increased mimic-model
 similarity should then result in accurate mimicry, yet there are many
 surprising examples of poor mimicry in the natural world. The existence of
 imperfect mimics remains a major unsolved conundrum. We propose and
 experimentally test a novel explanation of the phenomenon. We argue that
 predators perceive prey as having several traits, but the traits differ in
 their importance for learning. When predators learn to discriminate prey,
 high-salience traits overshadow other traits, leaving them under little or
 no selection for similarity, and allow imperfect mimicry to succeed. We
 tested this idea experimentally, using blue tits as predators and
 artificial prey with three prominent traits: color, pattern and shape. We
 found that otherwise imperfect color mimics were avoided about as much as
 perfect mimics, whereas pattern and shape mimics did not gain from their
 similarity to the model. All traits could separately be perceived and
 learned by the predators, but the color trait was learned at a higher
 rate, implying that it had higher salience. We conclude that difference in
 salience between components of prey appearance is of major importance in
 explaining imperfect mimicry.
description: discr_train_dataThe file contains the number of attacks on rewarded (non-model) artificial prey in the discrimination training part of an experiment on imperfect mimicry.generalisation_dataThe file contains the number of attacks on rewarded (non-model) artificial prey in the generalization part of an experiment on imperfect mimicry.salience_dataThe file contains the number of attacks on rewarded artificial prey in the salience testing part of an experiment on imperfect mimicry.
DOI: 10.5061/dryad.351h3
title: Data from: Phenotype-environment association of the oxygen transport system in trimorphic European whitefish (Coregonus lavaretus) populations

description: Replicated adaptive radiation events, typified by phenotypic divergence
 across resource axes, provide important insight into the eco-evolutionary
 dynamics that lead to the formation of new species. Here, we show that in
 trimorphic adaptive radiations of European whitefish (Coregonus
 lavaretus), divergence of the oxygen transport system has occurred across
 the pelagic/littoral (shallow)—profundal (deep) resource axis, and at
 multiple biological scales. Profundal whitefish exhibited significantly
 larger red blood cells (RBCs), a greater proportion of cathodic hemoglobin
 protein components, and higher hemoglobin transcript abundance in kidney
 compared to littoral and pelagic morphs. Hemoglobin transcript abundance
 in brain and gill, but not kidney, and anodic hemoglobin protein component
 diversity in blood were also linked to variation at an intronic single
 nucleotide polymorphism (SNP). As the whitefish morphs differ in
 population genetic structure at this SNP, hemoglobin transcript and
 protein divergence between profundal and pelagic/littoral morphs is likely
 being driven by genetic divergence. Our findings, along with our previous
 work on lake whitefish, highlight the importance of the oxygen transport
 system to the postglacial colonization of novel lacustrine environments by
 whitefish throughout the northern hemisphere.
description: Hemoglobin gene
 expression, SNP genotype, and protein components in European
 whitefishHb
 Phenotypes_SNP_Expression_Evolution_DRYAD.xlsxRed blood cell morphology in European whitefishEuropean Whitefish_RBC morphology.xlsx
DOI: 10.5061/dryad.r1pf4
title: Data from: Emotion reactivity is increased 4-6 weeks postpartum in healthy women: a longitudinal fMRI study

description: Marked endocrine alterations occur after delivery. Most women cope well
 with these changes, but the postpartum period is associated with an
 increased risk of depressive episodes. Previous studies of emotion
 processing have focused on maternal–infant bonding or postpartum
 depression (PPD), and longitudinal studies of the neural correlates of
 emotion processing throughout the postpartum period in healthy women are
 lacking. In this study, 13 women, without signs of post partum depression,
 underwent fMRI with an emotional face matching task and completed the
 MADRS-S, STAI-S, and EPDS within 48 h (early postpartum) and 4–6 weeks
 after delivery (late postpartum). Also, data from a previous study
 including 15 naturally cycling controls assessed in the luteal and
 follicular phase of the menstrual cycle was used. Women had lower
 reactivity in insula, middle frontal gyrus (MFG), and inferior frontal
 gyrus (IFG) in the early as compared to the late postpartum assessment.
 Insular reactivity was positively correlated with anxiety in the early
 postpartum period and with depressive symptoms late postpartum. Reactivity
 in insula and IFG were greater in postpartum women than in non-pregnant
 control subjects. Brain reactivity was not correlated with serum estradiol
 or progesterone levels. Increased reactivity in the insula, IFG, and MFG
 may reflect normal postpartum adaptation, but correlation with self-rated
 symptoms of depression and anxiety in these otherwise healthy postpartum
 women, may also suggest that these changes place susceptible women at
 increased risk of PPD. These findings contribute to our understanding of
 the neurobiological aspects of the postpartum period, which might shed
 light on the mechanisms underlying affective puerperal disorders, such as
 PPD.
description: data in
 excel-fileWomen assessed two times
 post partum (within 48h and after 4-6 weeks) and healthy controls assessed
 twice across the menstrual cycle (mid-follicular and late luteal).
 Demographic data and extracted beta-values from obtained differences
 within/between groups in BOLD-reactivity to an emotional face-matching
 task.Emotion Reactivity is Increased
 4 to 6 weeks Postpartum in Healthy Women_A Longitudinal fMRI
 Study.xlsx
DOI: 10.5061/dryad.52vk268
title: Data from: Juvenile social experience generates differences in behavioral variation but not averages

description: Developmental plasticity is known to influence the mean behavioral
 phenotype of a population. Yet, studies on how developmental plasticity
 shapes patterns of variation within populations are comparatively rare and
 often focus on a subset of developmental cues (e.g. nutrition). One
 potentially important but understudied developmental experience is social
 experience, as it is explicitly hypothesized to increase variation among
 individuals as a way to promote ‘social niches.’ To test this we exposed
 juvenile black widow spiders (Latrodectus hesperus) to the silk of
 conspecifics by transplanting them onto conspecific webs for 48 hours once
 a week until adulthood. We also utilized an untouched control group as
 well as a disturbed group. This latter group was removed from their web at
 the same time points as the social treatment, but was immediately placed
 back on their own web. After repeatedly measuring adult behavior and web
 structure we found that social rearing drove higher or significant levels
 of repeatability relative to the other treatments. Repeatability in the
 social treatment also decreased in some traits, paralleling the decreases
 observed in the disturbed treatments. Thus, repeated juvenile disturbance
 may decrease among-individual differences in adult spiders. Yet, social
 rearing appeared to override the effect of disturbance in some traits
 suggesting a prioritization effect. The resulting individual differences
 were maintained over at least one-third of the adult lifespan, and thus
 appear to represent stable, canalized developmental effects and not
 temporal state differences. These results provide proximate insight into
 how a broader range of developmental experiences shape trait variation.
description: BE_widow_devel_analysisR script and dataBE_data_for_pub.rar
DOI: 10.5061/dryad.7g5qh
title: Data from: Pollution breaks down the genetic architecture of life history traits in Caenorhabditis elegans

description: When pollution occurs in an environment, populations present suffer
 numerous negative and immediate effects on their life history traits.
 Their evolutionary potential to live in a highly stressful environment
 will depend on the selection pressure strengths and on the genetic
 structure, the trait heritability, and the genetic correlations between
 them. If expression of this structure changes in a stressful environment,
 it becomes necessary to quantify these changes to estimate the
 evolutionary potential of the population in this new environment. We
 studied the genetic structure for survival, fecundity, and early and late
 growth in isogenic lines of a Caenorhabditis elegans population subject to
 three different environments: a control environment, an environment
 polluted with uranium, and a high salt concentration environment. We found
 a heritability decrease in the polluted environments for fecundity and
 early growth, two traits that were the most heritable in the control
 environment. The genetic structure of the traits was particularly affected
 in the uranium polluted environment, probably due to generally low
 heritability in this environment. This could prevent selection from acting
 on traits despite the strong selection pressures exerted on them.
 Moreover, phenotypic traits were more strongly affected in the salt than
 in the uranium environment and the heritabilities were also lower in the
 latter environment. Consequently the decrease in heritability was not
 proportional to the population fitness reduction in the polluted
 environments. Our results suggest that pollution can alter the genetic
 structure of a C. elegans population, and thus modify its evolutionary
 potential.
description: Lines_data.csvData file from: M. DUTILLEUL, B. GOUSSEN, J.M. BONZOM, S. GALAS, D. REALE. 2014. Pollution breaks down the genetic architecture of life history traits in Caenorhabditis elegans PLOS ONE
DOI: 10.5061/dryad.sd871
title: Data from: Enhanced understanding of predator–prey relationships using molecular methods to identify predator species, individual and sex

description: Predator species identification is an important step in understanding
 predator-prey interactions, but predator identifications using kill site
 observations are often unreliable. We used molecular tools to analyse
 predator saliva, scat and hair from caribou calf kills in Newfoundland,
 Canada to identify the predator species, individual and sex. We sampled
 DNA from 32 carcasses using cotton swabs to collect predator saliva. We
 used fragment length analysis and sequencing of mitochondrial DNA to
 distinguish between coyote, black bear, Canada lynx and red fox and used
 nuclear DNA microsatellite analysis to identify individuals. We compared
 predator species detected using molecular tools to those assigned via
 field observations at each kill. We identified a predator species at 94%
 of carcasses using molecular methods, while observational methods assigned
 a predator species to 62.5% of kills. Molecular methods attributed 66.7%
 of kills to coyote and 33.3% to black bear, while observations assigned
 40%, 45%, 10% and 5% to coyote, bear, lynx and fox, respectively.
 Individual identification was successful at 70% of kills where a predator
 species was identified. Only one individual was identified at each kill,
 but some individuals were found at multiple kills. Predator sex was
 predominantly male. We demonstrate the first large-scale evaluation of
 predator species, individual and sex identification using molecular
 techniques to extract DNA from swabs of wild prey carcasses. Our results
 indicate that kill site swabs (i) can be highly successful in identifying
 the predator species and individual responsible; and (ii) serve to inform
 and complement traditional methods.
description: GenotypesThe file contains genotypes of black bears (Ursus americanus) and coyotes (Canis latrans) detected at caribou calf kill sites in Newfoundland, Canada.Dryad File.xlsx
DOI: 10.5061/dryad.rq38c
title: Data from: Single-dose intra-articular bupivacaine plus morphine after knee arthroscopic surgery: a meta-analysis of randomized placebo-controlled studies

description: Objectives: To evaluate the efficacy and safety of single-dose
 intra-articular bupivacaine plus morphine after knee arthroscopic surgery.
 Design: Meta-analysis. Data sources and study eligibility criteria: A
 comprehensive literature search, using Medline (1966–2014), the Cochrane
 Central Register of Controlled Trials and Embase databases, was conducted
 to identify randomised placebo-controlled trials that used a combination
 of single-dose intra-articular bupivacaine and morphine for postoperative
 pain relief. Results: 12 articles were included in this meta-analysis. The
 mean visual analogue scale (VAS) scores of the bupivacaine plus morphine
 group were significantly lower than those of the placebo group (weighted
 mean difference (WMD) −1.75; 95% CI −2.16 to −1.33; p&lt;0.001). The
 VAS scores at the last follow-up time point (last VAS scores) of the
 bupivacaine plus morphine group were also significantly lower than those
 of the placebo group (WMD −1.46; 95% CI −1.63 to −1.29; p&lt;0.001).
 The number of patients requiring supplementary analgesia was also
 significantly reduced (RR 0.60; 95% CI 0.39 to 0.93; p=0.02), while there
 was no significant difference in the time to first analgesic request (WMD
 3.46; 95% CI −1.81 to 8.72; p=0.20) or short-term side effects (RR 1.67;
 95% CI 0.65 to 4.26; p=0.29). Conclusions: The administration of
 single-dose intra-articular bupivacaine plus morphine after knee
 arthroscopic surgery is effective for pain relief, and its short-term side
 effects remain similar to saline placebo.
description: VAS-scores
DOI: 10.17632/k33pss3ns3
title: Crisis, Integration, and the Political Economy of Musculoskeletal Health: A Comparative Policy Analysis of UK National MSK Frameworks
DOI: 10.17632/k33pss3ns3.1
title: Crisis, Integration, and the Political Economy of Musculoskeletal Health: A Comparative Policy Analysis of UK National MSK Frameworks