cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15468/dl.kjjab8
title: Occurrence Download

description: A dataset containing 4958 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Tetranychus urticae"
 ]
}

 The dataset includes 4958 records from 46 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000790-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.r20f75q
title: Data from: Optimized application of the secreted Nano-luciferase reporter system using an affinity purification strategy

description: Secreted Nano-luciferase (secNluc) is a newly engineered secreted
 luciferase that possesses advantages of high structural stability, long
 half-life, and glow-type kinetics together with high light emission
 intensity, and thus would become one of the most valuable tools for
 bioluminescence assays. However, like other secreted luciferases, secNluc
 has to mix with the components in the conditioned medium surrounding test
 cells, or in the biological samples such as blood or urine after being
 secreted. These components may interfere with secNluc-catalyzed
 bioluminescence reactions and thus limit the application of the secNluc
 reporter system. In this study, we first examined the effects of three
 factors, pH, serum and residual reagents, on secNluc-catalyzed
 bioluminescence reactions, finding that these factors could interfere with
 bioluminescence reactions and result in background signal. To resolve
 these problems, we applied a simple affinity purification strategy in
 which secNluc was fused with a FLAG-tag, and anti-FLAG magnetic beads were
 used to catch and transfer the fusion protein to PBST, an optimal buffer
 for secNluc-catalyzed bioluminescence reactions that was identified in
 this study. The results indicated that this strategy could not only negate
 the interferences from serum or residual reagents and enhance the
 stability of light emission but also greatly increase signal intensity
 through enzyme enrichment. This strategy may contribute to biomedical
 studies that utilize secNluc and other secreted luciferases, especially
 those requiring superior sensitivity, low background noise and high
 reproducibility.
description: DATA
DOI: 10.5061/dryad.5kc61
title: Data from: Transgenerational selection driven by divergent ecological impacts of hybridizing lineages

description: Dynamic interactions between ecological conditions and the phenotypic
 composition of populations likely play an important role in evolution, but
 the direction and strength of these feedbacks remain difficult to
 characterize. We investigated these dynamics across two generations of
 threespine sticklebacks from two evolutionary lineages undergoing
 secondary contact and hybridization. Independently manipulating the
 density and lineage of adults in experimental mesocosms led to contrasting
 ecosystem conditions with strong effects on total survival in a subsequent
 generation of juveniles. Ecosystem modifications by adults also varied the
 strength of selection on competing hybrid and non-hybrid juveniles. This
 variation in selection indicated (1) a negative eco-evolutionary feedback
 driven by lineage-specific resource depletion and dependence and (2) a
 large performance advantage of hybrid juveniles in depleted environments.
 This work illustrates the importance of interactions between phenotype,
 population density and the environment in shaping selection and
 evolutionary trajectories, especially in the context of range expansion
 with secondary contact and hybridization.
description: Ecosystem variables at
 the end of Phase IAbundance and size of
 planktonic and benthic prey, and abundance of primary producers, surveyed
 in 50 mesocosms at the end of Phase I (occupation by adult stickleback
 from 2 lineages and at 2 densities).Benthic invertebrate
 stable isotope valuesSI values are for
 individual invertebrates sampled at the end of Phase I except for Zebra
 mussels and prosobranch snails, for which each sample is an assay of 3
 pooled individuals.Juvenile fish stable
 isotope valuesStable isotope values
 for individual juvenile fish sampled at the end of Phase II (muscle
 tissue).Juvenile fish survival
 for each mesocosmTotal surviving
 juveniles of each type (Constance, Geneva, and F1
 Hybrids).Juvenile fish condition
 from mesocosmsBody condition for all
 mesocosm juveniles, calculated as residuals from a length-weight
 regression and standardized to weight of a fish of average
 length.Juvenile fish condition
 from lab experimentBody condition for all
 lab experiment juveniles, calculated as residuals from a length-weight
 regression and standardized to weight of a fish of average
 length.
DOI: 10.5061/dryad.744g4
title: Data from: Joint evolution of differential seed dispersal and self-fertilization

description: Differential seed dispersal, in which selfed and outcrossed seeds possess
 different dispersal propensities, represents a potentially important
 individual-level association. A variety of traits can mediate differential
 seed dispersal, including inflorescence and seed size variation. However,
 how natural selection shapes such associations is poorly known. Here, we
 developed theoretical models for the evolution of mating system and
 differential seed dispersal in metapopulations, incorporating
 heterogeneous pollination, dispersal cost, cost of outcrossing, and
 environment-dependent inbreeding depression. We considered three models.
 In the “fixed dispersal model,” only selfing rate is allowed to evolve. In
 the “fixed selfing model,” in which selfing is fixed but differential seed
 dispersal can evolve, we showed that natural selection favours a higher,
 equal, or lower dispersal rate for selfed seeds to that for outcrossed
 seeds. However, in the “joint evolution model,” in which selfing and
 dispersal can evolve together, evolution necessarily leads to higher or
 equal dispersal rate for selfed seeds compared to that for outcrossed.
 Further comparison revealed that outcrossed seed dispersal is selected
 against by the evolution of mixed mating or selfing, whereas the evolution
 of selfed seed dispersal undergoes independent processes. We discuss the
 adaptive significance and constraints for mating system/dispersal
 association.
description: Iritani_Cheptou2017_AppendixSupplementary Information Materials to derive the invasion fitness, stability analyses, effects of temporal autocorrelation, and spatial heterogeneity.
DOI: 10.5061/dryad.v90p5
title: Data from: Evolution of population genetic structure of the British roe deer by natural and anthropogenic processes (Capreolus capreolus)

description: Human influence typically impacts on natural populations of conservation
 interest. These interactions are varied and sometimes complex, and may be
 negative and unintended or associated with conservation and management
 strategy. Understanding the details of how these interactions influence
 and are influenced by natural evolutionary processes is essential to the
 development of effective conservation strategies. In this study we
 investigate a species in Britain that has experienced both negative impact
 through over-hunting in historical times and management efforts through
 culls and translocations. At the same time, there are regional populations
 that have been less affected by human influence. We use mtDNA and nuclear
 microsatellite DNA markers to investigate patterns of connectivity and
 diversity and find multiple insular populations in Britain that likely
 evolved within the Holocene (when the habitat was free of ice). We
 identify three concurrent processes. First, surviving indigenous
 populations show highly provincial patterns of philopatry, maintaining and
 generating population structure on a small geographic scale. Second,
 founder populations into habitat extirpated of native populations have
 expanded but remained largely insular. Third, introductions into
 established populations generate some admixture. We discuss the
 implications for the evolution of diversity of the integration of natural
 processes with anthropogenic influences on population size and
 distribution.
description: C.
 capreolus
DOI: 10.5061/dryad.013hq
title: Data from: A critical appraisal of clinical trials conducted and subsequent drug approvals in India and South Africa

description: Objectives: To assess the relation between the number of clinical trials
 conducted and respective new drug approvals in India and South Africa.
 Design: Construction and analysis of a comprehensive database of completed
 randomised controlled clinical trials based on clinicaltrials.gov from 1
 January 2005 to 31 December 2010 and drug approval data from 2006 until
 2013 for India and South Africa. Setting: USA, the EU, India and South
 Africa. Main outcome measures: Percentage of completed randomised clinical
 trials for an Investigational Medicinal Product (IMP) leading to new drug
 approval in India and South Africa. Results: A total of 622 eligible
 randomised controlled trials were identified as per search criteria for
 India and South Africa. Clustering them for the same sponsor and the same
 Investigational New Drug (IND) resulted in 453 eligible trials, that is,
 224 for India and 229 for South Africa. The distribution of the market
 application approvals between the EU/USA as well as India and South Africa
 revealed that out of clinical trials with the participation of test
 centres in India and/or South Africa, 39.6% (India) clinical trials and
 60.1% (South Africa) clinical trials led to market authorisation in the
 EU/USA without a New Drug Application (NDA) approval in India or South
 Africa. Conclusions: Despite an increase in clinical trial activities,
 there is a clear gap between the number of trials conducted and market
 availability of these new drugs in India and South Africa. Drug regulatory
 authorities, investigators, institutional review boards and patient groups
 should direct their efforts to ensuring availability of new drugs in the
 market that have been tested and researched on their population.
description: South Africa India 2005
 2010 trials and approvalsThis file has a list of
 Trials done from 1st January 2005 to 31st December 2010. It also lists the
 approvals received (NDA's) in India, South Africa, USA or
 EU.
DOI: 10.5061/dryad.4478v
title: Data from: Tobacco stained fingers and its association with death and hospital admission: a retrospective cohort study

description: Background: Among smokers, the presence of tobacco stains on fingers has
 recently been associated with a high prevalence of tobacco related
 conditions and alcohol abuse. Objective: We aimed to explore tobacco
 stains as a marker of death and hospital readmission. Method:
 Seventy-three smokers presenting tobacco-tar staining on their fingers and
 70 control smokers were followed during a median of 5.5 years in a
 retrospective cohort study. We used the Kaplan-Meier survival analysis and
 the log-rank test to compare mortality and hospital readmission rates
 among smokers with and smokers without tobacco stains. Multivariable Cox
 models were used to adjust for confounding factors: age, gender, pack-year
 unit smoked, cancer, harmful alcohol use and diabetes. The number of
 hospital admissions was compared through a negative binomial regression
 and adjusted for the follow-up time, diabetes, and alcohol use. Results:
 Forty-three patients with tobacco-stained fingers died compared to 26
 control smokers (HR 1.6; 95%CI: 1.0 to 2.7; p 0.048). The association was
 not statistically significant after adjustment. Patients with
 tobacco-stained fingers needed a readmission earlier than smokers without
 stains (HR 2.1; 95%CI: 1.4 to 3.1; p&lt;0.001), and more often
 (incidence rate ratio (IRR) 1.6; 95%CI: 1.1 to 2.1). Associations between
 stains and the first hospital readmission (HR 1.6; 95%CI: 1.0 to 2.5), and
 number of readmissions (IRR 1.5; 95%CI: 1.1 to 2.1) persisted after
 adjustment for confounding factors. Conclusions: Compared to other
 smokers, those presenting tobacco-stained fingers have a high unadjusted
 mortality rate and need early and frequent hospital readmission even when
 controlling for confounders.
description: Tobacco_stain_PlosOne_2Information collected on admission to a tertiary hospital. Follow up for death and hospital readmission
DOI: 10.5061/dryad.44181
title: Data from: Age, pathogen exposure, but not maternal care shape offspring immunity in an insect with facultative family life

description: Background: To optimize their resistance against pathogen infection,
 individuals are expected to find the right balance between investing into
 the immune system and other life history traits. In vertebrates, several
 factors were shown to critically affect the direction of this balance,
 such as the developmental stage of an individual, its current risk of
 infection and/or its access to external help such as parental care.
 However, the independent and/or interactive effects of these factors on
 immunity remain poorly studied in insects. Results: Here, we manipulated
 maternal presence and pathogen exposure in families of the European earwig
 Forficula auricularia to measure whether and how the survival rate and
 investment into two key immune parameters changed during offspring
 development. The pathogen was the entomopathogenic fungus Metarhizium
 brunneum and the immune parameters were hemocyte concentration and
 phenol/pro-phenoloxidase enzyme activity (total-PO). Our results
 surprisingly showed that maternal presence had no effect on offspring
 immunity, but reduced offspring survival. Pathogen exposure also lowered
 the survival of offspring during their early development. The
 concentration of hemocytes and the total-PO activity increased during
 development, to be eventually higher in adult females compared to adult
 males. Finally, pathogen exposure overall increased the concentration of
 hemocytes—but not the total-PO activity—in adults, while it had no effect
 on these measures in offspring. Conclusions: Our results show that,
 independent of their infection risk and developmental stage, maternal
 presence does not shape immune defense in young earwigs. This reveals that
 pathogen pressure is not a universal evolutionary driver of the emergence
 and maintenance of post-hatching maternal care in insects.
description: Age, pathogen exposure,
 but not maternal care shape offspring immunity in an insect with
 facultative family lifeData of the experiment.
 The first page present the raw data and the second page, the legend of
 each column.Vogelweith_data_BMC.xlsx
DOI: 10.5061/dryad.p4c2v
title: Data from: A prediction model of compressor with variable geometry diffuser based on elliptic equation and Partial Least Squares

description: In order to fulfill more and more extensive intake air flow range of
 diesel engine, variable geometry compressor (VGC) is introduced into
 turbocharged diesel engine. However, due to the variable diffuser vanes
 angle (DVA), the prediction for the performance of VGC becomes more
 difficult than normal compressor. In the present study, a prediction model
 comprised of elliptical equation and PLS (Partial Least Squares) model was
 proposed to predict the performance of VGC. The speed lines of pressure
 ratio map and efficiency map with elliptical equation were fitted, and the
 coefficients of elliptical equation was introduced into PLS model to build
 the polynomial relationship between the coefficients and relative speed,
 DVA. And further, the maximal order of polynomical was detailed
 investigated to reduce the number of sub-coefficients and acceptable fit
 accuracy simultaneously. The prediction model was validated with sample
 data and in order to present the superiority in compressor performance
 prediction, the prediction results of this model were compared with those
 of look-up table and BPNN. The validation and comparison results show that
 the prediction accuracy of the new developed model is acceptable, and this
 model is much more suitable than look-up table and BPNN under the same
 condition in the VGA performance prediction. Moreover, the new developed
 prediction model provides a novel and effective prediction solution for
 VGC and can be used to improve the accuracy of the thermodynamic model for
 turbocharged diesel engines in the future.
description: VGCdatathis file contains the raw data of VGC performance and necessary matlab files, the calculation result also pack in this file
DOI: 10.5061/dryad.17pp3
title: Data from: Constructing more informative plant-pollinator networks: visitation and pollen deposition networks in a heathland plant community

description: Interaction networks are widely used as tools to understand
 plant–pollinator communities, and to examine potential threats to plant
 diversity and food security if the ecosystem service provided by
 pollinating animals declines. However, most networks to date are based on
 recording visits to flowers, rather than recording clearly defined
 effective pollination events. Here we provide the first networks that
 explicitly incorporate measures of pollinator effectiveness (PE) from
 pollen deposition on stigmas per visit, and pollinator importance (PI) as
 the product of PE and visit frequency. These more informative networks,
 here produced for a low diversity heathland habitat, reveal that
 plant–pollinator interactions are more specialized than shown in most
 previous studies. At the studied site, the specialization index Embedded
 Image was lower for the visitation network than the PE network, which was
 in turn lower than Embedded Image for the PI network. Our study shows that
 collecting PE data is feasible for community-level studies in low
 diversity communities and that including information about PE can change
 the structure of interaction networks. This could have important
 consequences for our understanding of threats to pollination systems.
description: Ballantyne et al 2015
 visitation and pollen deposition data file
DOI: 10.5061/dryad.581qd15
title: Data from: Competition between co-occurring invasive and native consumers switches between habitats

description: 1. The introduction of a non-native species frequently has adverse direct
 effects on native species. The underlying mechanisms, however, often
 remain unclear, in particular where native and invasive species are
 taxonomically similar. 2. We found evidence of direct competitive
 interactions between a globally distributed invasive species (the Pacific
 oyster, Magallana gigas) and its native counterpart (the European oyster,
 Ostrea edulis). We also discovered that the competitive outcome differed
 between different habitat types and structures by identifying
 context-dependent responses driven by environmental conditions and stress
 (i.e. intertidal compared to subtidal habitats; and vertical versus
 horizontal substratum). This is particularly important because the
 European oyster is threatened, or in decline, throughout most of its range
 and restoration efforts are underway in many regions. 3. We combined
 experimental manipulations and stable isotope analysis (SIA) to identify
 the direct effects of competition and the mechanisms by which the invasive
 and native species compete. We identified negative effects of the invasive
 species on the native oyster but these were limited to the subtidal
 habitat (lower stress environment) and determined by substratum
 orientation (habitat structure). Crucially, we found that effects of the
 invasive species on the native species were not always negative and under
 certain conditions (e.g. on vertical substrata) were positive. Shifts in
 isotopic niches of both species when co-occurring, alongside mixing
 models, indicate that exploitative competition for food is most likely to
 underpin niche partitioning between both species. 4. We have identified
 different foraging strategies under different contexts and our findings
 highlight the importance of exploitative competition as a driving
 mechanism behind the co-occurrence of two seemingly functionally similar
 consumers. The combination of experimental manipulations with SIA is a
 powerful tool and we illustrate how this approach should be incorporated,
 into multiple environmental contexts at appropriate scales, to more
 accurately predict impacts of the spread of invasive species on native
 communities.
description: Zwerschke_et_al_2018_IBIS_BiomassBiomass.csvZwerschke_et_al_2018_IBIS_GrowthRate_MortalityGrowthRate_Mortality.csvZwerschke_et_al_2018_IBIS_SIA_OysterSIA_Oyster.csvZwerschke_et_al_2018_IBIS_SIA_ResourceSIA_Resource.csv
DOI: 10.5061/dryad.bn00s
title: Data from: Genetic and phenotypic relationships between immune defense, melanism and life history traits at different temperatures and sexes in Tenebrio molitor

description: Insect cuticle melanism is linked to a number of life-history traits, and
 a positive relationship is hypothesized between melanism and the strength
 of immune defense. In this study, the phenotypic and genetic relationships
 between cuticular melanization, innate immune defense, individual
 development time and body size were studied in the mealworm beetle
 (Tenebrio molitor) using three different temperatures with a half-sib
 breeding design. Both innate immune defense and cuticle darkness were
 higher in females than males, and a positive correlation between the
 traits was found at the lowest temperature. The effect of temperature on
 all the measured traits was strong, with encapsulation ability and
 development time decreasing and cuticle darkness increasing with a rise in
 temperature, and body size showing a curved response. The analysis showed
 a highly integrated system sensitive to environmental change involving
 physiological, morphological and life-history traits.
description: Data_Prokkola_et_al_2013Data collected from mealworm beetles reared individually in laboratory conditions at three different temperatures; 18, 23 and 28 degrees C, indicated by treatments 1, 2 and 3 respectively. Sex is encoded by 1=male and 0=female. Development indicates the number of days from the egg-laying to the emerging of the adult beetle. Encapsulation is the normalized darkness of an encapsulated implant (higher=more encapsulated) and cuticle is the darkness of the beetle's cuticle (lower=darker).