cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.604h6
title: Data from: Self-cannulation for haemodialysis: patient attributes, clinical correlates and self-cannulation predilection models

description: Background and objectives: With emerging evidence in support of home
 haemodialysis (HHD), patient factors which determine uptake of the
 modality need to be better understood. Self-cannulation (SC) is a major
 step towards enabling self-care ‘in-centre’ and home HD and remains the
 foremost barrier to its uptake. Human factors governing this aspect of HD
 practice are poorly understood. The aim of this study is to better
 understand self-cannulation preferences and factors which define them in
 end stage renal disease (ESRD). Design: In this multicentre study, 508 of
 535 patients from predialysis (Group A: n=222), in-centre (Group B: n=
 213), and home HD (Group C: n= 100) responded to a questionnaire with 3
 self-cannulation questions. Simultaneously, data on clinical, cognitive
 and psychosocial variables were ascertained. The primary outcome measure
 was ‘perceived ability to self-cannulate AV access’. Predictive models
 were developed using logistic regression analysis. Results: 36.6% of
 predialysis patients (A) and 29.1% of the ‘in-centre’ haemodialysis
 patients (B) felt able to consider SC for HD. Technical-skills related
 apprehension was highest in Group B (14.4%) patients. Response to routine
 venepuncture and the types of SC concerns were significant predictors of
 perceived ability to self-cannulate. There was no significant difference
 in concern for pain across the groups. In multivariable regression
 analysis, age, education level, 3MS score, hypoalbuminemia in Groups B
 & C and additionally, attitude to routine phlebotomy and the
 nature of specific concern for self-cannulation in Groups A, B and C, are
 significant predictors of SC preference. The unadjusted c-statistics of
 models 1 (derived from Group A and validated on A) and 2 (derived from B+C
 and validated on B), are 0.76(95% CI 0.69, 0.83) and 0.80 (95% CI 0.74,
 0.87) respectively. Conclusions: There is high prevalence of perceived
 ability to self-cannulate. Modifiable SC concerns exist in ESRD. The use
 of predictive models to objectively define and target education and
 training strategies could potentially impact on HD self-management and
 future uptake of home HD.
description: Self cannulation paper
 for DRYADSELF-CANNULATION
 DATASETS
DOI: 10.5061/dryad.3db6p
title: Data from: Evolution of pre- and post-copulatory traits in male Drosophila melanogaster as a correlated response to selection for resistance to cold stress

description: Background: In Drosophila melanogaster the fitness of males depends on a
 broad array of reproductive traits classified as pre- and post-copulatory
 traits. Exposure to cold stress, can reduce sperm number, male mating
 ability and courtship behavior. Therefore, it is expected that the
 adaptation to cold stress will involve changes in pre- and post-copulatory
 traits. Such evolution of reproductive traits in response to cold stress
 is not well studied. Methods: We selected replicate populations of D.
 melanogaster for resistance to cold shock. Over 37–46 generations of
 selection, we investigated pre- and post-copulatory traits such as mating
 latency, copulation duration, mating frequency, male fertility, fitness
 (progeny production) and sperm competitive ability in male flies subjected
 to cold shock and those not subjected to cold shock. Results: We found
 that post cold shock, the males from the selected populations had a
 significantly lower mating latency along with, higher mating frequency,
 fertility, sperm competitive ability and number of progeny relative to the
 control populations. Conclusion: While most studies of experimental
 evolution of cold stress resistance have documented the evolution of
 survivorship in response to selection, our study clearly shows that
 adaptation to cold stress involves rapid changes in the pre- and
 post-copulatory traits. Additionally, improved performances under
 stressful conditions need not necessarily trade-off with performance under
 benign conditions.
description: Singh et al.
 DataThe four sheets of the
 file contain data from the assays done in four experiments as described in
 the manuscript.
DOI: 10.5061/dryad.c6s34
title: Data from: Complex environmental drivers of immunity and resistance in malaria mosquitoes

description: Considerable research effort has been directed at understanding the
 genetic and molecular basis of mosquito innate immune mechanisms. Whether
 environmental factors interact with these mechanisms to shape overall
 resistance remains largely unexplored. Here we examine how changes in mean
 ambient temperature, diurnal temperature fluctuation, and time of day of
 infection affected the immunity and resistance of Anopheles stephensi to
 infection with Escherichia coli. We used quantitative PCR to estimate the
 gene expression of three immune genes in response to challenge with
 heat-killed Escherichia coli. We also infected mosquitoes with live E.
 coli and ran bacterial survival assays to quantify host resistance. Both
 mosquito immune parameters and resistance were directly affected by mean
 temperature, diurnal temperature fluctuation, and time of day of
 infection. Furthermore there was a suite of complex 2- and 3-way
 interactions yielding idiosyncratic phenotypic variation under different
 environmental conditions. The results demonstrate mosquito immunity and
 resistance to be strongly influenced by a complex interplay of
 environmental variables, challenging the interpretation of the very many
 mosquito immune studies conducted under standard laboratory conditions.
description: Gene Expression Assay
 dataThese data are
 associated with the gene expression experiment and were collected in the
 laboratory, initially entered into excel, and analyzed in SPSS IBM version
 21. There are two worksheets associated with this excel file. The
 GeneExpressionAssay worksheet contains gene expression data from each
 treatment group. The MortalityData worksheet includes mosquito mortality
 across the 24 hr experiment.GeneExpressionAssay_Data_dryad.xlsMosquito Resistance Assay DataThe data from the mosquito resistance assay were collected in the lab, initially recorded in excel, and analyzed in SPSS IBM version 21. These data consist of two worksheets. The InVivoEcoliGrowth worksheet contains the average growth of Escherichia coli 24 hr post-injection with 0.2 uL of heat-killed E. coli. The MortalityData worksheet contains the mortality data associated with this experiment across 24 hr.MosquitoResistanceAssay_Data_dryad.xlsx
DOI: 10.5061/dryad.v3t5g
title: Data from: Predictability rather than amplitude of temperature fluctuations determines stress resistance in a natural population of Drosophila simulans

description: The adaptability of organisms to novel environmental conditions depends on
 the amount of genetic variance present in the population as well as on the
 ability of individuals to adjust their phenotype through phenotypic
 plasticity. Here, we investigated the phenotypic plasticity induced by a
 single generation's exposure to three different temperature regimes
 with respect to several life-history and stress-resistance traits in a
 natural population of Drosophila simulans. We studied a constant as well
 as a predictably and an unpredictably fluctuating temperature regime. We
 found high levels of phenotypic plasticity among all temperature regimes,
 suggesting a strong influence of both temperature fluctuations and their
 predictability. Increased heat tolerance was observed for flies developed
 in both types of fluctuating thermal environments compared with flies
 developed in a constant environment. We suggest that this was due to
 beneficial hardening when developing in either fluctuating temperature
 environment. To our surprise, flies that developed in constant and
 predictably changing environments were similar to each other in most
 traits when compared to flies from the unpredictably fluctuating
 environment. The unpredictably changing thermal environment imposed the
 most stressful condition, resulting in the lowest performance for
 stress-related traits, even though the absolute temperature changes never
 exceeded that of the predictably fluctuating environment. The overall
 decreased stress resistance of flies in the unpredictably fluctuating
 environment may be the consequence of maladaptive phenotypic plasticity in
 this setting, indicating that the adaptive value of plasticity depends on
 the predictability of the environment.
description: JEB-2014-00330.R1The data file includes 8 tables. Each table refers to a different life history traits.data Manenti JEB-2014-00330.R1.xlsx
DOI: 10.5061/dryad.rk836
title: Data from: The dynamics of niche evolution upon abrupt environmental change

description: Abrupt environmental changes are of particular interest to understand how
 species can quickly evolve at the boundary of their current niche. In
 particular the ‘sliding niche’ model, wherein a niche shifts globally
 toward the new condition, has been utilized in understanding and modeling
 this process. Here, we investigate the dynamics of relative fitness change
 in four evolutionary replicates of Escherichia coli populations exposed to
 an extreme pH shift. We analyzed these changes at generations 500, 1000
 and 2000 to determine, whether niche global deformations fully capture the
 temporal dynamics of niche evolution. Strikingly, this analysis reveals
 that fitness variations can indeed be attributed to simple and global
 deformation of an underlying simple niche template. Analysis from two
 experimental replicates displays a transient increase in niche width,
 consistent with recent theory considering plasticity evolution in the
 context of an abrupt environmental change. We term this scenario the
 ‘sidestep niche model’.
description: The dynamics of niche
 evolution upon abrupt environmental changeIn this excel files, 1.
 we describe our data on the "Readme" sheet, and 2. show the raw
 data used in our article. On the "relative fitness" sheet, the
 data used for our estimation of selection coefficients (s) are presented.
 On the "rmax" sheet, the data used for the estimation of maximal
 growth rate are shown.Gallet R. data from The
 dynamics of niche evolution upon abrupt environmental
 change.xlsx
DOI: 10.5061/dryad.7947gd0
title: Data from: The demanding grey zone: sport indices by cardiac magnetic resonance imaging differentiate hypertrophic cardiomyopathy from athlete's heart

description: Background: We aimed to characterize gender specific left ventricular
 hypertrophy using a novel, accurate and less time demanding cardiac
 magnetic resonance (CMR) quantification method to differentiate
 physiological hypertrophy and hypertrophic cardiomyopathy based on a large
 population of highly trained athletes and hypertrophic cardiomyopathy
 patients. Methods and Results: Elite athletes (n=150,&gt;18 training
 hours/week), HCM patients (n=194) and athletes with hypertrophic
 cardiomyopathy (n=10) were examined by CMR. CMR based sport indices such
 as maximal end-diastolic wall thickness to left ventricular end-diastolic
 volume index ratio (EDWT/LVEDVi) and left ventricular mass to left
 ventricular end-diastolic volume ratio (LVM/LVEDV) were calculated,
 established using both conventional and threshold-based quantification
 method. Whereas 47.5% of male athletes, only 4.1% of female athletes were
 in the grey zone of hypertrophy (EDWT 13-16mm). EDWT/LVEDVi discriminated
 between physiological and pathological left ventricular hypertrophy with
 excellent diagnostic accuracy (AUCCQ:0.998, AUCTQ:0.999). Cut-off value
 for LVM/LVEDVCQ&lt;0.82 mm×m2/ml and for EDWT/LVEDViTQ&lt;1.27
 discriminated between physiological and pathological left ventricular
 hypertrophy with a sensitivity of 77.8% and 89.2%, a specificity of 86.7%
 and 91.3%, respectively. LVM/LVEDV evaluated using threshold-based
 quantification performed significantly better than conventional
 quantification even in the male subgroup with EDWT between 13-16mm
 (p&lt;0.001). Conclusions: Almost 50% of male highly trained athletes
 can reach EDWT of 13 mm. CMR based sport indices provide an important tool
 to distinguish hypertrophic cardiomyopathy from athlete’s heart,
 especially in highly trained athletes in the grey zone of hypertrophy.
description: raw
 databaseRaw data regarding the
 paper entitled "The Demanding Grey Zone: Sport Indices by Cardiac
 Magnetic Resonance Imaging Differentiate Hypertrophic Cardiomyopathy from
 Athlete’s Heart" is presented in the current file. Codes applied in
 the database are presented in a separate spreadsheet. Abbreviations are
 listed in the manuscript.Raw data
 PONE-D-18-15743R1.xlsx
DOI: 10.5061/dryad.br63t4d0
title: Data from: The abundance of deleterious polymorphisms in humans

description: Here I show a gradual decline in the proportion of deleterious
 nonsynonymous SNPs (nSNPs) from tip to root of the human population tree.
 This study reveals that up to 48% of nSNPs specific to a single genome are
 deleterious in nature, which underscores the abundance of deleterious
 polymorphisms in humans.
description: Polyphen_results
DOI: 10.5061/dryad.v6q77
title: Data from: Weak link between dispersal and parasite community differentiation or immunogenetic divergence in two sympatric cichlid fishes

description: Geographical isolation, habitat variation and trophic specialization have
 contributed to a large extent to the astonishing diversity of cichlid
 fishes in the Great East African lakes. Because parasite communities often
 vary across space and environments, parasites can accompany and
 potentially enhance cichlid species diversification. However, host
 dispersal may reduce opportunities for parasite-driven evolution by
 homogenizing parasite communities and allele frequencies of immunity
 genes. To test for the relationships between parasite community variation,
 host dispersal and parasite-induced host evolution, we studied two
 sympatric cichlid species with contrasting dispersal capacities along the
 shores of southern Lake Tanganyika. Whereas the philopatric Tropheus
 moorii evolved into several genetically differentiated colour morphs,
 Simochromis diagramma is phenotypically rather uniform across its
 distribution range and shows only weak population structure. Populations
 of both species were infected with divergent parasite communities and
 harbour differentiated variant pools of an important set of immune genes,
 the major histocompatibility complex (MHC). The overall extent of
 geographical variation of parasites and MHC genes was similar between host
 species. This indicates that immunogenetic divergence among populations of
 Lake Tanganyika cichlids can occur even in species that are strongly
 dispersing. However, because this also includes species that are
 phenotypically uniform, parasite-induced evolution may not represent a key
 factor underlying species diversification in this system.
description: Tropheus moorii
 microsatellite genotypesFile in genepop
 formatTropheus_microsats_genepop.genSimochromis diagramma microsatellites genotypesFile in genepop formatSimochromis_microsats_genepop.genTropheus moorii and Simochromis diagramma - miscellaneous dataphenotypic data, parasite data and MHC genotypesTroSim_data_20160830.txt
DOI: 10.15468/dl.vgeyh6
title: Occurrence Download

description: A dataset containing 780 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Human Observation",
 "Country is Mexico",
 "TaxonKey is Drymobius margaritiferus",
 "Year 1960-2026"
 ]
}

 The dataset includes 780 records from 13 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000766-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.82vr4
title: Data from: Biomass resilience of Neotropical secondary forests

description: Land-use change occurs nowhere more rapidly than in the tropics, where the
 imbalance between deforestation and forest regrowth has large consequences
 for the global carbon cycle1. However, considerable uncertainty remains
 about the rate of biomass recovery in secondary forests, and how these
 rates are influenced by climate, landscape, and prior land use2, 3, 4.
 Here we analyse aboveground biomass recovery during secondary succession
 in 45 forest sites and about 1,500 forest plots covering the major
 environmental gradients in the Neotropics. The studied secondary forests
 are highly productive and resilient. Aboveground biomass recovery after 20
 years was on average 122 megagrams per hectare (Mg ha−1), corresponding to
 a net carbon uptake of 3.05 Mg C ha−1 yr−1, 11 times the uptake rate of
 old-growth forests. Aboveground biomass stocks took a median time of 66
 years to recover to 90% of old-growth values. Aboveground biomass recovery
 after 20 years varied 11.3-fold (from 20 to 225 Mg ha−1) across sites, and
 this recovery increased with water availability (higher local rainfall and
 lower climatic water deficit). We present a biomass recovery map of Latin
 America, which illustrates geographical and climatic variation in carbon
 sequestration potential during forest regrowth. The map will support
 policies to minimize forest loss in areas where biomass resilience is
 naturally low (such as seasonally dry forest regions) and promote forest
 regeneration and restoration in humid tropical lowland areas with high
 biomass resilience.
description: Above-ground biomass of
 Neotropical secondary forests databaseThis database is the
 product of the 2ndFOR collaborative research network on secondary forests.
 The database contains aboveground biomass data (in Mg/ha) for 1334
 secondary forest plots differing in time since abandonment. The plots
 belong to different chonosequence studies in the Neotropics. For a
 description of the database, see Poorter et al. 2016. Biomass resilience
 of Neotropical secondary forests. Nature
 doi:10.1038/nature16512.Aboveground biomass 2ndFOR
 database.csv
DOI: 10.15468/dl.ppcth3
title: Occurrence Download

description: A dataset containing 178 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Continent is Asia",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Rhodiola discolor"
 ]
}

 The dataset includes 178 records from 15 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000767-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.q0t6b
title: Data from: Foraging and fasting can influence contaminant concentrations in animals: an example with mercury contamination in a free-ranging marine mammal

description: Large fluctuations in animal body mass in relation to life-history events
 can influence contaminant concentrations and toxicological risk. We
 quantified mercury concentrations in adult northern elephant seals
 (Mirounga angustirostris) before and after lengthy at sea foraging trips
 (n = 89) or fasting periods on land (n = 27), and showed that mercury
 concentrations in blood and muscle changed in response to these events.
 The highest blood mercury concentrations were observed after the breeding
 fast, whereas the highest muscle mercury concentrations were observed when
 seals returned to land to moult. Mean female blood mercury concentrations
 decreased by 30% across each of the two annual foraging trips,
 demonstrating a foraging-associated dilution of mercury concentrations as
 seals gained mass. Blood mercury concentrations increased by 103% and 24%
 across the breeding and moulting fasts, respectively, demonstrating a
 fasting-associated concentration of mercury as seals lost mass. In
 contrast to blood, mercury concentrations in female's muscle
 increased by 19% during the post-breeding foraging trip and did not change
 during the post-moulting foraging trip. While fasting, female muscle
 mercury concentrations increased 26% during breeding, but decreased 14%
 during moulting. Consequently, regardless of exposure, an animal's
 contaminant concentration can be markedly influenced by their annual
 life-history events.
description: Mercury concentrations
 in foraging and fasting sealsThese are the supporting
 data for Peterson et al. 2018 “Foraging and fasting can influence
 contaminant concentrations in animals: an example with mercury
 contamination in a free-ranging marine mammal.” Included is the ID of each
 individual seal, the sex of each seal, and the date of the sample
 collection. We indicate which samples we used in each paired analysis
 (blood, muscle, and hair analyses across foraging trips or fasting
 periods). We indicate the Foraging Trip (Post-breeding vs. Post-molting)
 or Fasting Period (Breeding vs. Molting) that was used in analyses as well
 as the time period within a foraging trip (Pre-foraging vs. Post-foraging)
 or fasting period (Early fasting vs. Late fasting). We provide the mass
 (kg) of adult female seals and the standard length (cm) of seals. Total
 mercury (THg) concentrations are presented for blood (wet weight), hair
 (dry weight), and muscle (dry weight) in micrograms THg per gram (ppm).
 Note that individual seals are sampled multiple times in this dataset,
 thus the sampling dates are important to align samples temporally. Please
 contact the authors before using these data.Peterson_et_al_2018_elephant_seal_tissue_THg_concentrations.csv
DOI: 10.15468/dl.bq83nv
title: Occurrence Download

description: A dataset containing 1025 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is one of (Human Observation, Specimen)",
 "Geometry POLYGON((105 20,170 20,170 70,105 70,105 20))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Oxyria digyna"
 ]
}

 The dataset includes 1025 records from 40 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000765-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.