cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.5rk1851
title: Data from: The role of volatile plant secondary metabolites as pre-ingestive cues and potential toxins dictating diet selection by African elephants

description: Understanding the factors driving diet selection represents one of the
 main thrusts of contemporary foraging ecology. Many studies have focussed
 on nutritional factors and anti-nutritional factors (such as tannins) that
 may describe diet selection of generalist mammalian herbivores, but these
 often do not explain the observed feeding patterns. Alternatively,
 generalist herbivores may be influenced by the presence, diversity, and/or
 concentration of toxins. Plant volatiles have been understudied, yet may
 play an important role in this context. We aimed to determine whether diet
 selection by African elephants is better correlated with the presence and
 concentration of toxic plant secondary metabolites (PSMs) than with
 nutritional or anti-nutritional factors. We also aimed to identify the
 specific aspects of the plant-odour profiles that were correlated with
 dietary selection, which could be used as a pre-ingestive cue for food
 selection. We found that elephant diet selection was not well described by
 crude protein, in vitro digestibility, tannin concentration, and total
 polyphenol concentration. Instead, the best predictors of elephant diet
 choice were the number and absolute (total) emissions of potentially toxic
 volatile PSMs, specifically monoterpenes. Elephants avoided plant species
 that emitted a wider diversity of volatile PSMs, had higher total
 emissions, and higher numbers and emissions of monoterpenes. This suggests
 that PSMs with a high propensity to become toxins, such as monoterpenes,
 are likely a better indicator for elephant diet avoidance than nutritional
 or anti-nutritional factors. Moreover, we demonstrated that elephants can
 differentiate between food items based on odour alone, specifically
 volatile monoterpenes, suggesting that these animals are relying on
 specific volatile cues emitted from plants to direct their foraging
 choices prior to ingesting selected plants.
description: Table
 S1Relative amounts (%
 based on peak areas) of volatile organic compounds identified from
 headspace samples collected from leaves of preferred and avoided trees.
 Unidentified compounds are presented with the molecular mass first (if
 known) indicated by a * followed by the base peak and remaining fragments
 in decreasing order of abundance. tr = compounds representing &lt; 0.005 %
 of the total odour blend. Identification criteria: A = library match
 confirmed with published linear n-alkane retention index (Van Den Dool
 & Kratz 1963), B = library match only, C = library match confirmed
 with synthetic standard.Data S1 final
 v1.xlsx
DOI: 10.5061/dryad.n804b6d
title: Data from: Demography-dispersal trait correlations modify the eco-evolutionary dynamics of range expansion

description: Spreading populations are subject to evolutionary processes acting on
 dispersal and reproduction that can increase invasion speed and
 variability. It is typically assumed that dispersal and demography traits
 evolve independently, but abundant evidence points to correlations between
 them that may be positive or negative, genetic or environmental. We sought
 to understand how demography-dispersal correlations modify the
 eco-evolutionary dynamics of range expansion. We first explored this
 question with the beetle Callosobruchus maculatus, a laboratory model in
 which evolutionary acceleration of invasion has been demonstrated. We then
 built a simulation model to explore the role of trait correlations in this
 system and more generally. We found that positive correlations amplify the
 positive influence of evolution on speed and variability, while negative
 correlations (such as we found empirically) constrain that influence.
 Strong negative genetic correlations can even cause evolution to
 decelerate invasion. Heritable and environmental correlations had similar
 effects on some measures of invasion but different effects on others.
 Model results enabled us to retrospectively explain invasion dynamics and
 trait evolution in C. maculatus, and may similarly aid the interpretation
 of other field and laboratory studies. Non-independence of demography and
 dispersal is an important consideration for understanding and predicting
 outcomes of range expansion.
description: QG_exp_datResults of quantitative genetic experiment with C. maculatus. Data fields are as follows: animal - the focal individual (female) on which measurements were taken; dam - the individual's maternal parent; sire - the individual's paternal parent; dist - the individual's signed dispersal distance (number of patches); beans - the number of beans available for oviposition; f - count of the individual's female offspring
DOI: 10.5061/dryad.qn8p2n0
title: Data from: Identification of candidate risk factor genes for human idelalisib toxicity using a collaborative cross approach

description: Idelalisib is a phosphatidylinositol 3-kinase inhibitor highly selective
 for the delta isoform that has shown good efficacy in treating chronic
 lymphocytic leukemia and follicular lymphoma. In clinical trials, however,
 idelalisib was associated with rare, but potentially serious liver and
 lung toxicities. In this study, we used the Collaborative Cross (CC) mouse
 population to identify genetic factors associated with the drug response
 that may inform risk management strategies for idelalisib in humans. Eight
 (8) male mice (4 matched pairs) from 50 CC lines were treated once daily
 for 14 days by oral gavage with either vehicle or idelalisib at a dose
 selected to achieve clinically-relevant peak plasma concentrations (150
 mg/kg/day). The drug was well tolerated across all CC lines, and there
 were no observations of overt liver injury. Differences across CC lines
 were seen in drug concentration in plasma samples collected at the
 approximate Tmax on study Days 1, 7, and 14. There were also small but
 statistically significant treatment-induced alterations in plasma total
 bile acids and microRNA-122, and these may indicate early hepatocellular
 stress required for immune-mediated hepatotoxicity in humans. Idelalisib
 treatment further induced significant elevations in the total cell count
 of terminal bronchoalveolar lavage fluid, which may be analogous to
 pneumonitis observed in the clinic. Genetic mapping identified loci
 associated with interim plasma idelalisib concentration and the other
 three treatment-related endpoints. Thirteen (13) priority candidate
 quantitative trait genes identified in CC mice may now guide interrogation
 of risk factors for adverse drug responses associated with idelalisib in
 humans.
description: Merge analysis result
 tableMerge analysis result
 table of the four phenotypes discussed in the
 manuscript.T2.MergeAnalysis.xlsxPhenotype expression correlation tableTable of the correlation between four interested phenotypes with baseline expression data from Mosedale 2017T3.PhenoExpCorrelation.xlsxFold change phenotypesFor each mice pair, the table includes all fold-change phenotypes of the pair as well as strain, batch information.T1.PhenotypeFoldChange.xlsx
DOI: 10.5061/dryad.c07s28s
title: Data from: Community assembly and climate mismatch in Late-Quaternary eastern North American pollen assemblages

description: Plant community response to climate change ranges from synchronous
 tracking to strong mismatch. Explaining this variation in climate change
 response is critical for accurate global change modeling. Here we quantify
 how closely assemblages track changes in climate (match/mismatch) and how
 broadly climate niches are spread within assemblages (narrow/broad
 ecological tolerance, or ‘filtering’) using data for the last 21 ka for
 531 eastern North American fossil pollen assemblages. Although climate
 matching has been strong over the last 21 millennia, mismatch increased in
 30% of assemblages during the rapid climate shifts between 14.5 to 10 ka
 BP. Assemblage matching rebounded towards the present day in 10-20% of
 assemblages. Climate-assemblage mismatch was greater in tree-dominated and
 high-latitude assemblages, consistent with persisting populations, slower
 dispersal rates, and glacial retreat. In contrast, climate matching was
 greater for assemblages comprising taxa with higher median seed mass. Over
 half of the assemblages were climatically filtered at any given time, with
 peak filtering occurring at 8.5 ka BP for nearly 80% of assemblages. Thus,
 vegetation assemblages have highly variable rates of climate mismatch and
 filtering over millennial scales. These climate responses can be partially
 predicted by species’ traits and life histories. These findings help
 constrain predictions for plant community response to contemporary climate
 change.
description: Mismatch and filtering
 for the basic regional poolThis file has all the
 mismatch/lambda (deviationmismatch.ses) and filtering/delta
 (deviationvolume.ses) values for each site (n=531) at each time slice
 (over 21 ka) for the basic regional pool. Additional variables include the
 site's latitude/longitude, the raw ComClim outputs (column G through
 P) from the R program, the proportion of different growth forms, and the
 proportion of broadleaf taxa.DataDryad_allTraitsRun1.csvMismatch and filtering for the rare regional poolSame as format as the basic regional pool.DataDryad_allTraitsRun3.csv
DOI: 10.5061/dryad.46j4r0q
title: Data from: An experimental test for body size-dependent effects of male harassment and an elevated copulation rate on female fecundity and offspring performance

description: Many studies investigate the benefits of polyandry, but repeated
 interactions with males can lower female reproductive success. Interacting
 with males might even decrease offspring performance if it reduces a
 female’s ability to transfer maternal resources. Male presence can be
 detrimental for females in two ways: by forcing females to mate at a
 higher rate, and through costs associated with resisting male mating
 attempts. Teasing apart the relative costs of elevated mating rates from
 those of greater male harassment is critical to understand the evolution
 of mating strategies. Furthermore, it is important to test if a male’s
 phenotype, notably body size, has differential effects on female
 reproductive success versus the performance of offspring, and whether this
 is due to male body size affecting the costs of harassment or the actual
 mating rate. In the eastern mosquitofish Gambusia holbrooki males vary
 greatly in body size, and continually attempt to inseminate females. We
 experimentally manipulated male presence (i.e., harassment), male body
 size, and whether males could copulate. Exposure to males had strong
 detrimental effects on female reproductive output, growth and immune
 response, independent of male size or whether males could copulate. In
 contrast, there was little evidence of a cross-generational effect of male
 harassment or mating rate on offspring performance. Our results suggest
 that females housed with males pay direct costs due to reduced condition
 and offspring production, and that these costs are not a consequence of
 increased mating rates. Furthermore, exposure to males does not affect
 offspring reproductive traits.
description: Dataset Costs Of
 MatingThe dataset contains all
 the female, offspring and son traits measured to explore the costs of
 harassment and copulation when females are exposed to large and small
 males.DatasetCostofMating.xlsx
DOI: 10.5061/dryad.74vm25v
title: Data from: Disturbance increases high tide travel distance of a roosting shorebird but only marginally affects daily energy expenditure

description: Anthropogenic disturbance can negatively affect an animal’s energy budget
 by evoking movement responses. Existing research focuses mainly on
 immediate displacement as a disturbance effect, since this can be easily
 observed in the field. However, effects on movement over longer timescales
 are poorly examined and it is largely unknown if and to what extent they
 reflect immediate responses. Longer-term responses could for example be
 larger than immediate responses if birds, after disturbance, return to the
 original location and thereby travel twice the immediate disturbed
 distance. We combined GPS tracking data with observational data to
 quantify the effects of anthropogenic (air force and walkers) and
 non-anthropogenic disturbances on distances travelled by roosting Eurasian
 Oystercatchers (Haematopus ostralegus) during the non-breeding season. We
 compared immediate displacement after a disturbance with distance
 travelled during the entire high tide period (longer-term response), while
 accounting for environmental factors. Additionally, we calculated energy
 expenditure due to disturbance based on observed disturbance frequencies.
 Disturbance resulted in an immediate displacement response of ~ 200 m
 (median). Air force disturbances tended to yield larger immediate
 responses than walker and, especially, than non-anthropogenic
 disturbances. Longer-term responses and immediate responses were
 approximately similar, suggesting that, over longer timescales, spatial
 disturbance effects in the study area remain confined to immediate
 effects. However, disturbances were infrequent [(0.17 disturbances/( per
 bird· per hour)] and most disturbances were of natural origin (62%).
 Consequently, anthropogenic disturbance of roosting oystercatchers in the
 study area on average costs 0.08% of the daily energy expenditure. Our
 results suggest that immediate spatial responses to disturbance can be a
 useful proxy for spatial responses over longer timescales. Over the
 non-exhaustive range of conditions investigated, energetic consequences of
 spatial disturbance responses for an oystercatcher in the study area are
 marginal due to low disturbance levels.
description: Undisturbed and
 disturbed displacement distancesFive minute displacement
 distances of non-disturbed (pre-disturbed) and disturbed GPS-tracked
 oystercatchers.Immed.displ.analysis.csvHigh tide travel distanceHigh tide travel distance of wintering oystercatchers on the Wadden Island Vlieland, the Netherlands.High.tide.analysis.csv
DOI: 10.5061/dryad.cd56364
title: Data from: Detecting mosaic patterns in macroevolutionary disparity

description: Evolutionary biologists have long sought to understand the full complexity
 in pattern and process that shapes organismal diversity. Although
 phylogenetic comparative methods are often used to reconstruct complex
 evolutionary dynamics, they are typically limited to a single phenotypic
 trait. Extensions that accommodate multiple traits lack the ability to
 partition multidimensional datasets into a set of mosaic suites of
 evolutionarily linked characters. I introduce a comparative framework that
 identifies heterogeneity in evolutionary patterns across large datasets of
 continuous traits. Using a model of continuous trait evolution based on
 the differential accumulation of disparity across lineages in a phylogeny,
 the approach algorithmically partitions traits into a set of character
 suites that best explains the data, where each suite displays a distinct
 pattern in phylogenetic morphological disparity. When applied to empirical
 data, the approach revealed a mosaic pattern predicted by developmental
 biology. The evolutionary distinctiveness of individual suites can be
 investigated in more detail, either by fitting conventional comparative
 models or by directly studying the phylogenetic patterns in disparity
 recovered during the analysis. This framework can supplement existing
 comparative approaches by inferring the complex, integrated patterns that
 shape evolution across the body plan from disparate developmental,
 morphometric, and environmental sources of phenotypic data.
description: parins-fukuchi_data
DOI: 10.5061/dryad.91k8jr2
title: Data from: Non-steroidal anti-inflammatory drugs use in older adults decreases risk of Alzheimer’s disease mortality

description: Alzheimer disease (AD) mortality risk in a large cohort of subjects
 treated or not with non-steroidal anti-inflammatory drugs (NSAIDs) is
 unknown. Our objective was to determine whether NSAIDs use is associated
 with decreased risk of AD mortality. Methods: In this prospective,
 population-based study (Neurological Disorders in Central Spain [NEDICES])
 of 5,072 people without AD (aged 65 years and older), sociodemographic,
 comorbidity factors, and current medications were recorded at baseline.
 Community-dwelling older adults were followed for a median of 12.7 years,
 after which the death certificates of deceased participants were examined.
 2,672 (52.7%) of 5,072 participants died, including 504 (18.9%) NSAIDs
 users and 2,168 (81.1%) non-users. Of the 2,672 deceased participants, 113
 (4.2%) had AD as a cause of death (8 [1.6%] among NSAIDs users and 105
 [4.8%] among non-users, chi-square = 10.70, p=0.001). In an unadjusted Cox
 model, risk of AD mortality was decreased in NSAIDs users (hazard ratio
 [HR] for AD mortality = 0.35, 95% confidence interval [CI] 0.17–0.72,
 p=0.004) when compared to non-users. After adjusting for numerous
 demographic factors and co-morbidities, the HR for AD mortality in NSAIDs
 users was 0.29, 95% CI 0.12–0.73, p=0.009. Stratified analyses showed a
 significantly decreased risk of AD mortality with aspirin, whereas
 non-aspirin NSAIDs only showed a statistical trend toward significance in
 the adjusted Cox regression models. NSAIDs use was associated with 71%
 decreased risk of AD mortality in older adults. Our results support the
 hypothesis that NSAIDs use is a protective factor of developing AD.
description: NEDICESNEDICES dataset
DOI: 10.5061/dryad.mv97842
title: Data from: A framework for the integrated analysis of the magnitude, selectivity, and biotic effects of extinction and origination

description: The taxonomic and ecologic composition of Earth’s biota has shifted
 dramatically through geologic time, with some clades going extinct while
 others diversified. Here, we derive a metric that quantifies the change in
 biotic composition due to extinction or origination and show that it
 equals the product of extinction/origination magnitude and selectivity
 (variation in magnitude among groups). We also define metrics that
 describe the extent to which a recovery (1) reinforced or reversed the
 effects of extinction on biotic composition and (2) changed composition in
 ways uncorrelated with the extinction. To demonstrate the approach, we
 analyzed an updated compilation of stratigraphic ranges of marine animal
 genera. We show that mass extinctions were not more selective than
 background intervals at the phylum level; rather, they tended to drive
 greater taxonomic change due to their higher magnitudes. Mass extinctions
 did not represent a separate class of events with respect to either
 strength of selectivity or effect. Similar observations apply to
 origination during recoveries from mass extinctions, and on average,
 extinction and origination were similarly selective and drove similar
 amounts of biotic change. Elevated origination during recoveries drove
 bursts of compositional change that varied considerably in effect. In some
 cases, origination partially reversed the effects of extinction, returning
 the biota towards the pre-extinction composition; in others, it reinforced
 the effects of the extinction, magnifying biotic change. Recoveries were
 as important as extinction events in shaping the marine biota, and their
 selectivity deserves systematic study alongside that of extinction.
description: Bush Supplementary
 AppendixContains a discussion of
 Supplementary Figure 1 and R code for calculating error
 barsBush Supplementary
 Figure 1Hypothetical extinction
 scenarios that combine different values of magnitude and
 selectivityBush Supplementary Fig
 1.pdfBush Supplementary Table
 1Descriptions of
 parameters in Supplementary Tables 2 and 3Bush Supplementary Table
 2Raw
 results of analysesBush Supplementary Table
 3More
 raw results of analyses
DOI: 10.5061/dryad.m54ff05
title: Data from: Effects of flight and food stress on energetics, reproduction, and lifespan in the butterfly Melitaea cinxia

description: Environmental change can have drastic effects on natural populations. To
 successfully predict such effects, we need to understand how species that
 follow different life-history strategies respond to stressful conditions.
 Here I focus on two stressors, increased flight and dietary restriction,
 and their effects on bioenergetics and life-history. Using the Glanville
 fritillary butterfly (Melitaea cinxia), I subjected mated females to three
 treatments: (1) control conditions, (2) repeated forced flight with
 unlimited food, and (3) repeated forced flight coupled with food
 restriction. Interestingly, flight increased fecundity: females in both
 flight treatments initiated oviposition earlier, laid more egg clutches,
 and had higher total fecundity than control females. However,
 food-restriction by 50% reduced clutch size and resulted in an
 approximately 25% decrease in total fecundity compared to flown females
 with unlimited food. There were no differences in egg wet mass, water
 content or hatching success. Flown females with unlimited food appeared to
 exhibit a trade-off between reproduction and lifespan: they had higher
 mass-independent resting metabolic rate and shorter lifespan than females
 in the other treatments. Mass-independent flight metabolic rate,
 reflecting flight capacity, did not differ among the treatments. There
 were no differences in the rate of metabolic senescence across the
 treatments. The current findings suggest a mechanistic link between flight
 and reproduction, potentially mediated by juvenile hormone signalling. It
 appears that this wing-monomorphic butterfly does not show an
 oogenesis-flight trade-off often found in wing-dimorphic insects.
 Nevertheless, nectar-feeding is needed for achieving maximum reproductive
 output, suggesting that diminishing nectar resources may negatively impact
 natural populations.
description: Niitepõld 2019 Oecologia
 dataData are from female
 Glanville fritillary butterflies reared at Lammi Biological Station,
 Finland. Each female has multiple rows in the dataset; one row per day.
 Females were fed twice daily with honey-water. Additional information is
 provided in the comments in the data headers. Measured traits include:
 body mass, food intake, number of eggs laid, egg wet mass, egg dry mass,
 water percentage, resting metabolic rate, peak flight metabolic rate,
 total volume of CO2 emitted during flight measurement, lifespan, age at
 the onset of reproduction, number of clutches.