cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.17611/dp/17964383
title: Global ShakeMovie synthetic for November 03, 2019 MW 5.6 LA RIOJA PROVINCE, ARGENTINA
DOI: 10.17611/dp/17964387
title: Global ShakeMovie synthetic for November 04, 2019 MW 5.5 SOUTH OF FIJI ISLANDS
DOI: 10.34965/i11065
title: 20230337_Baratella
DOI: 10.15468/dl.dkqzm5
title: Occurrence Download

description: A dataset containing 1494 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Acantholimon tenuiflorum Boiss., Aethionema orbiculatum (Boiss.) Hayek, Astragalus gummifer Labill., Chamaecytisus austriacus (L.) Link, Convolvulus libanoticus Boiss., Cytisus biflorus (Desf.) Ker Gawl.)",
 "Geometry POLYGON((-26.7 66.09, -30.2 28, -13.14 26.91, 6.24 34.9, 10.56 33.64, 31.28 34.56, 41.18 41.22, 40.26 43.46, 48.58 41.88, 50.74 47.2, 60 55.44, 59.14 65, 67.46 68.81, 63.64 70.4, 23.2 71, -26.7 66.09))"
 ]
}

 The dataset includes 1494 records from 88 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0021805-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.k0v636g
title: Data from: Multidimensional analyses of physical performance reveal a size dependent trade-off between suites of traits

description: 1. Animal movement is multidimensional and complex, and to understand the
 motor system of wild animals in the context of their natural ecology, we
 must analyze how suites of performance traits both mutualistically and
 antagonistically affect function —a necessity highlighted by previous work
 on performance trade-offs. 2. Evidence from some studies of human athletes
 using multidimensional analyses of performance suggests that overall
 quality among individuals can mask functional trade-offs within them, yet
 no studies have tested this idea using wild animals. In this study, we
 investigated the possible mutualistic and antagonistic associations among
 eight different whole-animal performance traits in male and female
 northern quolls (Dasyurus hallucatus). 3. We detected trade-offs between
 pairs of performance traits when conducted on raw standardized data using
 both Pearson product moment correlations and partial correlation analyses.
 For example, grasp strength was negatively associated with beam running
 speed using both analyses, suggesting that morphological designs that
 enhance grasp strength simultaneously compromise an animal’s motor control
 or stability on a narrow beam. 4. In addition, we detected a trade-off
 between two distinct sets of performance traits; grasp strength, bite
 force and maximum oxygen consumption were negatively associated with jump
 acceleration and beam-running speed. This trade-off between sets of
 performance traits accounted for around one third of the total variance in
 performance among individuals and was primarily driven by the effects of
 body size on both groups of traits. Larger body sizes improved grasp
 strength, bite forces and maximum oxygen consumption rates but decreased
 jump accelerations and beam-running speeds. 5. Because the first component
 of a PCA based on all eight performance traits (PCAP) did not load in the
 same direction for all traits, this first dimension of the PCA did not
 represent an overall metric of motor performance. Rather we found that
 performance traits were differentially related to PCAPerf, which was
 highly associated with an individual’s body size. Or study highlights the
 importance of studying suites of traits when exploring the functional
 phenotype of organisms rather than just one or two dimensions of
 performance.
description: Data
 from:Multidimensional analyses of physical performance reveal a size
 dependent trade-off between suites of traits.Morphology and
 performance data.Chartersetal.2018data.xlsx
DOI: 10.5061/dryad.p7t9289
title: Data from: Missing the people for the trees: identifying coupled natural-human system feedbacks driving the ecology of Lyme disease

description: 1. Infectious diseases are rapidly emerging and many are increasing in
 incidence across the globe. Processes of land-use change, notably habitat
 loss and fragmentation, have been widely implicated in emergence and
 spread of zoonoses such as Lyme disease, yet evidence remains equivocal.
 2. Here we discuss and apply an innovative approach from the social
 sciences, instrumental variables, that seeks to tease out causality from
 observational data. Using this approach, we revisit the effect of forest
 fragmentation on Lyme disease incidence, focusing on human interaction
 with fragmented landscapes. Though human interaction with infected ticks
 is of clear and fundamental importance to human disease incidence, human
 activities that influence exposure have been nearly universally overlooked
 in the ecology literature. 3. Using county-level land-use and Lyme disease
 incidence data for ~800 counties from the northeastern United States over
 the span of a decade, we illustrate (1) human interaction with fragmented
 forest landscapes reliably predicts Lyme disease incidence, while
 ecological measures of forest fragmentation alone are unreliable
 predictors and (2) that identifying the effect of forest fragmentation on
 human disease requires addressing the feedback between Lyme disease risk
 and human decisions to avoid interaction with high-risk landscapes. 4.
 Synthesis and applications. The innovative approach and novel results help
 to clarify the equivocal literature on forest fragmentation and Lyme
 disease, and illustrate the key role that human behavior may be playing in
 the ecology of Lyme disease in North America. Accounting for human
 activity and behavior in the ecology of disease more broadly may result in
 improved understanding of both the ecological drivers of disease, as well
 as actionable intervention strategies to reduce disease burden in a
 changing world. For example, our model results have practical implications
 for land-use policy aimed at disease reduction. Our model suggests land
 use regulations that reduce parcel size would be an actionable approach
 for policy makers concerned about increasing Lyme disease incidence in the
 northeastern US.10-Oct-2018
description: MacDonaldetal_JAE_2018Data file including all relevant variables modeled in MacDonald et al 2018, Journal of Applied Ecology
DOI: 10.5061/dryad.62br8t6
title: Data from: Social context alters host behavior and infection risk

description: Variation in infection risk and transmission potential are widespread in
 human and wildlife diseases and play a central role in host-pathogen
 dynamics. To explain this variation, most studies focus on linking host
 traits to differences in pathogen exposure, infection, and transmission,
 but typically do not to account for hosts’ social context. Yet, an
 individual’s risk of acquiring infection is likely influenced jointly by
 their own traits and their social environment. Here, we use three natural
 genotypes of the fruit fly Drosophila melanogaster to test how variation
 in pathogen transmission is linked to differences in host behavior and
 social context. We constructed groups of 12 flies from one of three
 different genotypes and five different sex ratios (0%, 33%, 50%, 67%, or
 100% female) in a fully factorial design. To each group we added a male or
 female “primary case” fly that had been exposed to the generalist fungal
 entomopathogen Metarhizium robertsii. We then recorded groups’ aggregation
 behavior, mating frequency, and infection prevalence. Aggregation and
 mating behavior were influences either jointly or additively by fly
 genotype and sex ratio. However, a combination of individual-level (mating
 history; the sex of the primary case) and group-level factors (sex ratio)
 jointly influenced individuals’ infection risk. There were more infections
 in female-biased groups, though the sex of the primary case also
 influenced sex-biased mortality and the relationship between individuals’
 mating history and infection risk. Thus, an individual’s social
 environment can be an important predictor of social dynamics and their
 survival outcomes.
description: Data from Keiser et al
 2018 - Behavioral Ecology - Social context and infection
 riskData
 from Keiser et al 2018 - Behavioral
 Ecology.xlsx
DOI: 10.5061/dryad.904kp
title: Data from: Livestock abundance predicts vampire bat demography, immune profiles, and bacterial infection risk

description: Human activities create novel food resources that can alter
 wildlife–pathogen interactions. If resources amplify or dampen pathogen
 transmission likely depends on both host ecology and pathogen biology, but
 studies that measure responses to provisioning across both scales are
 rare. We tested these relationships with a four-year study of 369 common
 vampire bats across ten sites in Peru and Belize that differ in the
 abundance of livestock, an important anthropogenic food source. We
 quantified innate and adaptive immunity from bats and assessed infection
 with two common bacteria. We predicted abundant livestock could reduce
 starvation and foraging effort, allowing for greater investments in
 immunity. Bats from high-livestock sites had higher microbicidal activity
 and proportions of neutrophils but lower immunoglobulin G and proportions
 of lymphocytes, suggesting more investment in innate relative to adaptive
 immunity and either greater chronic stress or pathogen exposure. This
 relationship was most pronounced in reproductive bats, which were also
 more common in high-livestock sites, suggesting feedbacks between
 demographic correlates of provisioning and immunity. Infection with both
 Bartonella and hemoplasmas were correlated with similar immune profiles,
 and both pathogens tended to be less prevalent in high-livestock sites,
 although effects were weaker for hemoplasmas. These differing responses to
 provisioning might therefore reflect distinct transmission processes.
 Predicting how provisioning alters host–pathogen interactions requires
 considering how both within-host processes and transmission modes respond
 to resource shifts.
description: Becker et al
 data_PhilTransBSite- (geography,
 livestock biomass, altitude, spatial coordinates) and individual-level
 data (demography, diet, immunity, infection) for vampire bats sampled for
 this study.becker et
 al_philtransbdata.csv
DOI: 10.5061/dryad.nv1sv92n
title: Data from: The Wisdom of Fools: new molecular and morphological insights into the North American apodetiate species of Cladonia

description: The taxonomy of the North American apodetiate and superficially apodetiate
 species of Cladonia with persistent, primarily squamulose thalli (viz., C.
 apodocarpa, C. caespiticia, and C. petrophila) is revised using
 morphological, chemical, and ecological data in combination with molecular
 phylogenetic analyses of ITS1, 5.8S, and ITS2 sequence data. The results
 of this approach confirm some established taxonomic concepts in the group
 and raise doubts about others. The taxon known as C. apodocarpa is well
 supported by likelihood- and parsimony-based molecular phylogenetic
 inferences as well as morphology, chemistry, and ecology. However,
 molecular evidence gives an equivocal answer to the question of whether C.
 petrophila is a distinct monophyletic entity or if C. apodocarpa is nested
 within it. In addition, no phylogenetic structure is detected for the
 chemical races of C. petrophila with and without fumarprotocetraric acid,
 based on the markers used in these analyses. However, C. petrophila does
 remain well supported as a taxon by chemistry (i.e., the presence of
 sphaerophorin), morphology, and ecology. A morphologically and
 ecologically distinct new taxon is described as C. stipitata. We confirm
 the distant relationship of these taxa (C. apodocarpa, C. petrophila, and
 C. stipitata) to C. caespiticia, a species with stipitate or
 pseudopodetiate (vs. sessile) apothecia. A treatment of the North American
 apodetiate species of Cladonia including distribution maps, cited
 specimens, and illustrations is presented. A key to the taxa that includes
 unrelated, frequently sterile species of Cladonia found in eastern North
 America is also provided.
description: Lendemer_and_Hodkinson_2009_Cladonia_ITSNexus formatted alignment of nuITS sequences used for molecular phylogenetic analyses in this study.
DOI: 10.15468/dl.hg4c4d
title: Occurrence Download

description: A dataset containing 583 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Alangium faberi",
 "HasCoordinate is true",
 "BasisOfRecord is one of (Specimen)"
 ]
}

 The dataset includes 583 records from 14 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001040-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.cd48f
title: Data from: Inferring outcrossing in the homothallic fungus Sclerotinia sclerotiorum using linkage disequilibrium decay

description: The occurrence and frequency of outcrossing in homothallic fungal species
 in nature is an unresolved question. Here we report detection of frequent
 outcrossing in the homothallic fungus Sclerotinia sclerotiorum. In using
 multilocus linkage disequilibrium (LD) to infer recombination among
 microsatellite alleles, high mutation rates confound the estimates of
 recombination. To distinguish high mutation rates from recombination to
 infer outcrossing, 8 population samples comprising 268 S. sclerotiorum
 isolates from widely distributed agricultural fields were genotyped for 12
 microsatellite markers, resulting in multiple polymorphic markers on three
 chromosomes. Each isolate was homokaryotic for the 12 loci. Pairwise LD
 was estimated using three methods: Fisher’s exact test, index of
 association (IA) and Hedrick’s D′. For most of the populations, pairwise
 LD decayed with increasing physical distance between loci in two of the
 three chromosomes. Therefore, the observed recombination of alleles cannot
 be simply attributed to mutation alone. Different recombination rates in
 various DNA regions (recombination hot/cold spots) and different
 evolutionary histories of the populations could explain the observed
 differences in rates of LD decay among the chromosomes and among
 populations. The majority of the isolates exhibited mycelial
 incompatibility, minimizing the possibility of heterokaryon formation and
 mitotic recombination. Thus, the observed high intrachromosomal
 recombination is due to meiotic recombination, suggesting frequent
 outcrossing in these populations, supporting the view that homothallism
 favors universal compatibility of gametes instead of traditionally
 believed haploid selfing in S. sclerotiorum. Frequent outcrossing
 facilitates emergence and spread of new traits such as fungicide
 resistance, increasing difficulties in managing Sclerotinia diseases.
description: List of Microsatellite
 allelesThe microsatellite
 allele sizes (in baseapirs, ?=missing data) are listed under respective
 loci for all isolates of Sclerotinia sclerotiorum.List of Microsatellite
 Alleles.pdf
DOI: 10.5061/dryad.jt38tj9
title: Data from: Cross-scale occupancy dynamics of a post-fire specialist in response to variation across a fire regime

description: 1. Fire creates challenges and opportunities for wildlife through rapid
 destruction, modification, and creation of habitat. Fire has spatially
 variable effects on landscapes, however, and for species that benefit from
 the ephemeral resource patches created by fire, it is critical to
 understand characteristics of fires that promote post-fire colonization
 and persistence, and the spatial scales on which they operate. 2. Using a
 model post-fire specialist, the black-backed woodpecker (Picoides
 arcticus), we examined how colonization and persistence varied across two
 spatial scales as a function of four characteristics of fire regimes –
 fire severity, fire size, fire ignition date, and number of years since
 fire. 3. We modeled black-backed woodpecker colonization and persistence
 using data from 108 recently burned forests in the Sierra Nevada and
 southern Cascades ecoregions of California, USA that we monitored for up
 to 10 years following fire. We employed a novel, spatially-hierarchical,
 dynamic occupancy framework which differentiates colonization and
 persistence at two spatial scales: across fires and within fires. 4. We
 found strong effects of fire characteristics on dynamic rates, with both
 colonization and persistence declining across both spatial scales with
 increasing years since fire. Additionally, at sites within fires,
 colonization decreased with fire size, and increased with fire severity
 and for fires with later ignition dates. 5. Our results support the notion
 that different aspects of a species’ environment are important for
 population processes at different spatial scales. As habitat quality is
 ephemeral for any given post-fire area, our results illustrate the
 importance of time since fire in structuring occupancy at the fire level,
 with other characteristics of fires playing larger roles in determining
 abundance within individual fires. Our results contribute to the broader
 understanding of how variation in fire characteristics influence the
 colonization and persistence of species using ephemeral habitats, which is
 necessary for conserving and promoting post-fire biodiversity in the
 context of rapidly shifting fire regimes.
description: JAGS model
 codeModel code, written in
 the JAGS language, for the Bayesian multi-scale dynamic occupancy model
 looking at Black-backed Woodpecker colonization and persistence across a
 fire regimejags_model.txtInput dataInput data file for running associated JAGS model of multi-scale dynamic occupancy model for Black-backed Woodpeckers. Input data is an ".Rdata" object, to be loaded into the R computer environment. The data is a list of data objects (vectors, matrices, arrays) that give all data objects necessary for the JAGS model. Variables are described at length in article text and online supplement.input_data.Rdata
DOI: 10.5061/dryad.hk30k
title: Data from: Do asynchronies in extinction debt affect the structure of trophic networks? A case study of antagonistic butterfly larvae–plant networks

description: Habitat loss and fragmentation affect species richness in fragmented
 habitats and can lead to immediate or time-delayed species extinctions.
 Asynchronies in extinction and extinction debt between interacting species
 may have severe effects on ecological networks. However, these effects
 remain largely unknown. We evaluated the effects of habitat patch and
 landscape changes on antagonistic butterfly larvae-plant trophic networks
 in Mediterranean grasslands in which previous studies had shown the
 existence of extinction debt in plants but not in butterflies. We sampled
 current species richness of habitat-specialist and generalist butterflies
 and vascular plants in 26 grasslands. We assessed the direct effects of
 historical and current patch and landscape characteristics on species
 richness and on butterfly larvae-plant trophic network metrics and
 robustness. Although positive species- and interactions-area relationships
 were found in all networks, structure and robustness was only affected by
 patch and landscape changes in networks involving the subset of butterfly
 specialists. Larger patches had more species (butterflies and host plants)
 and interactions but also more compartments, which decreased network
 connectance but increased network stability. Moreover, most likely due to
 the rescue effect, patch connectivity increased host-plant species (but
 not butterfly) richness and total links, and network robustness in
 specialist networks. On the other hand, patch area loss decreased
 robustness in specialist butterfly larvae-plant networks and made them
 more prone to collapse against host plant extinctions. Finally, in all
 butterfly larvae-plant networks we also detected a past patch and
 landscape effect on network asymmetry, which indicates that there were
 different extinction rates and extinction debts for butterflies and host
 plants. We conclude that asynchronies in extinction and extinction debt in
 butterfly-plant networks provoked by patch and landscape changes caused
 changes in species richness and network links in all networks, as well as
 changes in network structure and robustness in specialist networks.
description: OIK-04536.R1_DataThe excel file contains 26 worksheets that correspond to the 26 studied patches. In all 26 sheets, columns are butterfly species and rows are plant species. When there is a trophic interaction between butterfly and plant species, there is a 1, while when there is no interaction between them there is a 0. Butterfly and plant species names are coded. Extended names and codes are included in the Supplementary material.
DOI: 10.5061/dryad.6331s
title: Data from: Insect herbivores drive real-time ecological and evolutionary change in plant populations

description: Insect herbivores are hypothesized to be major factors affecting the
 ecology and evolution of plants. We tested this prediction by suppressing
 insects in replicated field populations of a native plant, Oenothera
 biennis, which reduced seed predation, altered interspecific competitive
 dynamics, and resulted in rapid evolutionary divergence. Comparative
 genotyping and phenotyping of nearly 12,000 O. biennis individuals
 revealed that in plots protected from insects, resistance to herbivores
 declined through time due to changes in flowering time and lower defensive
 ellagitannins in fruits, whereas plant competitive ability increased. This
 independent real-time evolution of plant resistance and competitive
 ability in the field resulted from the relaxation of direct selective
 effects of insects on plant defense and through indirect effects due to
 reduced herbivory on plant competitors.
description: genotype frequencies -
 agrawal et al ScienceGenotype frequencies
 (proportions) for the five years of study of Oenothera biennis in 16
 experimental plots. Each row sums to 1. The data is arranged by year
 (2007, 2008, 2009, 2010, and 2011). In 2007 we planted the same
 frequencies of 18 genotypes in all plots. In subsequent years, additional
 genotypes (out crossed genotypes, OC) were followed. Genotypes are
 presented in three groups of columns: the original 18 genotypes, the 8
 most common OC genotypes, and the rest (typically very rare) OC
 genotypes.