cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.p3v3s
title: Data from: The geographic mosaic of herbicide resistance evolution in the common morning glory, Ipomoea purpurea: evidence for resistance hotspots and low genetic differentiation across the landscape

description: Strong human-mediated selection via herbicide application in
 agroecosystems has repeatedly led to the evolution of resistance in weedy
 plants. Although resistance can occur among separate populations of a
 species across the landscape, the spatial scale of resistance in many
 weeds is often left unexamined. We assessed the potential that resistance
 to the herbicide glyphosate in the agricultural weed Ipomoea purpurea has
 evolved independently multiple times across its North American range. We
 examined both adaptive and neutral genetic variations in 44 populations of
 I. purpurea by pairing a replicated dose–response greenhouse experiment
 with SSR genotyping of experimental individuals. We uncovered a mosaic
 pattern of resistance across the landscape, with some populations
 exhibiting high-survival postherbicide and other populations showing high
 death. SSR genotyping revealed little evidence of isolation by distance
 and very little neutral genetic structure associated with geography. An
 approximate Bayesian computation (ABC) analysis uncovered evidence for
 migration and admixture among populations before the widespread use of
 glyphosate rather than the very recent contemporary gene flow. The pattern
 of adaptive and neutral genetic variations indicates that resistance in
 this mixed-mating weed species appears to have evolved in independent
 hotspots rather than through transmission of resistance alleles across the
 landscape.
description: Glyphosate dose response
 data for the common morning gloryDose response data from
 field-collected seed material. RoundUp PowerMax was used in herbicide
 resistance screen. All data was collected in University of Georgia Plant
 Sciences greenhouses (Athens, GA). Shown are individual ID (ID),
 Experimental replicate (Experiment), Treatment Dose (TreatmentLevel),
 Population ID number (POPID),State in which population was samped, region
 in which population was sampled, Survival to glyphosate (Survivorship, 1=
 survived, 0= died).DoseResponseData.csvSSR data for population genetic screen of the common morning glorySSR loci data for I. purpurea field collections. Leaf material used for DNA isolation and SSR genotyping was obtained from field collections in 2012 growing season. in GenalEx format from 2012 sampling period. Shown are population ID (POPID), and each SSR locus size for 2 alleles per 15 loci used in the data set. Data are shown in 30 subsequent columns (2 columns per locus): 31, 2, 27, 8, 34, 18, 1, 36, 47, 12, 21, 6, 45, 26, 42. A zero indicates missing data at a locus.SSRData.csv
DOI: 10.5061/dryad.55nk147
title: Data from: The insect-focused classification of fruit syndromes in tropical rainforests: an inter-continental comparison

description: We propose a new classification of rainforest plants into eight fruit
 syndromes, based on fruit morphology and other traits relevant to
 fruit-feeding insects. This classification is compared with other systems
 based on plant morphology or traits relevant to vertebrate fruit
 dispersers. Our syndromes are based on fruits sampled from 1,192 plant
 species at three Forest Global Earth Observatory plots: Barro Colorado
 Island (Panama), Khao Chong (Thailand) and Wanang (Papua New Guinea). The
 three plots differed widely in fruit syndrome composition. Plant species
 with fleshy, indehiscent fruits containing multiple seeds were important
 at all three sites. However, in Panama a high proportion of species had
 dry fruits, while in New Guinea and Thailand, species with fleshy drupes
 and thin mesocarps were dominant. Species with dry, winged seeds that do
 not develop as capsules were important in Thailand, reflecting the local
 importance of Dipterocarpaceae. These differences can also determine
 differences among frugivorous insect communities. Fruit syndromes and
 colours were phylogenetically flexible traits at the scale studied, as
 only three of the eight seed syndromes, and one of the 10 colours, showed
 significant phylogenetic clustering at either genus or family levels.
 Plant phylogeny was, however, the most important factor explaining
 differences in overall fruit syndrome composition among individual plant
 families or genera across the three study sites.
description: DahlEtal_DataDryad
DOI: 10.5061/dryad.gn22271h
title: Data from: Reconstruction of caribou evolutionary history in Western North America and its implications for conservation

description: The role of Beringia as a refugium and route for trans-continental
 exchange of fauna during glacial cycles of the past 2 million years are
 well documented; less apparent is its contribution as a significant
 reservoir of genetic diversity. Using mitochondrial DNA sequences and 14
 microsatellite loci, we investigate the phylogeographic history of caribou
 (Rangifer tarandus) in western North America. Patterns of genetic
 diversity reveal two distinct groups of caribou. Caribou classified as a
 Northern group, of Beringian origin, exhibited greater number and
 variability in mtDNA haplotypes compared to a Southern group originating
 from refugia south of glacial ice. Results indicate that subspecies R. t.
 granti of Alaska and R. t. groenlandicus of northern Canada do not
 constitute distinguishable units at mtDNA or microsatellites, belying
 their current status as separate subspecies. Additionally, the Northern
 Mountain ecotype of woodland caribou (presently R. t. caribou) has closer
 kinship to caribou classified as granti or groenlandicus. Comparisons of
 mtDNA and microsatellite data suggest that behavioural and ecological
 specialization is a more recently derived life history characteristic.
 Notably, microsatellite differentiation among Southern herds is
 significantly greater, most likely as a result of human-induced landscape
 fragmentation and genetic drift due to smaller population sizes. These
 results not only provide important insight into the evolutionary history
 of northern species such as caribou, but also are important indicators for
 managers evaluating conservation measures for this threatened species.
description: Weckworth_Dryad2Excel file with three worksheets. First is microsatellite data; first column is individual number, second column is population ID, next 28 columns are the allele sets for each of the 14 loci used. Second worksheet is the mtDNA haplotype frequency per population. Third worksheet provides GenBank accession number for each haplotype.Weckworth_Dryad.xlsx
DOI: 10.5061/dryad.8k55h
title: Data from: Resources alter the structure and increase stochasticity in bromeliad microfauna communities

description: Although stochastic and deterministic processes have been found to jointly
 shape structure of natural communities, the relative importance of both
 forces may vary across different environmental conditions and across
 levels of biological organization. We tested the effects of abiotic
 environmental conditions, altered trophic interactions and dispersal
 limitation on the structure of aquatic microfauna communities in Costa
 Rican tank bromeliads. Our approach combined natural gradients in
 environmental conditions with experimental manipulations of bottom-up
 interactions (resources), top-down interactions (predators) and dispersal
 at two spatial scales in the field. We found that resource addition
 strongly increased the abundance and reduced the richness of microfauna
 communities. Community composition shifted in a predictable way towards
 assemblages dominated by flagellates and ciliates but with lower abundance
 and richness of algae and amoebae. While all functional groups responded
 strongly and predictably to resource addition, similarity among
 communities at the species level decreased, suggesting a role of
 stochasticity in species-level assembly processes. Dispersal limitation
 did not affect the communities. Since our design excluded potential
 priority effects we can attribute the differences in community similarity
 to increased demographic stochasticity of resource-enriched communities
 related to erratic changes in population sizes of some species. In
 contrast to resources, predators and environmental conditions had
 negligible effects on community structure. Our results demonstrate that
 bromeliad microfauna communities are strongly controlled by bottom-up
 forces. They further suggest that the relative importance of stochasticity
 may change with productivity and with the organizational level at which
 communities are examined.
description: protozoa_data.tsvThis file contains a tab-delimited dataset of all protozoa morphospecies counts, as well as sample and treatment information.protozoa_enviro_dataThis file contains a tab-delimited dataset of all environtmental data taken for all samples, including treatment and sampling identification information. This dataset can be merged with protozoa_data.tsv to reproduce the analyses in Petermann et al.protozoa_variables_explanation.rtfThis is a text document (rich text format) which contains metadata regarding all the variables in both .tsv files.
DOI: 10.5061/dryad.7180nf60
title: Data from: Beech roots are simultaneously colonized by multiple genets of the ectomycorrhizal fungus Laccaria amethystina clustered in two genetic groups

description: In this study we characterize and compare the genetic structure of
 aboveground and belowground populations of the ectomycorrhizal fungus
 Laccaria amethystina in an unmanaged mixed beech forest. Fruiting bodies
 and mycorrhizas of L. amethystina were mapped and collected in four plots
 in the Świętokrzyskie Mountains (Poland). A total of 563 fruiting bodies
 and 394 mycorrhizas were successfully genotyped using the rDNA IGS1
 (intergenic spacer) and seven SSR (simple sequence repeat) markers. We
 identified two different genetic clusters of L. amethystina in all of the
 plots, suggesting that a process of sympatric isolation may be occurring
 at a local scale. The proportion of individuals belonging to each cluster
 was similar among plots aboveground while it significantly differed
 belowground. Predominance of a given cluster could be explained by
 distinct host preferences or by priority effects and competition among
 genets. Both aboveground and belowground populations consisted of many
 intermingling small genets. Consequently, host trees were simultaneously
 colonized by many L. amethystina genets that may show different
 ecophysiological abilities. Our data showed that several genets may last
 for at least one year belowground and sustain into the next season.
 Ectomycorrhizal species reproducing by means of spores can form highly
 diverse and persistent belowground genets that may provide the host tree
 with higher resilience in a changing environment and enhance ecosystem
 performance.
description: SSR_genotypes_Hortaletal_MolEcol2012
DOI: 10.5061/dryad.8g531
title: Data from: Paternal but not maternal age influences early-life performance of offspring in a long-lived seabird

description: Variability in demographic traits between individuals within populations
 has profound implications for both evolutionary processes and population
 dynamics. Parental effects as a source of non-genetic inheritance are
 important processes to consider to understand the causes of individual
 variation. In iteroparous species, parental age is known to influence
 strongly reproductive success and offspring quality, but consequences on
 offspring fitness component after independence are much less studied.
 Based on a 37 years longitudinal monitoring of a long-lived seabird, the
 wandering albatross, we investigate delayed effects of parental age on
 offspring fitness components. We provide evidence that parental age
 influences offspring performance beyond the age of independence. By
 distinguishing maternal and paternal age effects, we demonstrate that
 paternal age, but not maternal age, impacts negatively post-fledging
 offspring performance.
description: Parental age and
 identityAge and identity of
 mother and father of chicksParental_age_identity.xlsx
DOI: 10.5061/dryad.1ng8c
title: Data from: Measuring engagement in advance care planning: a cross-sectional multicentre feasibility study.

description: Objectives: To assess feasibility, acceptability, and clinical sensibility
 of a novel survey, the Advance Care Planning (ACP) Engagement Survey in
 various health care settings. Setting: A target sample of 50 patients from
 each of primary care, hospital, cancer care, and dialysis care settings.
 Participants: A convenience sample of patients without cognitive
 impairment who could speak and read English was recruited. Patients 50
 years and older were eligible in primary care; patients 80 and older or 55
 years and older with clinical markers of advanced chronic disease were
 recruited in hospital; patients aged 19 and older were recruited in cancer
 and renal dialysis centres. Outcomes: We assessed feasibility,
 acceptability and clinical sensibility of the ACP Engagement Survey using
 a 6-point scale. The ACP Engagement Survey measures ACP processes
 (knowledge, contemplation, self-efficacy, readiness) on 5-point Likert
 scales and actions (yes/no). Results: 196 patients (38 to 96 years old,
 50.5% women) participated. Mean (±standard deviation) time to administer
 was 48.8 ±19.6 minutes. Mean acceptability scores ranged from 3.2±1.3 in
 hospital to 4.7±0.9 in primary care and mean relevance ranged from 3.5±1.0
 in hospital to 4.9±0.9 in dialysis centres (p values &lt;0.001 for
 both). The mean process score was 3.1±0.6 and the mean action score was
 11.2±5.6 (of a possible 25). Conclusions: The ACP Engagement Survey
 demonstrated feasibility and acceptability in out-patient settings, but
 was less feasible and acceptable among hospitalized patients due to
 length. A shorter version may improve feasibility. Engagement in ACP was
 low to moderate.
description: READMEThe Readme file includes
 a list of files in this data package, and a description of the variables
 that were removed from the dataset to protect participant identity. Please
 see the "Data dictionary" for a description of the variables
 that were included in the dataset, and the "Summary table of indirect
 identifier data" for a summary of values reported at removed
 variables.Data Dictionary -
 Canadian ACP engagement sample BMJ OpenThis file describes the
 variables that were included in the dataset, and their allowable
 values.Canadian ACP engagement sample
 BMJ Open_data dictionary.xlsxCanadian ACP engagement
 survey pilotThis file contains the
 responses of 196 patients in acute care, primary care, cancer care and
 renal care to a 108-item ACP engagement survey. Process Measures
 (knowledge, contemplation, self-efficacy, and readiness, 5-point Likert
 scales) and Action Measures (yes/no whether an ACP behavior was completed)
 are included.Canadian ACP engagement
 sample_BMJ Open_indirect identifiers
 removed.xlsxSummary table of
 indirect identifier data - Canadian ACP engagement_BMJ
 OpenThis file contains
 descriptive analysis summary tables of indirect identifiers that were
 removed from the dataset.Canadian ACP engagement_BMJ
 Open_summary table of indirect identifier
 data.docx
DOI: 10.5061/dryad.pb50v53
title: Data from: Water availability drives urban tree growth responses to herbivory and warming

description: 1. Urban forests provide important ecosystem services to city residents,
 including pollution removal and carbon storage. Climate change and
 urbanization pose multiple threats to these services. However, how these
 threats combine to affect urban trees, and thus how to mitigate their
 effects, remains largely untested because multi-factorial experiments on
 mature trees are impractical. 2. We used a unique urban warming experiment
 paired with a laboratory chamber experiment to determine how three of the
 most potentially damaging factors associated with global change for urban
 and rural trees—warming, drought, and insect herbivory—affect growth of
 Quercus phellos (willow oak), the most commonly-planted large shade tree
 in the southeastern US, which is known for its resilience to these
 potential stressors. 3. In a previous study, we found that the urban heat
 island effect was associated with reduced growth of Q. phellos and higher
 abundance of Parthenolecanium scale insects, key pests of oaks in cities.
 Here, we tested the hypothesis that tree water stress is the mechanism for
 these effects of warming. We found evidence that water stress is a major,
 interactive factor reducing urban tree growth, but found no evidence that
 water stress is associated with Parthenolecanium survival or abundance.
 Warming and Parthenolecanium only reduced growth in Q. phellos saplings
 that were simultaneously water stressed. 4. Synthesis and applications.
 Across many temperate cities worldwide, urban trees grow less than rural
 trees. Our results point to water stress as the most likely driver for
 this pattern. Importantly, we found that water stress both reduces tree
 growth on its own and exacerbates effects of warming and insect pests on
 tree growth. Therefore, management strategies targeted at increasing tree
 hydration in cities may reduce effects of these three key stressors that
 are expected to intensify with further urbanization and climate change.
description: All data- Urban field
 and chamber experimentsThis file includes all
 data for the described manuscript. The first sheet of the .xlsx is field
 data, and the second sheet is phytotron chamber experiment
 data.All_data_Meineke.xlsx
DOI: 10.5061/dryad.34r55
title: Data from: A review of the evolution, biostratigraphy, provincialism and diversity of Middle and early Late Triassic conodonts

description: The taxonomy, diversity, evolutionary lineages, and stratigraphical
 distributions of Middle and early Late Triassic conodonts are reviewed and
 re-evaluated. Twenty-five genera are recognized in the Middle and early
 Late Triassic, including a new genus cited in open nomenclature. Of these,
 24 genera are assigned to two families and seven subfamilies. The family
 Gondolellidae consists of the subfamilies Cornudininae, Epigondolellinae,
 Neogondolellinae, Novispathodinae, Paragondolellinae and
 Pseudofurnishiinae. The family Gladigondolellidae is monotypic, consisting
 of the subfamily Gladigondolellinae. The genus Neostrachanognathus is not
 assigned to any family or subfamily as its origin is unclear. Conodont
 provincialism was low in the early Anisian, but from the late Anisian
 faunistic differences started to increase and became stronger during the
 early Ladinian, reaching a peak around the mid-Ladinian. Provincialism
 remained strong until the earliest Carnian and changed to an all-Triassic
 low in the early Tuvalian. The provincialism between North America and
 Tethys rebounded on the specific level during the late Tuvalian.
 Diversities on generic and specific levels have been established, and two
 major conodont diversity cycles are recognized: the first ranges from the
 Bithynian (early Anisian) to the Julian (late early Carnian), and the
 second is restricted to the Tuvalian (late Carnian).
description: LIST OF CONODONT
 HOLOTYPES RE-ILLUSTRATEDThis file provides the
 references of the conodont images re-illustrated in the paper. All
 conodont images are holotypes, exceptions are
 mentioned.STATISTIC ANALYSES OF
 EARLY, MIDDLE AND EARLY LATE TRIASSIC (CARNIAN)
 PUBLICATIONSThis file provides the
 analyses of Early, Middle and early Late Triassic (carnian) publications
 and number of conodont species. It also provides important information
 about the conodont publications which is favorable for conodont worker to
 find the relevant literatures.
DOI: 10.5061/dryad.j6kb2
title: Data from: Acoustic communication in zebra finches signals when mates will take turns with parental duties

description: Bi-parental care may involve both cooperation and conflict between
 parents. Parents adjust their workload to that of their partner and this
 ability is likely to affect reproductive success. Whether mates
 communicate, either to resolve the sexual conflict or to coordinate their
 joint investment in parental care is a largely unaddressed question which
 we examined by recording wild zebra finches at the nest during incubation.
 Zebra finch (Taeniopygia guttata) partners produce vocal exchanges at the
 nest that can be characterized as duets. Some duets end in nest-relief
 (when birds take turns incubating and foraging) but some do not (when the
 foraging mate vocally interacts with its incubating partner by coming
 inside or in the vicinity of the nest). Our data indicate that the
 structure of the duet predicted its outcome (relief or not), with a parent
 calling differently before leaving or staying in the nest by modifying its
 vocal repertoire as well as the acoustic structure of one particular call
 type which is typically used inside the nest. Zebra finch partners may
 thus exchange on the time to take turns with parental duties. Our results
 show that acoustic communication between partners might be of importance
 in the organization of parental care and could help in understanding
 sexual conflict resolution or cooperation phenomena in future studies.
description: Data_ZF_Boucaud_2016
DOI: 10.5061/dryad.gh350
title: Data from: Intergenomic interactions between mitochondrial and Y-linked genes shape male mating patterns and fertility in Drosophila melanogaster

description: Under maternal inheritance, mitochondrial genomes are prone to accumulate
 mutations that exhibit male-biased effects. Such mutations should,
 however, place selection on the nuclear genome for modifier adaptations
 that mitigate mitochondrial-incurred male harm. One gene region that might
 harbor such modifiers is the Y-chromosome, given the abundance of Y-linked
 variation for male fertility, and because Y-linked modifiers would not
 exert antagonistic effects in females because they would be found only in
 males. Recent studies in Drosophila revealed a set of nuclear genes whose
 expression is sensitive to allelic variation among mtDNA- and
 Y-haplotypes, suggesting these genes might be entwined in evolutionary
 conflict between mtDNA and Y. Here, we test whether genetic variation
 across mtDNA and Y haplotypes, sourced from three disjunct populations,
 interacts to affect male mating patterns and fertility across 10 days of
 early life in D. melanogaster. We also investigate whether coevolved
 mito-Y combinations outperform their evolutionarily novel counterparts, as
 predicted if the interacting Y-linked variance is comprised of modifier
 adaptations. Although we found no evidence that coevolved mito-Y
 combinations outperformed their novel counterparts, interactions between
 mtDNA and Y-chromosomes affected male mating patterns. These interactions
 were dependent on male age; thus male reproductive success was shaped by
 G×G×E interactions.
description: Intergenomic
 interactions between mitochondrial and Y-linked genes shape male mating
 patterns and fertility in Drosophila melanogasterData was collected in
 the lab and analysed using R. Code was the letter identifier for each
 mitochondrial/y line combination. mtDNA = mitochondrial type, mtDup = the
 mitochondrial duplicate, yDup = Y line dulicate, Coevolved = denotes if
 the mito Y combination is co-evolved or not co-evolved.Mito Y raw data
 Drayd.xlsx