cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.qh3nq
title: Data from: Who dispersed the seeds? The use of DNA barcoding in frugivory and seed dispersal studies

description: 1. Assessing dispersal events in plants faces important challenges and
 limitations. A methodological issue that limits advances in our
 understanding of seed dissemination by frugivorous animals is identifying
 ‘which species dispersed the seeds’. This is essential for assessing how
 multiple frugivore species contribute distinctly to critical dispersal
 events such as seed delivery to safe sites, long-distance dispersal, and
 the colonization of non-occupied habitats. 2. Here we describe DNA
 barcoding protocols successfully applied to bird-dispersed seeds sampled
 in the field. Avian DNA was extracted from the surface of defecated or
 regurgitated seeds, allowing the identification of the frugivore species
 that contributed each dispersal event. Disperser species identification
 was based on a 464-bp mitochondrial DNA region (COI: cytochrome c oxidase
 subunit I). 3. We illustrate the possible applications of this method with
 bird-dispersed seeds sampled in the field. DNA barcoding provides a
 non-invasive technique that allows quantifying frugivory and seed
 dispersal interaction networks, assessing the contribution of each
 frugivore species to seed rain in different microhabitats, and testing
 whether different frugivore species select different fruit/seed sizes. 4.
 DNA barcoding of animal-dispersed seeds can resolve the distribution of
 dispersal services provided by diverse frugivore assemblages, allowing a
 robust and precise estimation of the different components of seed
 dispersal effectiveness, previously unattainable to traditional field
 studies at individual seed level. Given that seeds are sampled at the end
 of the dispersal process, this technique enables us to link the identity
 of the disperser species responsible for each dispersal event to plant
 traits and environmental features, thereby building a bridge between
 frugivory and seed deposition patterns.
description: Supplementary_Info_Gonzalez-Varo_etal_BarcodingSeedDispersersPlease see the README file.R1_Supp_Inf_Gonzalez-Varo_etal_BarcodingSeedDispersers.pdfDatasetBarcodingSeedDispersal_GonzalezVaro_Arroyo_JordanoPlease see the README file.
DOI: 10.5061/dryad.rc8q4
title: Data from: Genotyping of Coxiella burnetii from domestic ruminants and human in Hungary: indication of various genotypes

description: Background: Information about the genotypic characteristic of Coxiella
 burnetii from Hungary is lacking. The aim of this study is to describe the
 genetic diversity of C. burnetii in Hungary and compare genotypes with
 those found elsewhere. A total of 12 samples: (cattle, n = 6, sheep, n = 5
 and human, n = 1) collected from across Hungary were studied by a 10-loci
 multispacer sequence typing (MST) and 6-loci multiple-locus
 variable-number of tandem repeat analysis (MLVA). Phylogenetic
 relationships among MST genotypes show how these Hungarian samples are
 related to others collected around the world. Results: Three MST genotypes
 were identified: sequence type (ST) 20 has also been identified in
 ruminants from other European countries and the USA, ST28 was previously
 identified in Kazakhstan, and the proposed ST37 is novel. All MST
 genotypes yielded different MLVA genotypes and three different MLVA
 genotypes were identified within ST20 samples alone. Two novel MLVA types
 0-9-5-5-6-2 (AG) and 0-8-4-5-6-2 (AF) (Ms23-Ms24-Ms27-Ms28-Ms33-Ms34) were
 defined in the ovine materials correlated with ST28 and ST37. Samples from
 different parts of the phylogenetic tree were associated with different
 hosts, suggesting host-specific adaptations. Conclusions: Even with the
 limited number of samples analysed, this study revealed high genetic
 diversity among C. burnetii in Hungary. Understanding the background
 genetic diversity will be essential in identifying and controlling
 outbreaks.
description: Sulyok et al.
 BMCVetRes-alignmentCoxiella burnetii
 multispacer sequence typing alignmentSulyok et
 al.-BMCVetRes-alignment.fasSulyok et al.
 BMCVetRes-Figure2_revisedCoxiella burnetii
 multispacer sequence typing pylogenetic treeSulyok et
 al.-BMCVetRes-Figure2_revised.pdfSulyok et al. BMCVetRes-Table 1 MLVA and MST genotypesMLVA and MST genotypes of C. burnetii specimens detected from cattle, sheep and a human clinical sample in HungarySulyok et al-BMCVetRes-Table 1 MLVA and MST genotypes.doc
DOI: 10.5061/dryad.738d2
title: Data from: Fish functional traits correlated with environmental variables in a temperate biodiversity hotspot

description: The global biodiversity crisis has invigorated the search for generalized
 patterns in most disciplines within the natural sciences. Studies based on
 organismal functional traits attempt to broaden implications of results by
 identifying the response of functional traits, instead of taxonomic units,
 to environmental variables. Determining the functional trait responses
 enables more direct comparisons with, or predictions for, communities of
 different taxonomic composition. The North American freshwater fish fauna
 is both diverse and increasingly imperiled through human mediated
 disturbances, including climate change. The Tennessee River, USA, contains
 one of the most diverse assemblages of freshwater fish in North America
 and has more imperiled species than other rivers, but there has been no
 trait-based study of community structure in the system. We identified 211
 localities in the upper Tennessee River that were sampled by the Tennessee
 Valley Authority between 2009 and 2011 and compiled fish functional traits
 for the observed species and environmental variables for each locality.
 Using fourth corner analysis, we identified significant correlations
 between many fish functional traits and environmental variables.
 Functional traits associated with an opportunistic life history strategy
 were correlated with localities subject to greater land use disturbance
 and less flow regulation, while functional traits associated with a
 periodic life history strategy were correlated with localities subject to
 regular disturbance and regulated flow. These are patterns observed at the
 continental scale highlighting the generalizability of trait-based
 methods. Contrary to studies that found no community structure differences
 when considering riparian buffer zones, we found that fish functional
 traits were correlated with different environmental variables between
 analyses with buffer zones vs. entire catchment area land cover
 proportions. Using existing databases and fourth corner analysis, our
 results support the broad application potential for trait-based methods
 and indicate trait-based methods can detect environmental filtering by
 riparian zone land cover.
description: LandUse_buffersLandUse_FullLocalityTraitsTVAFishData
DOI: 10.5061/dryad.g7s12pk
title: Data from: Habitat management alters thermal opportunity

description: 1. Ectotherms engage in behavioral thermoregulation to optimize body
 temperatures, however, thermoregulatory effort varies across species, over
 time, and among habitats. Classic cost-benefit models of ectothermic
 thermoregulation postulate that ectotherms should increase
 thermoregulatory effort when the benefits of thermoregulatory behavior
 outweigh the costs (Huey and Slatkin, 1976). However, alteration of
 habitat via land management may lead to unforeseen shifts in microclimate
 that change associated costs and benefits. In light of anthropogenic
 impacts on natural habitats, thermoregulatory effort should be examined in
 cases where land management results in environmental temperatures that
 deviate from the preferred temperature range of a given species. 2. We
 examined how habitat management alters microclimates and influences
 activity time, thermoregulatory behavior, and thermal physiology in a
 lizard (Sceloporus woodi) whose range has been significantly reduced due
 to habitat loss. We compared populations from two ecologically distinct
 habitats: longleaf pine and sand pine scrub, which have very different
 management histories. Daily surveys were conducted in each habitat type
 while environmental temperatures were recorded simultaneously with
 biophysical models. 3. Thermal performance curves differed between
 populations such that physiological performance was optimized in each
 environment. Longleaf pine habitat had greater thermal opportunity because
 cooler microclimates were available on arboreal perches. In longleaf pine
 habitat, lizards were able to stay active longer and thermoregulate more
 effectively. Regardless of habitat, thermoregulatory effort of S. woodi
 increased when thermal quality of habitat was low. However, when
 unfavorably high temperatures were experienced, the thermoregulatory
 effort increased significantly. 4. Our results demonstrate that ectotherms
 can afford to imprecisely thermoregulate when habitat thermal quality is
 poor due to cooler environmental temperatures. However under unfavorably
 hot environmental temperatures, lizards must precisely regulate body
 temperature in spite of any costs. These results further demonstrate that
 habitat management has major implications on species-specific thermal
 opportunity, thermoregulatory behavior, and thermal physiology, such that
 shifts in thermoregulatory behavior may lead to higher energetic costs,
 enhanced predation risk, and constrained activity times.
description: FE- CT limit
 datacritical thermal limit
 dataFE- encounter rate
 dataencounter rate data for
 S. woodiFE- operative temp
 dataFE- sprint
 dataFE- thermal index
 dataFE- TPC
 datathermal performance
 curve dataFE- Tset
 datathermal preference
 data
DOI: 10.5061/dryad.8hk5t
title: Data from: Functional diversity enhances silver fir growth resilience to an extreme drought

description: It is expected that extreme climate events such as droughts will increase
 both in severity and intensity as a consequence of forecasted climate
 change. Complementarity among tree species in resource acquisition
 strategy may reduce interspecific competition and increase the occurrence
 of facilitative interactions, resulting in an improved tree growth and
 resilience to extreme climatic events. However, the response of individual
 trees growing in more functionally diverse stands to extreme events is
 still under debate. We investigate the growth response of silver fir
 (Abies alba) to an extreme drought event which occurred in 1985-1986 in
 the central Spanish Pyrenees, and how the growth and resilience of trees
 relate to their neighbourhood functional diversity, stand heterogeneity,
 and to intraspecific and interspecific competition. Dendroecological
 methods were used to reconstruct radial growth. We recorded all tree
 species living around each sampled tree and calculated indices of intra-
 and interspecific competition among coexisting trees. Functional diversity
 around each focal tree was calculated by using the Rao quadratic entropy.
 Silver fir growth decreased significantly in response to the drought in
 the vast majority of trees, but most of them showed a growth recovery
 three years later. Despite most trees showed negative growth trends
 following the drought event (70%), those trees growing in more
 functionally diverse stands were more resilient, recovered more quickly
 and displayed greater growth and growth trends. Synthesis: The presented
 findings support the growing body of evidence that shows a positive impact
 of diversity on forest function. In addition, we provide a direct linkage
 between tree growth response to climate at the individual tree scale and a
 direct quantification of neighbourhood functional diversity and
 competition. An enhanced functional diversity facilitating a more
 efficient use of resources at the interspecific level and potentially
 increasing facilitative interactions contributes to lessening the negative
 impacts of extreme events as droughts on forest growth.
description: Silver fir growth (BAI)
 in the PyreneesThe Excel file contains
 two sheets: 1) silver fir basal area increment from 1960 to 2000 in
 different populations across the Pyrenees; 2) silver fir growth (mean
 BAI), growth trend (BAI trend), Resistance index (Rt), Recovery index (Rc)
 and Resilience index (Rs) in different populations across the Pyrenees. In
 addition, we provide several explanatory variables describing topographic
 and stand characteristics that were used to explain the variation in the
 above mentioned variables.dataGazoCamarero.xlsx
DOI: 10.5061/dryad.6gr08
title: Data from: Convergent evolution of social hybridogenesis in Messor harvester ants

description: Sexual reproduction generally requires no more than two partners. Here, we
 show convergent evolution of social hybridogenesis, a reproductive system
 requiring three reproductive partners in harvester ants. In this
 unorthodox reproductive system, two distinct genetic lineages live in
 sympatry and queens have to mate with males of their own lineage to
 produce queens along with males of the alternative lineage to produce
 workers. Using a large transcriptomic data set of nine species, we show
 that social hybridogenesis evolved at least three times independently in
 the genus Messor. Moreover, a study of 13 populations of Messor barbarus
 revealed that this mode of reproduction is fixed in the whole range of
 this ecologically dominant species. Finally, we show that workers can
 produce males carrying genes of the two genetic lineages, raising the
 possibility of rare gene flow between lineages contributing to the
 long-term maintenance of pairs of interdependent lineages. These results
 emphasize the evolutionary importance of social hybridogenesis, a major
 transition possibly linked to the peculiar ecology of harvester ants.
description: hsc70-4 alignment
 (Messor barbarus)Alignment of the hsc70-4
 gene in Messor barbarus. Nucleotide ambiguity code (IUPAC) is used to
 signal heterozygosity: by example, a R codes for an A/G genotype, while A
 codes A/A and G codes for G/G.hsc70-4.fasAlignment of the Catalase geneAlignment of the Catalase gene (nucleotides) in 9 Messor harvester ant species (52 individuals) and Pogonomyrmex barbatus. For Messor species, sequences of the two alleles (Allele 1 and Allele 2) are provided.catalase.fastamitochondrial COX1 gene alignment (Messor barbarus)Alignment of the COX1 gene in Messor barbarus (48 individuals) and M. capitatus.coi.fas
DOI: 10.5061/dryad.9rs72
title: Data from: Impact of psychopathy on moral judgments about causing fear and physical harm

description: Psychopathy is a personality variable associated with persistent immoral
 behaviors. Despite this, attempts to link moral reasoning deficits to
 psychopathic traits have yielded mixed results with many findings
 supporting intact moral reasoning in individuals with psychopathic traits.
 Abundant evidence shows that psychopathy impairs responses to others’
 emotional distress. However, most studies of morality and psychopathy
 focus on judgments about causing others physical harm. Results of such
 studies may be inconsistent because physical harm is an imperfect proxy
 for emotional distress. No previous paradigm has explicitly separated
 judgments about physical harm and emotional distress and assessed how
 psychopathy affects each type of judgment. In three studies we found that
 psychopathy impairs judgments about causing others emotional distress
 (specifically fear) but minimally affects judgments about causing physical
 harm and that judgments about causing fear predict instrumental aggression
 in psychopathy. These findings are consistent with reports linking
 psychopathy to insensitivity to others’ fear, and suggest that sensitivity
 to others’ fear may play a fundamental role in the types of moral
 decision-making impaired by psychopathy.
description: Cardinale & Marsh
 PLOS One Participant Level Data Studies 1, 2 & 3The data deposited are
 all underlying participant level data from the research article
 "Impact of psychopathy on moral judgments about causing fear and
 physical harm." authored by Cardinale & Marsh. All data were
 collected from human subjects following IRB approved procedures. Data
 include self-reported psychopathic traits measured by the Psychopathic
 Personality Inventory - Revised (PPI-R), self-reported moral intuitions
 measured by the Moral Foundations Questionnaire (MFQ), self-reported
 political orientation and self-reported aggressive behavior as measured by
 the Reactive Proactive Aggression Questionnaire (RPQ). Raw data is
 included for two experimental tasks: the Emotionally Evocative Statements
 Task (EEST) for Study 1 as well as participant level responses to the
 novel moral scenarios used in Studies 2 & 3. Please see supplementary
 materials for these stimuli.Cardinale & Marsh
 PONE-D-14-54251 Data.xlsx
DOI: 10.5061/dryad.jd038
title: Data from: Phylogenetic tests reject Emery’s rule in the evolution of social parasitism in yellowjackets and hornets (Hymenoptera: Vespidae, Vespinae)

description: Social parasites exploit the brood-care behaviour and social structure of
 one or more host species. Within the social Hymenoptera there are
 different types of social parasitism. In its extreme form, species of
 obligate social parasites, or inquilines, do not have the worker caste and
 depend entirely on the workers of a host species to raise their
 reproductive offspring. The strict form of Emery's rule states that
 social parasites share immediate common ancestry with their hosts.
 Moreover, this rule has been linked with a sympatric origin of inquilines
 from their hosts. Here, we conduct phylogenetic analyses of yellowjackets
 and hornets based on 12 gene fragments and evaluate competing evolutionary
 scenarios to test Emery's rule. We find that inquilines, as well as
 facultative social parasites, are not the closest relatives of their
 hosts. Therefore, Emery's rule in its strict sense is rejected,
 suggesting that social parasites have not evolved sympatrically from their
 hosts in yellowjackets and hornets. However, the relaxed version of the
 rule is supported, as inquilines and their hosts belong to the same
 Dolichovespula clade. Furthermore, inquilinism has evolved only once in
 Dolichovespula.
description: Data matrix including
 gene partitionsData matrix in NEXUS
 format with 12 gene fragments (12S, 16S, 28S, CAD, COII, COI, CYTB,
 EF1aF2, Pol II, ATP6, ATP8, wg), 6568 characters, and 38
 taxa12genes_social_parasitism_geneparts.nexData matrix including best-fit partitioning scheme found with PartitionFinderData matrix in NEXUS format with eight best-fit partitions, 6568 characters, and 38 taxa12genes_social_parasitism_pfinder.nexPhylogeny from Bayesian analysisBayesian phylogeny estimated with the best-fit partitioning scheme for a concatenated 12-gene dataset12genes_social_parasitism_pfinder_mb_con.tre
DOI: 10.5061/dryad.71r6q
title: Data from: Ecosystem response to interventions: lessons from restored and created wetland ecosystems

description: 1. Current efforts to restore and create ecosystems require greater
 understanding of ecosystems’ responses to commonly used physical and
 biological intervention approaches to overcome ecological and
 technological limitations. 2. We estimated effect sizes from measurements
 of biotic assemblage structure and biogeochemical functions at 628
 restored and created wetlands globally, in comparison with 499 reference
 wetlands. We studied the recovery trajectories of wetlands where different
 restoration or creation approaches were used under different environmental
 settings. 3. Although the variance explained by a linear mixed-effects
 models was low (6–7%), the study of recovery trajectories showed that the
 restoration or creation approach had no significant effects in most
 environmental settings. 4. In particular, wetlands where surface
 modification and flow re-establishment were used followed similar recovery
 trajectories regardless of whether they were revegetated or not. We even
 found potential detrimental effects of biological manipulations on the
 recovery of the plant assemblage, particularly in cold climates and in
 wetlands restored or created in agricultural areas. 5. Since physical
 interventions are required to recover or create the hydrological
 conditions of degraded or new wetlands, and given the high cost (22–73%)
 of biological interventions (i.e. revegetation), the need for biological
 interventions is, in most cases, unclear. 6. Our results highlight the
 urgent need to increase our understanding of the long-term effects of
 restoration and creation actions in our aim to engage in large-scale
 ecosystem management strategies for wetlands. 7. Synthesis and
 applications. These results suggest that, currently, the recovery and
 development processes of restored and created wetlands can be driven by
 spontaneous processes rather than by the response of wetlands to human
 interventions other than those targeted to restore hydrological conditions
 that existed prior to disturbance. However, given the synthetic nature of
 the data set, the mixed nature of available data, and the limited number
 of measures we found to estimate recovery, caution must be exercised when
 adapting the results presented here to the planning and execution of
 specific ecosystem restoration projects.
description: Restored wetlands
 meta-analysisMeta-analytical database
 from 115 studies of wetland restoration and creation. Include response
 variable and multiple covariates from over 500
 wetlands.Final
 data-base_DMM_for_Dryad.xls
DOI: 10.5061/dryad.563n9
title: Data from: Invasion history and demographic processes associated with rapid morphological changes in the Red-whiskered bulbul established on tropical islands

description: The Red-whiskered bulbul is a very successful invasive bird species.
 Morphological differences have been reported among individuals inhabiting
 the humid and dry coasts of Reunion Island, in a 30-year-old population.
 This suggests a capacity for rapid local adaptation which could explain
 the general invasive success of this species. However, the origin and
 invasion history of this population is unknown. It is therefore not
 possible to establish with certainty the cause of these morphological
 differences. Here, we investigated the invasion history of populations of
 Red-whiskered bulbul established on Reunion Island, Mauritius and Oahu
 (three geographically similar tropical islands) to assess the link between
 invasion history and morphological changes in these populations. We first
 assessed the source(s) of the invasive populations. We then compared the
 morphology of the individuals between the invasive and native populations
 and between the dry and humid coasts of invaded islands. Finally, we
 inferred the invasion history of the invasive populations to investigate
 the role of neutral processes (e.g. founder effect and drift) on
 morphology. We found that the invasive populations have a similar origin
 and that the morphology of the individuals in these populations has
 diverged in a similar way from the native range, suggesting a convergent
 adaptation to tropical islands. Like on Reunion, we found differences in
 morphology between the dry and humid coasts on Mauritius. These
 morphological differences can be explained by invasion history on Reunion
 but not on Mauritius. Both neutral evolution and adaptation thus shape the
 morphology of invasive Red-whiskered bulbuls.
description: microsatellite_data_dryadtraditional_morphological_datageometric_morphometric_data