cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.47tc5
title: Data from: Evolutionary conserved neural signature of early life stress affects animal social competence

description: In vertebrates the early social environment can persistently influence
 behaviour and social competence later in life. However, the molecular
 mechanisms underlying variation in animal social competence are largely
 unknown. In rats, high-quality maternal care causes an upregulation of
 hippocampal glucocorticoid receptors (gr) and reduces offspring stress
 responsiveness. This identifies gr regulation as a candidate mechanism for
 maintaining variation in animal social competence. We tested this
 hypothesis in a highly-social cichlid fish, Neolamprologus pulcher, reared
 with or without caring parents. We find that the molecular pathway
 translating early social experience into later-life alterations of the
 stress axis is homologous across vertebrates: fish reared with parents
 expressed the glucocorticoid receptor gr1 more in the telencephalon.
 Furthermore, expression levels of the transcription factor egr-1 (early
 growth response 1) were associated with gr1 expression in the
 telencephalon and hypothalamus. When blocking glucocorticoid receptors
 (GR) with an antagonist, mifepristone (RU486), parent-reared individuals
 showed more socially appropriate, submissive behaviour when intruding a
 larger conspecific's territory. Remarkably, mifepristone-treated fish
 were less attacked by owners and had a higher likelihood of territory
 takeover. Our results indicate that early social-environment effects on
 stress axis programming are mediated by an evolutionary conserved
 molecular pathway, which is causally involved in environmentally-induced
 variation of animal social competence.
description: Dataset_Expt1_Nyman_etal_2018Dataset for experiment 1 in Nyman et al 2018Dataset_Expt2_Nyman_etal_2018Dataset for experiment 2 in Nyman et al 2018Explanatory_text_file_Nyman_etal_2018Explanatory text file for dataset of experiment 1 and experiment 2 in Nyman et al 2018
DOI: 10.5061/dryad.b46k4
title: Data from: Threshold dynamics in plant succession after tree planting in agricultural riparian zones

description: Trajectories of plant communities can be described by different models of
 plant succession. While a Clementsian (gradual continuum model) or
 Gleasonian approach (relay floristics model) has traditionally been used
 to inform restoration outcomes, alternative succession models developed
 recently may better represent restoration trajectories. The threshold
 dynamics succession model, which predicts an abrupt species turnover after
 an environmental threshold is crossed, has never been used in a
 restoration context. This model might, however, better describe shifts in
 plant competitive ranking and facilitation interactions during species
 turnover. Fifty-three riparian zones, planted with trees 3–17 years prior
 to sampling, and 14 natural riparian forests were studied in two
 agricultural watersheds of south-eastern Québec (Canada). The cover of
 vegetation strata was assessed at the site scale, and the cover of plant
 species was estimated in a total of 784 1-m2 plots. Canopy cover was
 measured stereoscopically for each plot. As revealed by Principal Response
 Curves and broken stick models, herbaceous species composition was stable
 during the first 12–13 years after tree planting, but then abruptly
 shifted. This two-step pattern in species turnover followed the increase
 in canopy cover after tree planting. Once canopy cover passed a threshold
 of ca 40%, plant succession started and led to the re-establishment of
 forest communities 17 years after planting. Following herbaceous species
 turnover, the cover of ecological groups changed significantly towards
 covers of natural riparian forests: shade-tolerant species generally
 increased, while light-demanding and non-native species decreased.
 Vegetation structure was also significantly affected by tree planting:
 tree and shrub cover increased, while monocot cover decreased. Synthesis
 and applications. Tree planting efficiently restored herbaceous forest
 communities in riparian zones by inducing a species turnover mediated by
 light availability corresponding to the threshold dynamics model in plant
 succession. Fostering and monitoring canopy closure in tree-planted
 riparian zones should improve restoration success and the design of
 alternative strategies. The innovative statistical approach of this study
 aiming to identify succession patterns and their associated theoretical
 models can guide future restoration in any type of ecosystem around the
 world to bridge the gap between science and management.
description: Data_Bourgeois_et_al_2016_JApplEcol
DOI: 10.5061/dryad.pb1t5
title: Data from: Taxonomic effect on plant base concentrations and stoichiometry at the tips of the phylogeny prevails over environmental effect along a large scale gradient

description: Despite the well-known importance of all elements to plant growth and
 nutrient fluxes in ecosystems, most studies to date have been restricted
 to the roles of foliar nitrogen (N) and phosphorus (P). Much less is known
 about cycling and pools of base cations in ecosystems and the drivers of
 variation in cation concentrations among plant species, even though these
 cations are paramount for plant and ecosystem function. In particular,
 little is known about the contributions of taxonomic position and
 environmental variation on base cation concentrations. The extent to which
 concentrations of elements in plants are determined by phenotypic response
 to their availability in current environments versus by inherent
 species-specific uptake and processing adaptations, should be most
 directly evident at the tips of the phylogeny, where inherent variation
 among species should reflect relatively recent adaptation to environmental
 variation since their common ancestry. To test this hypothesis, we
 explored the geographic pattern and the effects of taxonomy, climate and
 soil on concentrations and stoichiometry of the base cations potassium
 (K), sodium (Na), calcium (Ca) and magnesium (Mg) across a lineage of
 Artemisia species and their close relatives across northern China. We
 found that species identity explained the largest proportion of the total
 variance for all four base cations (38.3–53.8%) and their stoichiometry
 (35.2–59.6%). K, Na and Ca concentrations increased significantly with
 climate seasonality, while Ca concentration decreased with annual
 temperature and precipitation. Plant K concentration, K:Ca and K:Mg were
 negatively correlated with soil organic carbon concentrations, but
 positively with soil pH. Our results suggest that taxonomy still needs to
 be fully considered for interpreting variation in vegetation nutrition and
 stoichiometry along broad geographical gradients even for species at the
 tips of the phylogeny.
description: ~Base cation
 dataIn August to early
 September 2012, 48 species of Artemisia and their close relatives (Ajania,
 Filifolium, Hippolytia, Neopallasia and Seriphidium) were collected from
 65 sites of natural vegetation across China. Four base cations (K, Ca, Na
 and Mg) concentrations were determined using the Thermo Scientific iCAP
 6300.
DOI: 10.26180/31109014
title: Supplementary data from the PhD thesis titled: An Investigation of City-scale Heat Climatology Using Observations and Modelling.

description: Includes the following datasets:ERA5-based climate forcinggsTEB config filesgsTEB model outputsUrban canopy parameters for Melbourne<br>
DOI: 10.5061/dryad.p7d03
title: Data from: High virulence sub-populations in Pseudomonas aeruginosa long-term cystic fibrosis airway infections

description: Background: Pseudomonas aeruginosa typically displays loss of
 virulence-associated secretions over the course of chronic cystic fibrosis
 infections. This has led to the suggestion that virulence is a costly
 attribute in chronic infections. However, previous reports suggest that
 overproducing (OP) virulent pathotypes can coexist with non-producing
 mutants in the CF lung for many years. The consequences of such
 within-patient phenotypic diversity for the success of this pathogen are
 not fully understood. Here, we provide in-depth quantification of
 within-host variation in the production of three virulence associated
 secretions in the Liverpool cystic fibrosis epidemic strain of P.
 aeruginosa, and investgate the effect of this phenotypic variation on
 virulence in acute infections of an insect host model. Results:
 Within-patient variation was present for all three secretions (pyoverdine,
 pyocyanin and LasA protease). In two out of three patients sampled, OP
 isolates coexisted with under-producing mutants. In the third patient, all
 39 isolates were under-producers of all three secretions relative to the
 transmissible ancestor LESB58. Finally, this phenotypic variation
 translated into variation in virulence in an insect host model.
 Conclusions: Within population variation in the production of P.
 aeruginosa virulence-associated secretions can lead to high virulence
 sub-populations persisting in patients with chronic CF infections.
description: Phenotype
 measurementsPhenotypic data for each
 LES isolate, standardised by bacterial density and quantified relative to
 LESB58 isolate. "Per capita" indicates that value has been
 standardised by OD of the relevant population.survival
 analysisTime to death (h) for
 wax moth larvae infected with each LESB58 isolate. Death =0 indicates that
 larva was not scored as dead at the final timepoint.
DOI: 10.26180/31109014.v2
title: Supplementary data from the PhD thesis titled: An Investigation of City-scale Heat Climatology Using Observations and Modelling.

description: Includes the following datasets:ERA5-based climate forcinggsTEB config filesgsTEB model outputsUrban canopy parameters for Melbourne<br>
DOI: 10.26180/31109014.v1
title: Supplementary data from the PhD thesis titled: An Investigation of City-scale Heat Climatology Using Observations and Modelling.

description: Includes the following datasets:ERA5-based climate forcinggsTEB config filesgsTEB model outputsUrban canopy parameters for Melbourne<br>
DOI: 10.15468/dl.wzgaw7
title: Occurrence Download

description: A dataset containing 1722 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Browallia americana",
 "HasCoordinate is true",
 "BasisOfRecord is one of (Specimen)"
 ]
}

 The dataset includes 1722 records from 116 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000832-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.hm690
title: Data from: Social foragers adopt a riskier foraging mode in the centre of their groups

description: Foraging in groups provides many benefits that are not necessarily
 experienced the same way by all individuals. I explore the possibility
 that foraging mode, the way individuals exploit resources, varies as a
 function of spatial position in the group, reflecting commonly occurring
 spatial differences in predation risk. I show that semipalmated sandpipers
 (Calidris pusilla), a social foraging avian species, tended to adopt a
 riskier foraging mode in the central, more protected areas of their
 groups. Central birds effectively used the more peripheral group members
 as sentinels, allowing them to exploit a wider range of resources within
 the same group at the same time. This finding provides a novel benefit of
 living in groups, which may have a broad relevance given that social
 foraging species often exploit a large array of resources.
description: RiskIncludes the prevalence
 of each foraging mode as a function of several independent variables
 including spatial position and food availability.risk_bl.xlsx
DOI: 10.5061/dryad.t81s0
title: Data from: A new puddle frog (Phrynobatrachidae: Phrynobatrachus) from the Obudu Plateau in eastern Nigeria

description: A new species of puddle frog (Phrynobatrachus) is described from the Obudu
 Plateau in Cross River State of eastern Nigeria. The new species is
 distinguished from Phrynobatrachus species that are either closely related
 or occur in Nigeria or nearby countries by the combination of its larger
 body size (larger than the closely related P. chukuchuku, P. danko, P.
 manengoubensis, and P. werneri) and more extensive degree of development
 of male traits such as the nuptial pad and gular spines. The new species
 is also distinguished by a pale or white line along the anterior edge of
 the supratympanic skin ridge. A molecular phylogenetic analysis reveals
 that this morphologically distinct taxon is conspecific with a juvenile
 specimen from the Obudu Plateau previously referred to as P. werneri, and
 that this new species forms a clade with three other small species from
 the mountains of Cameroon and Nigeria (P. danko, P. werneri, and P.
 manengoubensis). The description of this species adds to the diversity of
 amphibian species of the Obudu Plateau, many of which have disjunct
 distributions with other populations located in the mountains of
 neighboring Cameroon.
description: Blackburn&Rodel_Phrynobatrachus_schioetziNexus file containing aligned mtDNA (12S, tRNA-Valine, 16S) for species of Phrynobatrachus.
DOI: 10.5061/dryad.gd217
title: Data from: Taxonomic and functional assessment of mesopredator diversity across an estuarine habitat mosaic

description: A long-standing rule in ecology is that structural complexity increases
 abundance and diversity of organisms, but this paradigm glosses over
 potential trait-specific benefits of habitat structure across different
 regional species pools. We tested this idea using multiple response
 variables emphasizing taxonomic and functional diversity in
 seagrass-vegetated, edge, and unvegetated habitats across three estuaries
 in Washington State (USA). We also used these variables in tandem to
 evaluate functional redundancy as a proxy for ecosystem resistance and
 resilience. The estuaries spanned a two-fold range in richness of
 mesopredatory fishes and decapods. Increases in per-sample abundance with
 habitat structure were confined to three of seven functional groups,
 specifically those occupying the water column or directly associated with
 seagrass shoots. Consequently, seagrass reduced mesopredator diversity by
 reducing evenness. Habitats differed in mesopredator assemblages despite
 their spatial proximity (ca. 3 m), supported by multivariate analyses
 performed at functional and taxonomic resolutions, but site differences
 were less apparent functionally than taxonomically. Functional redundancy
 did not differ by habitat, but increased with the richness of the regional
 species pool. Edge habitats were generally intermediate in community
 structure, per-sample abundance, and diversity between seagrass and
 unvegetated habitats. Structural complexity provided a trait-specific
 enhancement of abundance, and this pattern applied across species pools.
 Because seagrass benefits species with certain traits, management focused
 on the low-intertidal estuarine habitat mosaic, rather than a particular
 habitat type, and on places where redundancy is already low, best supports
 mesopredator diversity and function.
description: Mesopredator trait and
 eelgrass data from three sites in Washington StateThis file includes raw
 count and length data for individual mesopredators collected in the field
 at three sites in Washington State, across three habitat types in three
 subsites per site. Except at the first subsite, ten individuals of each
 species were measured out of the total number counted. The file also
 includes functional traits assigned to each species observed in seine
 samples, using information freely available at FishBase and other sources
 detailed in the manuscript and supplementary material. Functional groups
 based on Gower distances were calculated using the FD package in R, and
 are also included here. Finally, we include data on eelgrass morphology
 including shoot density, biomass, leaf length, sheath length, and sheath
 width, as well as epiphyte load, measured in 10 0.25m^2 quadrats in
 eelgrass and edge habitat at each subsite.Master.Data.xlsx
DOI: 10.5061/dryad.nr1h6t0
title: Data from: Field validation of radar systems for monitoring bird migration

description: 1. Advances in information technology are increasing the use of radar as a
 tool to investigate and monitor bird migration movements. We set up a
 field campaign to compare and validate outputs from different radar
 systems. 2. Here we compare the pattern of nocturnal bird migration
 movements recorded by four different radar systems at a site in southern
 Sweden. Within the range of the weather radar (WR) Ängelholm, we operated
 a “BirdScan” (BS) dedicated bird radar, a standard marine radar (MR), and
 a tracking radar (TR). 3. The measures of nightly migration intensities,
 provided by three of the radars (WR, BS, MR), corresponded well with
 respect to the relative seasonal course of migration, while absolute
 migration intensity agreed reasonably only between WR and BS. Flight
 directions derived from WR, BS and TR corresponded very well, despite very
 different sample sizes. Estimated mean ground speeds differed among all
 four systems. The correspondence among systems was highest under clear sky
 conditions and at high altitudes. 4. Synthesis and applications. While
 different radar systems can provide useful information on nocturnal bird
 migration, they have distinct strengths and weaknesses, and all require
 supporting data to allow for species level inference. Weather radars
 continuously detect avian biomass flows across a wide altitude band,
 making them a useful tool for monitoring and predictive applications at
 regional to continental scales that do not rely on resolving individuals.
 BirdScan and marine radar’s strengths are in local and low altitude
 applications, such as collision risks with man-made structures and airport
 safety, although marine radars should not be trusted for absolute
 intensities of movement. In quantifying flight behaviour of individuals,
 tracking radars are the most informative.
description: mtr_gs_trackMean migration traffic rate (MTR), ground speed (GS) and track direction (track) per night during the campaign. Data is divided in “low” 200-800m and “high” 800-1400m altitude groups.heightMean migration traffic rate (MTR) over two different time periods (entire sampling period: 1 sep-31 oct 2015 and period of MR deployment: 5 – 16 oct 2015) divided into 200 m altitude bins.
DOI: 10.5061/dryad.kc0490t
title: Data from: Graphene quantum dots as nanoprobes for fluorescent detection of propofol in emulsions

description: We report a new fluorescent detection method for propofol based on
 graphene quantum dots (GQDs). Citric acid (CA) was selected as the carbon
 precursor, and fluorescent GQDs were prepared by carbonizing CA. The
 product, which efficiently quenched the fluorescence of GQDs, could be
 obtained through the oxidation of propofol in the presence of horseradish
 peroxidase (HRP) and hydrogen peroxide (H2O2). The fluorescence intensity
 ratio of GQDs (F/F0) was positively correlated with the concentration of
 propofol, which ranged within 5.34–89.07 mg L-1, the limit of detection
 (LOD) was 0.5 mg L-1, the limit of quantity (LOQ) was 5.34 mg L-1. The
 developed fluorescence method reported in the present study is simple,
 sensitive, reproducible, and can serve in determining propofol contents in
 emulsions.
description: XPS properties of the
 Graphene quantum dotsThe full scan XPS
 spectrum of the graphene quantum dots (GQDs): present three peaks at
 285.09, 531.2 and 1071.17 eV, which correspond to C1s, O1s and Na1s,
 respectively. The C1s spectrum of GQDs demonstrated oxygen-containing
 functional group, it shown that citric acid occurred incomplete
 carbonization and formed a large amount of C=O during
 pyrolysis.
DOI: 10.5061/dryad.00v20
title: Data from: Sex-specific responses to territorial intrusions in a communication network: evidence from radio-tagged great tits

description: Signals play a key role in the ecology and evolution of animal
 populations, influencing processes such as sexual selection and conflict
 resolution. In many species, sexually selected signals have a dual
 function: attracting mates and repelling rivals. Yet, to what extent males
 and females under natural conditions differentially respond to such
 signals remains poorly understood, due to a lack of field studies that
 simultaneously track both sexes. Using a novel spatial tracking system, we
 tested whether or not the spatial behavior of male and female great tits
 (Parus major) changes in relation to the response of a territorial male
 neighbor to an intruder. We tracked the spatial behavior of male and
 female great tits (N = 44), 1 hr before and 1 hr after simulating
 territory intrusions, employing automatized Encounternet radio-tracking
 technology. We recorded the spatial and vocal response of the challenged
 males and quantified attraction and repulsion of neighboring males and
 females to the intrusion site. We additionally quantified the direct
 proximity network of the challenged male. The strength of a male’s vocal
 response to an intruder induced sex-dependent movements in the
 neighborhood, via female attraction and male repulsion. Stronger vocal
 responders were older and in better body condition. The proximity networks
 of the male vocal responders, including the number of sex-dependent
 connections and average time spent with connections, did not change
 directly following the intrusion. The effects on neighbor movements
 suggest that the strength of a male’s vocal response can provide relevant
 social information to both the males and the females in the neighborhood,
 resulting in both sexes adjusting their spatial behavior in contrasting
 ways, while the social proximity network remained stable. Moreover, our
 study underlines the importance of the “silent” eavesdroppers within
 communication networks for studying the dual functioning and evolution of
 sexually selected signals.
description: Snijders etal 2016/2017
 Ecology and Evolution DataThis file includes all
 the data used for the statistical analyses in the manuscript. The data
 include information on the experimental stimuli, the subject's
 individual traits, vocal response, spatial response, and the neighborhood
 response (3 sheets). An additional sheet provides the legend for the
 column names.EE_Snijdersetal2016_Data_dryad.xlsx
DOI: 10.5061/dryad.12c6b
title: Data from: Epistasis and allele specificity in the emergence of a stable polymorphism in Escherichia coli

description: Ecological opportunities promote population divergence into coexisting
 lineages. However, the genetic mechanisms that enable new lineages to
 exploit these opportunities are poorly understood except in cases of
 single mutations. We examined how two Escherichia coli lineages diverged
 from their common ancestor at the outset of a long-term coexistence. By
 sequencing genomes and reconstructing the genetic history of one lineage,
 we showed that three mutations together were sufficient to produce the
 frequency-dependent fitness effects that allowed this lineage to invade
 and stably coexist with the other. These mutations all affected regulatory
 genes and collectively caused substantial metabolic changes. Moreover, the
 particular derived alleles were critical for the initial divergence and
 invasion, indicating that the establishment of this polymorphism depended
 on specific epistatic interactions.
description: Frequency
 dependenceFitness data for
 frequency dependence determination obtained after competition experiments
 at two initial volumetric ratio (1:9 and 9:1)Frequency.Dependence.csvGeneric FitnessFitness values obtained after direct competition experiments (1:1 ratio)Generic.Fitness.csvGrowth in L SupernatantValues of OD after growth of S in L supernatantGrowth.in.L.Supernatant.csvMetabolic Flux AnalysisMeasurements of metabolic fluxMetabolic.Flux.Analysis.csvStable.CoexistenceMeasurement of co-existence between clones after co-cultures