cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.q3b16
title: Data from: Spatiotemporal changes in the distribution of LHFPL5 in mice cochlear hair bundles during development and in the absence of PCDH15

description: Mechanosensory transduction by vertebrate hair cells depends on a protein
 complex at the tips of shorter stereocilia associated with
 mechanoelectrical transduction channels activated by tip links in the hair
 bundle. In mammalian hair cells, this complex includes transmembrane
 channel-like protein subunit 1 (TMC1), lipoma HMGIC fusion partner-like 5
 protein (LHFPL5) and protocadherin 15 (PCDH15), a lower-end component of
 the tip link. TMC1 interacts with LHFPL5 and PCDH15 but how the complex
 develops to maturity, and the relationships between these proteins,
 remains uncertain. Here we evaluate the spatiotemporal development of
 LHFPL5 distributions in mouse cochlear hair bundles by immunofluorescence
 and immunogold transmission electron microscopy, from postnatal day 0 (P0)
 through P21 in wild type and PCDH15-deficient mice. At P0, hair bundles
 contain many short microvilli-like processes which we term unranked
 stereocilia, and a subset of lengthening rows, adjacent to a kinocilium.
 LHFPL5 is distributed throughout the bundle, including on stereocilia tips
 and the kinocilium. At P3, 4-to-6 rows of ranked stereocilia are evident,
 total LHFPL5 expression peaks, and LHFPL5 is localised to ranked
 stereocilia tips of all rows and to lower shaft/ankle links. By P12, the
 bundle has a mature pattern with 3 ranked rows but virtually no unranked
 stereocilia or kinocilium; LHFPL5 expression has declined and become
 restricted to the tips of shorter stereocilia. Throughout development from
 P0, expression of LHFPL5 is greater overall on apical than basal bundles,
 but there is, on average, an equal amount of labelling per labelled tip.
 In P3 mice lacking PCDH15, LHFPL5 labelling is not at the tips but is
 primarily on unranked stereocilia and lower lateral links. These data show
 that LHFPL5 is already present in the MET apparatus at P0 but requires
 PCDH15 at P3 to remain there. Shaft/ankle link localisation suggests it
 interacts with link proteins other than PCDH15.
description: Data for Fig
 4fThis file contains data
 supporting figure 4f in the publication.Data for Fig
 4gThis file contains data
 supporting figure 4g in the publicationData for Fig
 6cThis file contains data
 supporting figure 6c in the publicationData for Fig
 6dThis file contains data
 supporting figure 6d in the publicationData for Fig
 7aThis file contains data
 supporting figure 7a in the publicationData for Fig
 7bThis file contains data
 supporting figure 7b in the publicationData for Fig 7c
 dThis
 file contains data supporting figure 7c,d in the
 publicationData for Fig
 7eThis file contains data
 supporting figure 7e in the publicationData for Fig
 9eThis file contains data
 supporting figure 9e in the publicationData for Fig
 9fThis file contains data
 supporting figure 9f in the publication
DOI: 10.17632/tk52nhj67c.4
title: Inhibition of phosphodiesterase 4 alleviates mastitis induced by Staphylococcus aureus via MAPK and NF-κB signaling pathways

description: Table S1.qRT-PCR Primer Sequence List
DOI: 10.5061/dryad.9gh90
title: Data from: Issues and perspectives in species delimitation using phenotypic data: Atlantean evolution in Darwin's finches

description: Progress in the development and use of methods for species delimitation
 employing phenotypic data lags behind conceptual and practical advances in
 molecular genetic approaches. The basic evolutionary model underlying the
 use of phenotypic data to delimit species assumes random mating and
 quantitative polygenic traits, so that phenotypic distributions within a
 species should be approximately normal for individuals of the same sex and
 age. Accordingly, two or more distinct normal distributions of phenotypic
 traits suggest the existence of multiple species. In light of this model,
 we show that analytical approaches employed in taxonomic studies using
 phenotypic data are often compromised by three issues: (1) reliance on
 graphical analyses that convey little information on phenotype
 frequencies; (2) exclusion of characters potentially important for species
 delimitation following reduction of data dimensionality; and (3) use of
 measures of central tendency to evaluate phenotypic distinctiveness. We
 outline approaches to overcome these issues based on statistical
 developments related to normal mixture models and illustrate them
 empirically with a reanalysis of morphological data recently used to claim
 that there are no morphologically distinct species of Darwin’s
 ground-finches (Geospiza). We found negligible support for this claim
 relative to taxonomic hypotheses recognizing multiple species. Although
 species limits among ground-finches merit further assessments using
 additional sources of information, our results bear implications for other
 areas of inquiry including speciation research: because ground-finches
 have likely speciated and are not trapped in a process of “Sisyphean”
 evolution as recently argued, they remain useful models to understand the
 evolutionary forces involved in speciation. Our work underscores the
 importance of statistical approaches grounded on appropriate evolutionary
 models for species delimitation. We discuss how normal mixture models
 offer new perspectives in the kind of inferences available to
 systematists, with significant repercussions on ideas about the phenotypic
 structure of biodiversity.
description: Supplementary
 MaterialSupplementary figures
 and online appendices 1 and 2.Online Appendix
 3Morphological
 measurements and geographic provenance of male specimens of Geospiza
 ground-finches employed in analyses.data.csvOnline Appendix 4R code employed to conduct analysesAnalysis_code.R
DOI: 10.17632/xfm76fjwrn
title: Replication Package 'Government Debt Management and Inflation with Real and Nominal Bonds'

description: Replication package for the paper 'Government Debt Management and Inflation with Real and Nominal Bonds'.
DOI: 10.17632/xfm76fjwrn.1
title: Replication Package 'Government Debt Management and Inflation with Real and Nominal Bonds'

description: Replication package for the paper 'Government Debt Management and Inflation with Real and Nominal Bonds'.
DOI: 10.5061/dryad.n2b3h
title: Data from: A genome-wide phylogeny of jumping spiders (Araneae, Salticidae), using anchored hybrid enrichment

description: We present the first genome-wide molecular phylogeny of jumping spiders
 (Araneae: Salticidae), inferred from Anchored Hybrid Enrichment (AHE)
 sequence data. From 12 outgroups plus 34 salticid taxa representing all
 but one subfamily and most major groups recognized in previous work, we
 obtained 447 loci totalling 96,946 aligned nucleotide sites. Our analyses
 using concatenated likelihood, parsimony, and coalescent methods (ASTRAL
 and SVDQuartets) strongly confirm most previous results, resolving as
 monophyletic the Spartaeinae, Salticinae (with the hisponines sister),
 Salticoida, Amycoida, Saltafresia, and Simonida. The agoriines, previously
 difficult to place beyond subfamily, are finally placed confidently within
 the saltafresians as relatives of the chrysillines and hasariines.
 Relationships among the baviines, astioids, marpissoids, and saltafresians
 remain uncertain, though our analyses tentatively conclude the first three
 form a clade together. Deep relationships, among the seven subfamilies,
 appear to be largely resolved, with spartaeines, lyssomanines, and
 asemoneines forming a clade. In most analyses, Onomastus (representing the
 onomastines) is strongly supported as sister to the hisponines plus
 salticines. Overall, the much-improved resolution of many deep
 relationships despite a relatively sparse taxon sample suggests AHE is a
 promising technique for salticid phylogenetics.
description: MaddisonEtAl2017-SalticidAHE447-separateMatricesNEXUS file of 447 loci (each a separate aligned matrix) for salticid spiders and outgroups. Data obtained by Anchored Hybrid Enrichment, Spider Probe Set version 2.
DOI: 10.5061/dryad.pc1rs
title: Data from: Environmental variation is a major predictor of global trait turnover in mammals

description: Aim: To evaluate how environment and evolutionary history interact to
 influence global patterns of mammal trait diversity (a combination of 14
 morphological and life-history traits). Location: The global terrestrial
 environment. Taxon: Terrestrial mammals. Methods: We calculated patterns
 of spatial turnover for mammalian traits and phylogenetic lineages using
 the mean nearest taxon distance. We then used a variance partitioning
 approach to establish the relative contribution of trait conservatism,
 ecological adaptation and clade specific ecological preferences on global
 trait turnover. Results: We provide a global scale analysis of trait
 turnover across mammalian terrestrial assemblages, which demonstrates that
 phylogenetic turnover by itself does not predict trait turnover better
 than random expectations. Conversely, trait turnover is consistently more
 strongly associated with environmental variation than predicted by our
 null models. The influence of clade-specific ecological preferences,
 reflected by the shared component of phylogenetic turnover and
 environmental variation, was considerably higher than expectations.
 Although global patterns of trait turnover are dependent on the trait
 under consideration, there is a consistent association between trait
 turnover and environmental predictive variables, regardless of the trait
 considered. Main conclusions: Our results suggest that changes in
 phylogenetic composition are not always coupled with changes in trait
 composition on a global scale and that environmental conditions are
 strongly associated with patterns of trait composition across species
 assemblages, both within and across phylogenetic clades.
description: Example
 analysisDetailed methods
 description, example R code and example data
DOI: 10.17632/vdf2tw4r75
title: Shear-induced differentiation of Himalayan leucogranite in the South Tibetan Detachment System

description: Table S1. Monazite U-(Th)-Pb dating of leucograite in the STDS of Nyalama area; Table S2. Monazite Sm-Nd isotopic data of leucograite in the STDS of Nyalama area; Table S3. Major (wt.%) and trace element (ppm) data for the leucogranites; Table S4. Electron probe analyses of plagioclase in leucogranites; Table S5. Electron probe analyses of biotite in leucogranites; Table S6. Electron probe analyses of white mica in leucogranites; Table S7 Fractionated mineral modes and partitioning coefficient for Rb, Sr, Ba and F used in the study.
DOI: 10.17632/vdf2tw4r75.1
title: Shear-induced differentiation of Himalayan leucogranite in the South Tibetan Detachment System

description: Table S1. Monazite U-(Th)-Pb dating of leucograite in the STDS of Nyalama area; Table S2. Monazite Sm-Nd isotopic data of leucograite in the STDS of Nyalama area; Table S3. Major (wt.%) and trace element (ppm) data for the leucogranites; Table S4. Electron probe analyses of plagioclase in leucogranites; Table S5. Electron probe analyses of biotite in leucogranites; Table S6. Electron probe analyses of white mica in leucogranites; Table S7 Fractionated mineral modes and partitioning coefficient for Rb, Sr, Ba and F used in the study.
DOI: 10.5061/dryad.8k56k
title: Data from: Detecting diversification rates in relation to preservation and tectonic history from simulated fossil records

description: For mammals today, mountains are diverse ecosystems globally, yet the
 strong relationship between species richness and topographic complexity is
 not a persistent feature of the fossil record. Based on fossil-occurrence
 data, diversity and diversification rates in the intermontane western
 North America varied through time, increasing significantly during an
 interval of global warming and regional intensification of tectonic
 activity from 18 to 14 Ma. However, our ability to infer origination and
 extinction rates reliably from the fossil record is affected by variation
 in preservation history. To investigate the influence of preservation on
 estimates of diversification rates, I simulated fossil records under four
 alternative diversification hypotheses and six preservation scenarios.
 Diversification hypotheses included tectonically-controlled speciation
 pulses, while preservation scenarios were based on common trends (e.g.,
 increasing rock record towards the present) or derived from fossil
 occurrences and the continental rock record. For each scenario, I
 estimated origination, extinction, and diversification rates using three
 standard methods—per-capita, three-timer, and capture-mark-recapture
 metrics—and evaluated the ability of the simulated fossil records to
 accurately recover the underlying diversification dynamics. Despite
 variable and low preservation probabilities, simulated fossil records
 retained the signal of true rates in several of the scenarios. The three
 metrics did not exhibit similar behavior under each preservation scenario:
 while three-timer and capture-mark-recapture metrics produced more
 accurate rate estimates, per-capita rates tended to better reproduce true
 shifts in origination rates. All metrics suffered from spurious peaks in
 origination and extinction rates when highly volatile preservation
 impacted the simulated record. Results from these simulations indicate
 that elevated diversification rates in relation to tectonic activity
 during the middle Miocene are likely to be evident in the fossil record,
 even if preservation in the North American fossil record was variable.
 Input from the past is necessary to evaluate the ultimate mechanisms
 underlying speciation and extinction dynamics.
description: Smiley_ESM_Figures and
 TablesSupplementary Tables 1
 and 2, Supplementary Figures 1-15, link to R scriptsTSmiley_PB_SupplementaryInformation_RevisedAug2017.pdfSmiley_DiversityMetrics_Functions_RScriptR script with functions for the calculation of diversification metricsTMSmiley2017_DiversityMetrics_FunctionScript.RSmiley_DiversityMetrics_Analysis_RScriptR Script to calculate diversification rates and impose preservation scenariosTMSmiley2017_DiversityMetrics_AnalysisScript.R
DOI: 10.5061/dryad.8r882
title: Data from: High intra-specific variation in avian body condition responses to climate limits generalisation across species

description: It is generally assumed that populations of a species will have similar
 responses to climate change, and thereby that a single value of
 sensitivity will reflect species-specific responses. However, this
 assumption is rarely systematically tested. High intraspecific variation
 will have consequences for identifying species- or population-level traits
 that can predict differences in sensitivity, which in turn can affect the
 reliability of projections of future climate change impacts. We
 investigate avian body condition responses to changes in six climatic
 variables and how consistent and generalisable these responses are both
 across and within species, using 21 years of data from 46 common
 passerines across 80 Dutch sites. We show that body condition decreases
 with warmer spring/early summer temperatures and increases with higher
 humidity, but other climate variables do not show consistent trends across
 species. In the future, body condition is projected to decrease by 2050,
 mainly driven by temperature effects. Strikingly, populations of the same
 species generally responded just as differently as populations of
 different species implying that a single species signal is not meaningful.
 Consequently, species-level traits did not explain interspecific
 differences in sensitivities, rather population-level traits were more
 important. The absence of a clear species signal in body condition
 responses implies that generalisation and identifying species for
 conservation prioritisation is problematic, which sharply contrasts
 conclusions of previous studies on the climate sensitivity of phenology.
description: Individual catch data
 for all species and yearsThis data were collected
 as part of the Dutch Constant Effort Site (CES) program. Description of
 the variables are in the second tab.Data
 Dryad.xlsx
DOI: 10.17632/zjkjg8cz6d
title: The Impact of Microplastics on Bryum argenteum in Arid Sandy Regions

description: This dataset originates from an experiment investigating the effects of microplastics on different growth stages of Bryum argenteum and associated environmental changes in arid sandy regions. The data reveal that microplastics significantly influence soil moisture, salinity, and nutrient content, thereby exerting varying differential effects on the asexual reproduction and growth of Bryum argenteum.
DOI: 10.5061/dryad.3j2q3
title: Data from: Group foraging increases foraging efficiency in a piscivorous diver, the African penguin

description: Marine piscivores have evolved a variety of morphological and behavioural
 adaptations, including group foraging, to optimize foraging efficiency
 when targeting shoaling fish. For penguins that are known to associate at
 sea and feed on these prey resources, there is nonetheless a lack of
 empirical evidence to support improved foraging efficiency when foraging
 with conspecifics. We examined the hunting strategies and foraging
 performance of breeding African penguins equipped with animal-borne video
 recorders. Individuals pursued both solitary as well as schooling pelagic
 fish, and demonstrated independent as well as group foraging behaviour.
 The most profitable foraging involved herding of fish schools upwards
 during the ascent phase of a dive where most catches constituted
 depolarized fish. Catch-per-unit-effort was significantly improved when
 targeting fish schools as opposed to single fish, especially when foraging
 in groups. In contrast to more generalist penguin species, African
 penguins appear to have evolved specialist hunting strategies closely
 linked to their primary reliance on schooling pelagic fish. The specialist
 nature of the observed hunting strategies further limits the survival
 potential of this species if Allee effects reduce group size-related
 foraging efficiency. This is likely to be exacerbated by diminishing fish
 stocks due to resource competition and environmental change.
description: AP_camdata_2017Raw data from observations of animal-borne video recorders deployed on African PenguinsCPUE_dataCatch-per-unit-effort data for modelscpue_data.csvAP_AVR_RcodeR code for all analyses, tables and figuresElectronic supplementary material, video, Movie S1Animal-borne-video footage showing the foraging behaviour of African penguins including an elevated school event, targeting of depolarised fish, group foraging and a bait-ball event.MovieS1.mov
DOI: 10.17632/zjkjg8cz6d.1
title: The Impact of Microplastics on Bryum argenteum in Arid Sandy Regions

description: This dataset originates from an experiment investigating the effects of microplastics on different growth stages of Bryum argenteum and associated environmental changes in arid sandy regions. The data reveal that microplastics significantly influence soil moisture, salinity, and nutrient content, thereby exerting varying differential effects on the asexual reproduction and growth of Bryum argenteum.
DOI: 10.5061/dryad.hh2kj
title: Data from: Density-dependent signaling: an alternative hypothesis on the function of chemical signaling in a non-territorial solitary carnivore

description: Brown bears are known to use rubbing behavior as a means of chemical
 communication, but the function of this signaling is unclear. One
 hypothesis that has gained support is that male bears rub to communicate
 dominance to other males. We tested the communication of dominance
 hypothesis in a low-density brown bear population in southeast British
 Columbia. We contrasted rubbing rates for male and female bears during and
 after the breeding season using ten years of DNA-mark-recapture data for
 643 individuals. Here we demonstrate that male brown bears rub 60% more
 during the breeding than the non-breeding season, while female rubbing had
 no seasonal trends. Per capita rub rates by males were, on average, 2.7
 times higher than females. Our results suggest that the function of
 rubbing in the Rocky Mountains may not only be to communicate dominance,
 but also to self-advertise for mate attraction. We propose that the role
 of chemical communication in this species may be density-dependent, where
 the need to self-advertise for mating is inversely related to population
 density and communicating for dominance increases with population density.
 We suggest that future endeavors to elucidate the function of rubbing
 should sample the behavior across a range of population densities using
 camera trap and genotypic data.
description: SouthRockies_DetectionData_RDSDetection data for South Rockies project. Suitable for replication of results in "Density-dependent signaling: An alternative hypothesis on the function of chemical signaling in a non-territorial solitary carnivore"DetectionData_ForRubTreePaper.csv
DOI: 10.15468/dl.k52cwt
title: Occurrence Download

description: A dataset containing 1782 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Laurus novocanariensis"
 ]
}

 The dataset includes 1782 records from 38 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001513-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.7910/dvn/n5mmi5
title: Raw

description: This is the raw data downloaded from the FRED repository.
DOI: 10.15468/dl.vvc9ey
title: Occurrence Download

description: A dataset containing 16809 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is Genebank, National Institute of Agrobiological Sciences"
 ]
}

 The dataset includes 16809 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0049440-250811113504898/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.wv896w
title: Occurrence Download

description: A dataset containing 8959 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Lonicera etrusca",
 "Country is Spain",
 "HasCoordinate is true"
 ]
}

 The dataset includes 8959 records from 58 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0049441-250811113504898/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.89a4be
title: Occurrence Download

description: A dataset containing 17 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((100.55227876618454 -1.8971856604035864,104.55227876618454 -1.8971856604035864,104.55227876618454 2.1028143395964136,100.55227876618454 2.1028143395964136,100.55227876618454 -1.8971856604035864))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Areca catechu"
 ]
}

 The dataset includes 17 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0005099-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.3dhxgs
title: Occurrence Download

description: A dataset containing 1678 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is China",
 "Month is one of (April, May, March)",
 "TaxonKey is Anser cygnoides",
 "Year 2015-2025"
 ]
}

 The dataset includes 1678 records from 5 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0005100-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.