cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.d06j48t
title: Data from: Increasing phylogenetic stochasticity at high elevations on summits across a remote North American wilderness

description: At the intersection of ecology and evolutionary biology, community
 phylogenetics can provide insights into overarching biodiversity patterns,
 particularly in remote and understudied ecosystems. To understand
 community assembly of the high-alpine flora of the Sawtooth National
 Forest, USA, we analyzed phylogenetic structure within and between nine
 summit communities. We used high-throughput sequencing to supplement
 existing data and infer a nearly completely sampled community phylogeny of
 the alpine vascular flora. We calculated mean nearest taxon distance
 (MNTD) and mean pairwise distance (MPD) to quantify phylogenetic
 divergence within summits, and assessed whether maximum elevation explains
 phylogenetic structure. To evaluate similarities between summits we
 quantified phylogenetic turnover, taking into consideration micro-habitats
 (talus vs. meadows). We found different patterns of community phylogenetic
 structure within the six most species-rich orders, but across all vascular
 plants phylogenetic structure was largely not different from random. There
 was a significant negative correlation between elevation and tree-wide
 phylogenetic diversity (MPD) within summits: overdispersion degraded as
 elevation increased. Between summits we found high phylogenetic turnover,
 which was driven by greater niche heterogeneity on summits with alpine
 meadows. This study provides further evidence that stochastic processes
 may also play an important role in the assembly of vascular plant
 communities in the high-alpine at regional scales. However, order-specific
 patterns suggest that adaptations are still important for assembly of
 specific sectors of the plant tree of life. Further studies quantifying
 functional diversity will be important to disentangle the interplay of
 eco-evolutionary processes that likely shape broad community phylogenetic
 patterns in extreme environments. Please be aware that if you ask to have
 your user record removed, we will retain your name in the records
 concerning manuscripts for which you were an author, reviewer, or editor.
 In compliance with data protection regulations, you may request that we
 remove your personal registration details at any time. (Use the following
 URL: https://www.editorialmanager.com/ajb/login.asp?a=r) Please contact
 the publication office if you have any questions.
description: TotalDataGeneRegionAlignmentsAlignments of total sequence data pre-cleaning. Zip file includes six gene regions (atpB, ITS, matK, ndhF, rbcL, and trnT-F).sawtooth.totalData.clean.concat.phyAlignment of cleaned total combined dataset (MiSeq and GenBank sequences) used for community phylogeny inference.speciespersummit_collect.csvAlpine community matrix (rows = plant species collected, columns = summit) and indication if collected from high-alpine meadow (“Meadow” = 1).sawtooth.totalDataCommunity phylogeny used for estimation of phylogenetic structure within and between nine high-alpine summits.
DOI: 10.5061/dryad.tv2tk65
title: Data from: Exfoliated transition metal dichalcogenide nanosheets for supercapacitor and sodium ion battery applications

description: Growing concerns regarding the safety, flammability, and hazards posed by
 Li-ion systems have led to research on alternative rechargeable metal-ion
 electrochemical storage technologies. Among the most notable of these are
 Na-ion supercapacitors and batteries, motivated in part because of the
 similar size and electrochemistry of Li and Na ions. However, sodium ion
 batteries (SIBs) come with their own set of issues, especially the large
 size of the Na+ ion, its relatively sluggish kinetics and low energy
 densities. This makes the development of novel materials and appropriate
 electrode architecture is of absolute significance. Transition metal
 dichalcogenides (TMDs), in this regard have attracted a lot of attention
 due of their relative ease of exfoliation, diverse morphologies and
 architectures with superior electronic properties. Here, we study the
 electrochemical performance of Mo based two dimensional (2D) layered TMDs
 (e.g. MoS2, MoSe2, and MoTe2), exfoliated in a superacid, for battery and
 supercapacitor applications. The exfoliated TMD flakes were interfaced
 with reduced graphene oxide (rGO) to be used as composite electrodes.
 Electron microscopy, elemental mapping, Raman spectra were used to analyze
 the exfoliated material and confirm the formation of 2D TMD/rGO layer
 morphology. For supercapacitor applications in aqueous media, the
 sulfide-based TMD (MoS2) exhibited the best performance, providing an
 areal capacitance of 60.25 mF cm-2. For SIB applications, TMD electrodes
 exhibited significantly high charge capacities than the neat rGO
 electrode. The initial desodiation capacities for the composite electrodes
 468.84 mAh g-1 (1687.82 C g-1), 399.10 mAh g-1 (1436.76 C g-1) and 387.36
 mAh g-1 (1394.49 C g-1) for MoS2, MoSe2, and MoTe2 respectively. Also, all
 the composite TMD electrodes provided a coulombic efficiency of ∼100 %
 after few cycles.
description: Aerial
 capacitanceCyclic
 voltammetryCV.opjGalvanostatic charge dischargeFirst cycle galvanostatic charge discharge for the TMD samples.GCD.opjGCD capacitanceCapacitance obtained from galvanostatic charge discharge curves at varying current rates.TEM and EDXTEM images and EDX spectra for the various TMD samplesTEM_EDX.jpgCapacity retentionBattery capacity retention data
DOI: 10.5061/dryad.663g807
title: Data from: A multifactor coupling prediction model for the failure depth of floor rocks in fully mechanized caving mining: a numerical and in situ study

description: To study the mining-induced failure depth of floor rocks in a
 fully-mechanized mining caving field affected by different coal seam
 pitches, mining face lengths, burial depths and aquifer water pressures,
 multifactor coupled orthogonal numerical tests on the failure depth of
 floor rocks were conducted. The numerical results show that the failure
 depth of floor rocks increases with increasing mining face length, coal
 seam pitch and burial depth. According to the relationship between failure
 depth and these impact factors, a multifactor coupled prediction model for
 the failure depth of floor rocks was established. In addition, the in-situ
 measurement of the failure depth of floor rocks in the Yitang Coal Mine in
 Huoxi coal field in Shanxi Province, China, was performed, and the in-situ
 failure depths of floor rocks in the 100502 (80 m) and 100502 (180 m)
 mining faces were approximately 12.50~14.65 m and 17.50~19.20 m, in good
 agreement with the results of the multifactor prediction model.
 Furthermore, the sensitivity of each impact factor in the prediction model
 of the floor failure depth was further analysed by F-test and range
 analysis, and the impact order of studied factors on the floor failure
 depth is coal seam pitch&gt;mining face length&gt;burial
 depth&gt;aquifer water pressure.
description: in-situ measurment data
 in 1# drillingin-situ measurment data
 in 3# drillingIn-situ measurment data in 3#
 drilling.xlsxin-situ measurment data
 in 2# drillingIn-situ measurment data in 2#
 drilling.xlsxin-situ measurment data
 in 4# drillingIn-situ measurment data in 4#
 drilling.xlsx
DOI: 10.5061/dryad.qs41mg4
title: Data from: Financial conflicts of interest of clinicians making submissions to the panCanadian Oncology Drug Review: a descriptive study

description: Objectives: This study examines financial conflict-of-interest (FCOI) of
 clinicians who made submissions to the panCanadian Oncology Drug Review
 (pCODR), the arm of the Canadian Agency for Drugs and Technology in Health
 that recommends whether oncology drug-indications should be publicly
 funded. Final reports from pCODR published between October 2016 and
 February 2019 were examined. Design: Descriptive study. Data sources:
 Website of panCanadian Oncology Drug Review. Interventions: None. Primary
 and secondary outcomes: The primary outcome is the number of submissions
 declaring FCOI. Secondary outcomes are the number of times where
 clinicians agreed and disagreed with preliminary recommendation from pCODR
 and the association between the distribution of individual clinicians’
 FCOI and pCODR’s funding recommendations. Results: There were 46
 drug-indication reports from pCODR. Clinicians made 261 submissions.
 Clinicians declared they received payments from companies 323 times and
 named 38 different companies making those payments a total of 500 times.
 Financial conflicts with drug companies were declared in 176 (66.3%) of
 all submissions. In 21 (45.7%) of the 46 drug-indications, 50% or more of
 the clinicians had a conflict with the company making the drug. Clinicians
 commented on 37 preliminary recommendations. In all 25 where pCODR
 recommended funding or conditional funding the clinicians either agreed or
 agreed in part. pCODR recommended that the drug-indication not be funded
 12 times and 9 times clinicians disagreed with that recommendation. The
 distribution of clinician responses was statistically significantly
 different depending on whether pCODR recommended funding/conditional
 funding or do not fund p &lt; 0.0001 (Fisher exact test). The
 distribution of clinicians’ FCOI differed depending on whether the
 recommendation was fund/conditional fund or do not fund p = 0.027 (Fisher
 exact test). Conclusion: Financial conflicts with pharmaceutical companies
 are widespread among experts making submissions to the pCODR.
description: Financial COIs of
 cliniciansDryad
 table.xlsx
DOI: 10.5061/dryad.70c0h49
title: Data from: Pressure-induced symmetry changes in body-centred cubic zeolites

description: Previous work has shown a strong correlation between zeolite framework
 flexibility and the nature of structural symmetry and phase transitions.
 However, there is little experimental data regarding this relationship, in
 addition to how flexibility can be connected to the synthesis of these
 open framework materials. This is of interest for the synthesis of novel
 zeolites, which require organic additives to permutate the resulting
 geometry and symmetry of the framework. Here, we have used high pressure
 powder X-ray diffraction to study the three zeolites: Na-X, RHO and ZK-5,
 which can all be prepared using 18-crown-6 ether as an organic additive.
 We observe significant differences in how the occluded 18-crown-6 ether
 influences the framework flexibility – this being dependant on the
 geometry of the framework. We use these differences as an indicator to
 define the role of 18-crown-6 ether during zeolite crystallisation.
 Furthermore, in conjunction with previous work we predict that
 pressure-induced symmetry transitions are intrinsic to body-centred cubic
 zeolites. The high symmetry yields fewer degrees of freedom, meaning it is
 energetically favourable to lower the symmetry to facilitate further
 compression.
description: Dataset for the article
 "Pressure-induced symmetry changes in body-centred cubic
 zeolites"This repository contains
 the data included in the article "Pressure-induced symmetry changes
 in body-centred cubic zeolites". The data consists of high pressure
 powder X-ray diffraction data collected at the ID15B beamline at the
 European Synchrotron Radiation Facility (ESRF).Cubic High-Pressure
 Repository.zip
DOI: 10.5061/dryad.dq7495s
title: Data from: Accounting for heterogeneity when estimating stopover duration, timing and population size of red knots along the Luannan Coast of Bohai Bay, China

description: 1. To successfully perform their long-distance migrations, migratory birds
 require sites along their migratory routes to rest and refuel. Monitoring
 the use of so-called stopover and staging sites provides insights into (1)
 the timing of migration and (2) the importance of a site for migratory
 bird populations. A recently developed Bayesian superpopulation model that
 integrates mark-recapture data and ring density data enabled the
 estimation of stopover timing, duration and population size. Yet, this
 model did not account for heterogeneity in encounter (p) and staying (ϕ)
 probabilities. 2. Here we extended the integrated superpopulation model by
 implementing finite mixtures to account for heterogeneity in p and ϕ. We
 used simulations and real data on red knots Calidris canutus staging in
 Bohai Bay, China, during spring migration to (1) show the importance of
 accounting for heterogeneity in encounter and staying probabilities to get
 unbiased estimates of stopover timing, duration and numbers of migratory
 birds at staging sites and (2) get accurate stopover parameter estimates
 for a migratory bird species at a key staging site that is threatened by
 habitat destruction. 3. Our simulations confirmed that heterogeneity in p
 affected stopover parameter estimates more than heterogeneity in ϕ. Bias
 was particularly severe when most birds had both low ϕ and p. Bias was
 largest for population size, intermediate for stopover duration and
 negligible for stopover timing. 4. 50,000-100,000 red knots were estimated
 to annually stop for 5-9 days in Bohai Bay between 10 and 30 May. This
 shows the key importance of this staging site for this declining species.
 There were no clear changes in stopover parameters over time. 5. Our study
 shows the importance of accounting for heterogeneity in both encounter and
 staying probabilities for accurately estimating stopover duration and
 population size and provides an appropriate modelling framework.
description: Individual_encounter_historiesDaily field observations of colour-marked red knots (marked in Northwest Australia) along the Luannan Coast of Bohai Bay, China during spring migration between 2009 and 2016, in matrix format. Column names represent day of the year, ranging from 130 (10 May) until 150 (30 May) and row names represent the year of observation. Each row represents the daily encounter history of one individual in a particular year, where a "0" implies that the individual was not observed during that particular day, and a "1" implies that the individual was observed at least once.Ring density dataData file of ring density scans of marked and unmarked red knots, with the columns "Year", "Yearday" (from 130 (10 May) to 150 (30 May)), "K" (total number of birds checked for marks during a scan) and "m" (the number of marked birds in the scan). Scans have been performed with replacement.Ring_density_data.txt
DOI: 10.5061/dryad.8dg7kg5
title: Data from: Untargeted metabolomic profiling of urine from healthy dogs and dogs with chronic hepatic disease

description: Chronic hepatic disease can present a diagnostic challenge with different
 etiologies being associated with similar clinical and laboratory findings.
 The histopathological assessment of a liver biopsy specimen is usually
 required in order to make a definitive diagnosis and the availability of
 non-invasive prognostic biomarkers is limited. The emerging science of
 metabolomics is used to detect changes in endogenous low molecular weight
 metabolites in biological samples and offers the possibility of
 identifying noninvasive markers of disease. The objective of this study
 was to investigate differences in the urine metabolome between healthy
 dogs, dogs with chronic hepatitis, dogs with hepatocellular carcinoma, and
 dogs with a congenital portosystemic shunt. Stored urine samples from 10
 healthy dogs, 10 dogs with chronic hepatitis, 6 dogs with hepatocellular
 carcinoma, and 5 dogs with a congenital portosystemic shunt were analyzed.
 The urine metabolome was analyzed by gas chromatography – quadrupole time
 of flight mass spectrometry and 220 known metabolites were identified.
 Principal component analysis and heat dendrogram plots of the metabolomics
 data showed clustering between groups. Random forest analysis showed
 differences in the abundance of various metabolites including putrescine,
 gluconic acid, sorbitol, and valine. Based on univariate statistics, 37
 metabolites were significantly different between groups. In, conclusion,
 the urine metabolome varies between healthy dogs, dogs with chronic
 hepatitis, dogs with hepatocellular carcinoma, and dogs with a congenital
 portosystemic shunt. Further targeted assessment of these metabolites is
 needed to assess their diagnostic utility.
description: Lawrence Urine
 Metabolomics Map FileRaw peak heights for
 identified urine metabolites by experimental group.
DOI: 10.5061/dryad.bt45780
title: Data from: Preparation and structure of SiOCN fibers derived from cyclic silazane/PAA hybrid precursor

description: Ceramic matrix composite (CMC) materials have been considered a desired
 solution for lightweight and high temperature applications.
 Simultaneously, among all different CMC reinforcements, Polymer-Derived
 Ceramic (PDC) fibers have gained attention for the intrinsic thermal
 stability and mechanical strength with simple and cost-effective synthesis
 techniques. Here, carbon-rich silicon oxycarbide (SiOC) fibers were
 synthesized via hand-drawing and polymer pyrolysis of a hybrid precursor
 of 1,3,5,7-tetramethyl-1,3,5,7-tetravinyl-cyclotetrasilazane (TTCSZ) and
 polyacrylic acid (PAA). The type of silazane reported in this work is
 considered as a major precursor for SiCN, however it is unspinnable, due
 to its unfavorable physical properties (low viscosity) and chemical
 structure (cyclic rather than linear structure). The introduction of PAA
 to TTCSZ to create a hybrid precursor remarkably improved spinnability of
 the silazane and should be widely applicable to other unspinnable PDC
 preceramic polymers. Investigations on structural and compositional
 development of the fibers were mainly conducted via Raman spectroscopy,
 Fourier-Transform InfraRed spectroscopy (FTIR), Scanning Electron
 Microscopy (SEM), X-ray Photoelectron Spectroscopy (XPS), Nuclear Magnetic
 Resonance (NMR) and ThermoGravimetric Analysis (TGA) to determine
 spinnability, free carbon content, cross-linking and pyrolysis behavior of
 the fibers, respectively.
description: FTIRRaw FTIR files used in
 the main manuscript and supplemental materialNMR-ASCIIRaw NMR data used in the manuscriptRamanRaw Raman files used in the manuscriptSEMSEM images used in the manuscriptTGARaw TGA data used in the manuscriptViscosityViscosity information used in the manuscriptXPSXPS scans in the manuscriptBET raw dataBET plot is included in the supplemental materialTTCSZ_PAA_800.XLS
DOI: 10.5061/dryad.9sv4q00
title: Data from: Temporal and spatial dynamics of competitive parapatry in chewing lice

description: We synthesize observations from 1979 to 2016 of a contact zone involving
 two subspecies of pocket gophers (Thomomys bottae connectens and T. b.
 opulentus) and their respective chewing lice (Geomydoecus aurei and G.
 centralis) along the Río Grande Valley in New Mexico, U.S.A., to test
 predictions about the dynamics of the zone. Historically, the natural
 flood cycle of the Rio Grande prevented contact between the two subspecies
 of pocket gophers. Flood-control measures completed in the 1930s permitted
 contact, thus establishing the hybrid zone between the pocket gophers and
 the contact zone between their lice (without hybridization). Since that
 time, the pocket gopher hybrid zone has stabilized, whereas the northern
 chewing louse species has replaced the southern louse species at a
 consistent rate of ~150 m/y. The 0.2–0.8 width of the replacement zone has
 remained constant, reflecting the constant rate of chewing louse species
 turnover on a single gopher and within a local pocket gopher population.
 In contrast, the full width of the replacement zone (northernmost G.
 centralis to southernmost G. aurei) has increased annually. By employing a
 variety of metrics of the species replacement zone, we are better able to
 understand the dynamics of interactions between and among the chewing lice
 and their pocket gopher hosts. This research provides an opportunity to
 observe active species replacement and resulting distributional shifts in
 a parasitic organism in its natural setting.
description: Contact Zone Specimens
 and ID dataThis file contains host
 and parasite identification and locality data5p models with
 metricsResulting 5 parameter
 models with descriptive statistics5p logistic curve
 r-scriptR-script used to produce
 5 parameter logistic curvesRaw data used to produce
 5p logistic curve for 1991Raw data used to produce
 5p logistic curve for 1996Raw data used to produce
 5p logistic curve for 2001Raw data used to produce
 5p logistic curve for 2016
DOI: 10.5061/dryad.gf2np70
title: Data from: Ageratina adenophora causes spleen toxicity by inducing oxidative stress and pyroptosis in mice

description: Ageratina adenophora (A. adenophora) is an invasive weed with potent
 toxicological effects on livestock. Oxidative stress and pyroptosis play a
 pivotal role in regulating animal or human health and disease. The object
 of this study was to determine the mechanism underlying splenic toxicity
 induced by A. adenophora in a mouse model. A. adenophora significantly
 increased the levels of reactive oxygen species, and malondialdehyde, but
 decreased the antioxidants like catalase, superoxide dismutase,
 glutathione and glutathione peroxidase. In addition, the activity of the
 antioxidant enzymes was also decreased upon A. adenophora treatment. The
 induction of the pyroptosic pathway was evaluated in terms of the
 expression levels of nod-like receptor protein 3, nuclear factor-κB,
 caspase-1, gasdeimin-D and interleukin-1β, all of which were significantly
 elevated by A. adenophora. These findings suggest that A. adenophora
 impairs spleen function in mice through oxidative stress damage and
 pyroptosis.
description: research related
 data