cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.c2q52rs
title: Data from: Arsenic bioaccumulation in subarctic fishes of a mine-impacted bay on Great Slave Lake, Northwest Territories, Canada

description: A subarctic fish community in mine-impacted Yellowknife Bay (Great Slave
 Lake, Northwest Territories, Canada) was investigated for biological and
 ecological processes controlling arsenic bioaccumulation. Total
 concentrations of arsenic, antimony, and metals were measured in over 400
 fishes representing 13 species, and primary producers and consumers were
 included to characterize food web transfer. Yellowknife Bay had slightly
 more arsenic in surface waters (~3 µg/L) relative to the main body of
 Great Slave Lake (&lt;1 µg/L), resulting in two-fold higher total
 arsenic concentrations in muscle of burbot (Lota lota), lake whitefish
 (Coregonus clupeaformis), and northern pike (Esox lucius). Other
 mining-associated contaminants, specifically antimony, lead, and silver,
 were typically below analytical detection in those fish species. No
 evidence was found for enhanced bioaccumulation of arsenic in long-lived,
 slow-growing subarctic fishes. Food web biodilution of total arsenic
 occurred between primary producers, aquatic invertebrates, and fish,
 although trophic position did not explain arsenic concentrations among
 fishes. Pelagic-feeding species had higher total arsenic concentrations
 compared to littoral fishes. Arsenic accumulated in subarctic fishes to
 comparable levels as fishes from lakes around the world with similar water
 arsenic concentrations. This first comprehensive study for a subarctic
 freshwater food web identified the importance of water exposure,
 biodilution, and habitat-specific feeding on arsenic bioaccumulation.
description: Dryad Dataset_PLOS
 ONE_Great Slave Lake Fish Metal(loid)sThis file contains
 measurements of metal(loid) concentrations and ancillary data for fishes
 of Great Slave Lake, Northwest Territories, Canada. The worksheets
 contains: (1) Locations of fishes captured during the study; (2) Size,
 age, metal(loid) concentrations, and carbon and nitrogen stable isotopes
 of fishes captured for the study; (3) Size, age, and metal(loid)
 concentrations of fishes reported in 2 grey literature technical reports
 on the study area; (4) Size and metal(loid) concentrations of fishes
 examined in a previous publication (Cott et al. 2016.Journal of Great
 Lakes Research 42(2):223-32).
DOI: 10.5061/dryad.78v68ss
title: Data from: The avalanche-like behaviour of large-scale haemodynamic activity from wakefulness to deep sleep

description: Increasing evidence suggests that conscious awareness is supported by
 critical or near-critical cortical dynamics, which exhibit scale-free
 cascades of spatiotemporal activity. These avalanches of neural origin
 have been detected at multiple scales, from in vitro and in vivo
 microcircuits to voltage imaging and brain-wide functional magnetic
 resonance imaging (fMRI) recordings. Criticality endows the cortex with
 information processing capacities postulated as necessary for
 consciousness, yet it remains unknown how reduced awareness impacts on the
 avalanche-like behaviour of large-scale human hemodynamic activity. We
 observed a scale-free hierarchy of co-activated connected clusters by
 applying a point-process transformation to fMRI data recorded during
 wakefulness and non-rapid eye movement (NREM) sleep. Maximum likelihood
 estimates revealed a significant effect of sleep stage on the scaling
 parameters of the cluster size power-law distributions. Post-hoc
 statistical tests showed that differences were maximal between wakefulness
 and N2 sleep. These results were robust against spatial coarse-graining
 and different point-process thresholds, and disappeared upon
 phase-shuffling the fMRI time series. The onset of evoked neural
 bistabilities that prevent arousals during N2 sleep do not suffice to
 explain these differences, which point towards changes in the intrinsic
 dynamics of the brain that are necessary to consolidate a state of deep
 sleep.
description: Sparse matrices with
 clusters labels obtained from point-process transformation of fMRI
 datarepository_data.zip
DOI: 10.5061/dryad.mt97dv8
title: Data from: Development of homeothermic endothermy is delayed in high altitude native deer mice (Peromyscus maniculatus)

description: Altricial mammals begin to independently thermoregulate during the first
 few weeks of postnatal development. In wild rodent populations this is
 also a time of high mortality (50-95%), making the physiological systems
 that mature during this period potential targets for selection. High
 altitude is a particularly challenging environment for small endotherms
 due to unremitting low O2 and ambient temperatures. While superior
 thermogenic capacities have been demonstrated in adults of some high
 altitude species, it is unclear if selection has occurred to survive these
 unique challenges early in development. We used deer mice (P. maniculatus)
 native to high and low altitude, and a strictly low altitude species (P.
 leucopus), raised under common garden conditions, to determine if
 postnatal onset of endothermy and maturation of BAT is affected by
 altitude ancestry. We found that the onset of endothermy corresponds with
 the maturation and activation of brown adipose tissue (BAT) at an
 equivalent age in low altitude natives, with 10-day old pups able to
 thermoregulate in response to acute cold in both species. However, the
 onset of endothermy in high altitude pups was substantially delayed (by ~2
 days), possibly driven by delayed sympathetic regulation of BAT. We
 suggest that this delay may be part of an evolved cost-saving measure to
 allow pups to maintain growth rates under the O2-limited conditions at
 high altitude.
description: Robertson_2019_Development of endothermy_Data
DOI: 10.15468/dl.x75sxw
title: Occurrence Download

description: A dataset containing 28391 species occurrences available in GBIF matching the query:
{
 "and" : [
 "DatasetKey is DIPOL",
 "Country is Belgium"
 ]
}

 The dataset includes 28391 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001769-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.sq25h1q
title: Data from: Audiovisual synchrony perception in observing human motion to music

description: To examine how individuals perceive synchrony between music and body
 motion, we investigated the characteristics of synchrony perception during
 observation of a Japanese Radio Calisthenics routine. We used the constant
 stimuli method to present video clips of an individual performing an
 exercise routine. We generated stimuli with a range of temporal shifts
 between the visual and auditory streams, and asked participants to make
 synchrony judgments. We then examined which movement-feature points agreed
 with music beats when the participants perceived synchrony. We found that
 extremities (e.g., hands and feet) reached the movement endpoint or moved
 through the lowest position at music beats associated with synchrony.
 Movement onsets never agreed with music beats. To investigate whether
 visual information about the feature points was necessary for synchrony
 perception, we conducted a second experiment where only limited portions
 of video clips were presented to the participants. Participants
 consistently judged synchrony even when the video image did not contain
 the critical feature points, suggesting that a prediction mechanism
 contributes to synchrony perception. To discuss the meaning of these
 feature points with respect to synchrony perception, we examined the
 temporal relationship between the motion of body parts and the ground
 reaction force (GRF) of exercise performers, which reflected the total
 force acting on the performer. Interestingly, vertical GRF showed local
 peaks consistently synchronized with music beats for most exercises, with
 timing that was closely correlated with the timing of movement feature
 points. This result suggests that synchrony perception in humans is based
 on some global variable anticipated from visual information, instead of
 the feature points found in the motion of individual body parts. In
 summary, the present results indicate that synchrony perception during
 observation of human motion to music depends largely on spatiotemporal
 prediction of the performer’s motion.
description: Data of Experiment
 1PSS
 and TIW data from individual participants for 6 exercises. The unit is
 millisecond.Exp1.csvData of Experiment 2PSS and TIW data from individual participants in on-beat condition and pre-beat condition. The unit is millisecond.Exp2.csvData of Experiment 3Temporal difference between music beats and vGRF peaks and that between music beats and relevant movement feature points. Data are shown for all beats (16 beats) of 5 exercises. (5 trials x 3 participants). The unit is second.Exp3.csv
DOI: 10.5061/dryad.2qt04nm
title: Data from: On the diverse and opposing effects of nutrition on pathogen virulence

description: Climate change and anthropogenic activity are currently driving large
 changes in nutritional availability across ecosystems, with consequences
 for infectious disease. An increase in host nutrition could lead to more
 resources for hosts to expend on the immune system or for pathogens to
 exploit. In this paper, we conducted a meta-analysis of studies on
 host-pathogen systems across the tree of life, to examine the impact of
 host nutritional quality and quantity on pathogen virulence. We did not
 find broad support across studies for a one-way effect of nutrient
 availability on pathogen virulence. We thus discuss a hypothesis that
 there is a balance between the effect of host nutrition on the immune
 system and on pathogen resources, with the pivot point of the balance
 differing for vertebrate and invertebrate hosts. Our results suggest that
 variation in nutrition, caused by natural or anthropogenic factors, can
 have diverse effects on infectious disease outcomes across species.
description: Quality
 DataData from the quality
 meta-analysisQuantity
 DataData from the quantity
 meta-analysis
DOI: 10.5061/dryad.73bh2q8
title: Data from: Mathematical modeling for the prediction of cerebral white matter lesions based on clinical examination data

description: Cerebral white matter lesions are ischemic symptoms caused mainly by
 microangiopathy; they are diagnosed by MRI because they show up as
 abnormalities in MRI images. Because patients with white matter lesions do
 not have any symptoms, MRI often detects the lesions for the first time.
 Generally, head MRI for the diagnosis and grading of cerebral white matter
 lesions is performed as an option during medical checkups in Japan. In
 this study, we develop a mathematical model for the prediction of white
 matter lesions using data from routine medical evaluations that do not
 include a head MRI. Linear discriminant analysis, logistic discrimination,
 Naive Bayes classifier, support vector machine, and random forest were
 investigated and evaluated by ten-fold cross-validation, using clinical
 data for 1,904 examinees (988 males and 916 females) from medical checkups
 that did include the head MRI. The logistic regression model was selected
 based on a comparison of accuracy and interpretability. The model
 variables consisted of age, gender, plaque score (PS), LDL, systolic blood
 pressure (SBP), and administration of antihypertensive medication (odds
 ratios: 2.99, 1.57, 1.18, 1.06, 1.12, and 1.52, respectively) and showed
 Areas Under the ROC Curve (AUC) 0.805, the model displayed sensitivity of
 72.0%, and specificity 75.1% when the most appropriate cutoff value was
 used, 0.579 as given by the Youden Index. This model has shown to be
 useful to identify patients with a high-risk of cerebral white matter
 lesions, who can then be diagnosed with a head MRI examination in order to
 prevent dementia, cerebral infarction, and stroke.
description: WM_dataThis file explains all of the variables in the dataset that accompany: Shinkawa Y et al., Mathematical modeling for the prediction of cerebral white matter lesions based on clinical examination data: WM_data.csv.
DOI: 10.5061/dryad.8p20m31
title: Data from: Genome annotation improvements from cross-phyla proteogenomics and time-of-day differences in malaria mosquito proteins using untargeted quantitative proteomics

description: The malaria mosquito, Anopheles stephensi, and other mosquitoes modulate
 their biology to match the time-of-day. In the present work, we used a
 non-hypothesis driven approach (untargeted proteomics) to identify
 proteins in mosquito tissue, and then quantified the relative abundance of
 the identified proteins from An. stephensi bodies. Using these quantified
 protein levels, we then analyzed the data for proteins that were only
 detectable at certain times-of-the day, highlighting the need to consider
 time-of-day in experimental design. Further, we extended our time-of-day
 analysis to look for proteins which cycle in a rhythmic 24-hour
 (“circadian”) manner, identifying 31 rhythmic proteins. Finally, to
 maximize the utility of our data, we performed a proteogenomic analysis to
 improve the genome annotation of An. stephensi. We compare peptides that
 were detected using mass spectrometry but are ‘missing’ from the An.
 stephensi predicted proteome, to reference proteomes from 38 other
 primarily human disease vector species. We found 239 such peptide matches
 and reveal that genome annotation can be improved using proteogenomic
 analysis from taxonomically diverse reference proteomes. Examination of
 ‘missing’ peptides revealed reading frame errors, errors in gene-calling,
 overlapping gene models, and suspected gaps in the genome assembly.
description: ZT0
 replicatesRaw proteomic results
 (n=5) from mosquito bodies collected at ZT0 (dawn).ZT4
 replicatesRaw proteomic results
 (n=5) from mosquito bodies collected at ZT4ZT8
 replicatesRaw proteomic results
 (n=5) from mosquito bodies collected at ZT8ZT12
 replicatesaw proteomic results
 (n=5) from mosquito bodies collected at ZT12 (Dusk)ZT16
 replicatesRaw proteomic results
 (n=5) from mosquito bodies collected at ZT16.ZT20
 replicatesRaw proteomic results
 (n=5) from mosquito bodies collected at ZT20.pools of whole mosquito
 replicatespools.zipAdditional proteomics for identificationAdditional raw proteomics files used for identificationAdditional_proteomics_for_identification.zip.7z
DOI: 10.5061/dryad.g54381n
title: Data from: Neural effects of transcranial magnetic stimulation at the single-cell level

description: Transcranial magnetic stimulation (TMS) can non-invasively modulate neural
 activity in humans. Despite three decades of research, the spatial extent
 of the cortical area activated by TMS is still controversial. Moreover,
 how TMS interacts with task-related activity during motor behavior is
 unknown. Here, we applied single-pulse TMS over macaque parietal cortex
 while recording single-unit activity at various distances from the center
 of stimulation during grasping. The spatial extent of TMS-induced
 activation is remarkably restricted, affecting the spiking activity of
 single neurons in an area of cortex measuring less than 2 mm in diameter.
 In task-related neurons, TMS evokes a transient excitation followed by
 reduced activity, paralleled by a significantly longer grasping time.
 Furthermore, TMS-induced activity and task-related activity do not summate
 in single neurons. These results furnish crucial experimental evidence for
 the neural effects of TMS at the single-cell level and uncover the neural
 underpinnings of behavioral effects of TMS.
description: OriginalData_Romero_Davare_EtAl_NattCommu_2019Single-cell data: combined electrophysiological recordings and single-pulse Transcranial Magnetic Stimulation on parietal area PFG of the macaque monkey. Three major files: mapping of the spatial spread in monkey 1, mapping of the spatial spread in monkey 2 and major control data. Additional control data and raw data will be provided upon request.
DOI: 10.5061/dryad.cf78420
title: Data from: Butterfly abundance declines over 20 years of systematic monitoring in Ohio, USA

description: Severe insect declines make headlines, but they are rarely based on
 systematic monitoring outside of Europe. We estimate the rate of change in
 total butterfly abundance and the population trends for 81 species using
 21 years of systematic monitoring in Ohio, USA. Total abundance is
 declining at 2% per year, resulting in a cumulative 33% reduction in
 butterfly abundance. Three times as many species have negative population
 trends compared to positive trends. The rate of total decline and the
 proportion of species in decline mirror those documented in three
 comparable long-term European monitoring programs. Multiple environmental
 changes such as climate change, habitat degradation, and agricultural
 practices may contribute to these declines in Ohio and shift the makeup of
 the butterfly community by benefiting some species over others. Our
 analysis of life-history traits associated with population trends shows an
 impact of climate change, as species with northern distributions and fewer
 annual generations declined more rapidly. However, even common and
 invasive species associated with human-dominated landscapes are declining,
 suggesting widespread environmental causes for these trends. Declines in
 common species, although they may not be close to extinction, will have an
 outsized impact on the ecosystem services provided by insects. These
 results from the most extensive, systematic insect monitoring programs in
 North America demonstrate an ongoing defaunation in butterflies that on an
 annual scale might be imperceptible, but cumulatively has reduced
 butterfly numbers by a third over 20 years.
description: dryad_butterfly_trendsPopulation indices and code to reproduce analysis of butterfly trends. Sample raw data for showing phenology models used to impute missing surveys. Data and code for figures, tables, and cladogram.
DOI: 10.25430/researchdata.cab.unipd.it.00001748
title: Supporting data for the paper “Multichannel Analysis of Surface Waves (MASW) for the internal characterisation of the Flüela rock glacier: overcoming the limitations of seismic refraction tomography” by Barone et al.

description: This collection includes raw ERT and seismic data for the same survey line at the Fluelapass rock glacier.
DOI: 10.5061/dryad.1h1f63h
title: Data from: Assessment of grain quality in terms of functional group response to elevated [CO2], water and nitrogen using a meta-analysis: Grain protein, zinc and iron under future climate

description: The increasing [CO2] in the atmosphere increases crop productivity.
 However, grain quality of cereals and pulses are substantially decreased
 and consequently compromise human health. Meta-analysis techniques were
 employed to investigate the effect of elevated [CO2] (e[CO2]) on protein,
 zinc (Zn) and iron (Fe) concentrations of major food crops (542
 experimental observations from 135 studies) including wheat, rice,
 soybean, field peas and corn considering different levels of water and
 nitrogen (N). Each crop, except soybean, had decreased protein, Zn and Fe
 concentrations when grown at e[CO2] concentration ( ≥550 μmol mol-1)
 compared ambient [CO2] (a[CO2]) concentration (≤ 380 μmol mol-1). Grain
 protein, Zn and Fe concentrations were reduced under e[CO2], however, the
 responses of protein, Zn and Fe concentrations to e[CO2 ] were modified by
 water stress and N. There was an increase in Fe concentration in soybean
 under medium N and wet conditions but non-significant. The reductions in
 protein concentrations for wheat and rice were ~ 5-10%, and the reductions
 in Zn and Fe concentrations were ~ 3-12%. For soybean, there was a small
 and non-significant increase of 0.37% in its protein concentration under
 medium N and dry water, while Zn and Fe concentrations were reduced by ~
 2-5%. The protein concentration of field peas decreased by 1.7%, and the
 reductions in Zn and Fe concentrations were ~ 4-10%. The reductions in
 protein, Zn and Fe concentrations of corn were ~ 5-10%. Bias in the
 dataset was assessed using a regression test and rank correlation. The
 analysis indicated that there are medium levels of bias within published
 meta-analysis studies of crops responses to Free Air [CO2]Enrichment
 (FACE). However, the integration of the influence of reporting bias did
 not affect the significance or the direction of the [CO2] effects.
description: S1-Database_of_the_meta-analysis-2019
DOI: 10.5061/dryad.32qv88r
title: Data from: The interaction between suction feeding performance and prey escape response determines feeding success in larval fish

description: The survival of larval marine fishes during early development depends on
 their ability to capture prey. Most larval fish capture prey by expanding
 their mouth, generating a suction flow that draws the prey into it. These
 larvae dwell in a hydrodynamic regime of intermediate Reynolds numbers,
 shown to impede their ability to capture non-evasive prey. However, the
 marine environment is characterized by an abundance of evasive prey, such
 as Copepods. These organisms sense the hydrodynamic disturbance created by
 approaching predators and perform high-acceleration escape maneuvers.
 Using a 3D high-speed video system, we characterized the interaction
 between Sparus aurata larvae and prey from a natural zooplankton
 assemblage that contained evasive prey, and assessed the factors that
 determine the outcome of these interactions. 8-33 day post hatching larvae
 preferentially attacked large prey that was moving prior to the
 initialization of the strike, however feeding success was lower for
 larger, more evasive prey. Thus, larvae were challenged in capturing their
 preferred prey. Larval feeding success increased with increasing Reynolds
 numbers, but decreased sharply when the prey performed an escape maneuver.
 The kinematics of successful strikes resulted in a shorter response time
 but higher hydrodynamic signature available for the prey, suggesting that
 strike success in our experiments was determined by brevity rather than
 stealth, i.e. executing a fast strike eliminated a potential escape
 response by the prey. Our observations of prey selectivity as it happens,
 reveal that larval performance, rather than preferences, determines their
 diet during early development.
description: data for Suction feeding
 performance and prey escape responseFile depicts all the
 data used for the analysis in the paper. included are the following
 variables: Larval age (DPH) prey captured (Y/N) prey escape (Y/N) head
 width (mm) prey length (mm) larva length (mm) prey speed (mm/s) prey
 escape speed (mm/s) escaping time (s, from strike initiation time) escape
 distance (mm) time to peak gape (s) mouth opening distance (mm) gape
 opening speed (mm/s) Peak gape (mm) larval speed (mm/s) Re (swimming) Re
 (feeding)