cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.bk3j9kdd0
title: Left ventricular MRI segmentations

description: Hypertrophic cardiomyopathy (HCM) causes sudden cardiac death (SCD) due to
 ventricular arrhythmias (VA) manifesting from myocardial fibrosis
 proliferation. Current clinical risk stratification criteria inadequately
 identify at-risk patients in need of primary prevention of VA. Here, we
 use mechanistic computational modeling of the heart to analyze how
 HCM-specific remodeling of the heart promotes arrhythmogenesis and to
 develop a personalized strategy to forecast risk of VAs in these patients.
 We combine contrast-enhanced cardiac magnetic-resonance (CMR) imaging and
 T1 mapping data to construct digital replicas of HCM patient hearts that
 represent the patient-specific distribution of focal and diffuse fibrosis
 and evaluate the substrate propensity to VA. Our analysis indicates that
 the presence of diffuse fibrosis, which is rarely assessed in these
 patients, increases arrhythmogenic propensity. In forecasting future VA
 events in HCM patients, the imaging-based computational heart approach
 achieved 84.6%, 76.9%, and 80.1% sensitivity, specificity, and accuracy,
 respectively, and significantly outperformed current clinical risk
 predictors. This novel VA risk assessment may have the potential to
 prevent SCD and help deploy primary prevention appropriately in HCM
 patients.
description: Left ventricular (LV) volumes from short-axis LGE-CMR scans and
 post-contrast T1 maps were segmented using CardioViz3D
 (http://www-sop.inria.fr/asclepios/software/CardioViz3D/). LV
 segmentations (metaimage files) were semi-automatically generated for each
 patient included in this dataset.
description: The segmented MRI images of the LV can be used to generate the
 finite element meshes used in this study. LGE LV Tag = 1; T1 LV Tag =
 255.
DOI: 10.5061/dryad.mkkwh711f
title: Data from: Integrating water quality monitoring and diatom community trends to determine landscape-level change in protected lakes.

description: These data represent water quality measurements and diatom counts from
 surface sediments collected from lakes in five National Park units in the
 Great Lakes Region (USA) between 2005 and 2018.  Water quality
 measurements were made three times annually during the growing season;
 data are presented as growing season means.  Surface sediment
 samples were collected from the same lakes every 3-5 years over more than
 a decade to analyze diatom community turnover.  Diatom data are
 presented as proportions relative to total diatom counts in each sample;
 only taxa occuring at 2% or greater in a given park were
 included.    
description: Detailed methods for data collection and data processing are in
 the associated README text file. 
description: Please see the associated README text file.
DOI: 10.25338/b8gk8q
title: Past insecticide exposure reduces bee reproduction and population growth rate

description: Pesticides are linked to global insect declines, with impacts to
 biodiversity and essential ecosystem services. In addition to
 well-documented direct impacts of pesticides at the current stage or time,
 potential delayed “carryover” effects from past exposure at a different
 life stage may augment impacts to individuals and populations. We
 investigated the effects of current exposure and the carryover effects of
 past insecticide exposure on the individual vital rates and population
 growth of the solitary bee, Osmia lignaria. Bees in flight cages
 freely foraged on wildflowers, some treated with the common insecticide,
 imidacloprid, in a fully crossed-design over two years, with insecticide
 exposure or no exposure in each year. Insecticide exposure reduced
 reproduction, directly to foraging adults and via carryover effects from
 past exposure. Repeated exposure across two years additively impaired
 individual performance, leading to a nearly four-fold reduction in bee
 population growth. Exposure to even a single insecticide application can
 have persistent effects on vital rates and reduce population growth for
 multiple generations. Carryover effects had profound implications for
 population persistence and must be considered in risk assessment,
 conservation, and management decisions for pollinators to mitigate effects
 of insecticide exposure.
DOI: 10.5061/dryad.4qrfj6qbb
title: Data for: Plant-soil biota interactions explain shifts in plant community composition under global change

description: 1. Plant-soil biota interactions play a crucial role in the assembly of
 plant communities and the maintenance of plant species diversity. However,
 few studies have tested how the effect of soil biota on plant species and
 communities depend on environmental context and whether shifts in plant
 community composition caused by environmental change are associated with
 variation in plant-soil biota interactions. 2. We combined a field
 experiment in a Tibetan alpine meadow and a greenhouse experiment with
 factorial combinations of nitrogen (N) enrichment and warming to examine
 the role of plant-soil biota interactions in plant community dynamics. 3.
 The results showed that plant relative abundances were negatively
 correlated with the net effects of soil biota on plant growth but only
 under ambient field conditions. Warming and N-enrichment alleviated the
 negative soil biota effects in the greenhouse, and changed plant community
 composition and reduced species diversity in the field. Importantly,
 changes in soil biota effects on plant growth were positively correlated
 with changes in plant relative abundances caused by warming and
 N-enrichment in field. In a parallel field experiment, the diversity of
 mycorrhizal fungi increased while the diversity of fungal pathogens
 remained unchanged under warming and N-enrichment, indicating that soil
 biodiversity may play a critical role in plant responses to environmental
 change. 4. This study empirically demonstrates that altered plant-soil
 biota interactions explain shifts in plant community composition under
 global change, providing new insights into the mechanisms of diversity
 loss in a changing world.
DOI: 10.34740/kaggle/dsv/14647326
title: e-IPO Indonesia Data - Investment
DOI: 10.5061/dryad.gqnk98sp1
title: Data from: Low-cost automated flight intercept trap for the temporal sub-sampling of flying insects attracted to artificial light at night

description: Sampling methods are selected depending on the targeted species or the
 spatial and temporal requirements of the study. However, most methods for
 passive sampling of flying insects have poor temporal resolution because
 it is time consuming, costly and/or logistically difficult. Effective
 sampling of flying insects attracted to artificial light at night (ALAN)
 requires sampling at user-defined time points (nighttime only) across
 well-replicated sites resulting in major time and labor-intensive survey
 effort or expensive automated technologies. Described here is a low-cost
 automated intercept trap that requires no specialist equipment or skills
 to construct and operate, making it a viable option for studies that
 require temporal sub-sampling across multiple sites. The trap can be used
 to address a wide range of other ecological questions that require a
 greater temporal and spatial scale than is feasible with previous trap
 technology.
description: DELWP approval (Bat & Insect activity under experimental
 lighting)- 10009741 Experimental lighting installed at
 4 sites across Melbourne (100 Acres, Currawong bush park, Gresswell nature
 reserve & La Trobe wildlife santtuary) by S. Griffiths &
 A. Dimovksi. Insect traps built by K. Robert & J. Robert with
 Modifications made by S. Griffiths, A. Dimovoski, J. Robert & K.
 Robert. Data collection over 3 days and 3 nights (30.3.21 - 2.4.21). On
 automated pet dispenser - tray 1, 3, 5 collect nocturnal samples and trays
 2, 4, 6 collect diurnal samples
description: Name Unit/Code Explanation Date d/m/yy Date trap collected Site 100A/Curr/Gress/LTWS Field site (100 acres, Currawong bush park, Gresswell Nature Reserve, La Trobe Wildlife Sanctuary) Treatment C/A/HW/LW Light treatment (Control, Amber, High white, Low white) Tray # Automated collection tray, numbered 1-6 Arthropods # Number of individuals counted (Ants and Spiders excluded) Time D/N D = dirunal, N = nocturnal
DOI: 10.15468/dl.jw29ta
title: Occurrence Download

description: A dataset containing 7 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "Country is China",
 "TaxonKey is Sanguisorba applanata"
 ]
}

 The dataset includes 7 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002948-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.sf7m0cg78
title: In vitro cell cycle oscillations exhibit a robust and hysteretic response to changes in cytoplasmic density

description: Cells control the properties of the cytoplasm to ensure proper functioning
 of biochemical processes. Recent studies showed that cytoplasmic density
 varies in both physiological and pathological states of cells undergoing
 growth, division, differentiation, apoptosis, senescence, and metabolic
 starvation. Little is known about how cellular processes cope with these
 cytoplasmic variations. Here, we study how a cell cycle oscillator
 comprising cyclin-dependent kinase (Cdk1) responds to changes in
 cytoplasmic density by systematically diluting or concentrating cycling
 Xenopus egg extracts in cell-like microfluidic droplets. We found that the
 cell cycle maintains robust oscillations over a wide range of deviations
 from the endogenous density: as low as 0.2× to more than 1.22× relative
 cytoplasmic density (RCD). A further dilution or concentration from these
 values arrested the system in a low or high steady state of Cdk1 activity,
 respectively. Interestingly, diluting an arrested cytoplasm of 1.22× RCD
 recovers oscillations at lower than 1× RCD. Thus, the cell cycle switches
 reversibly between oscillatory and stable steady states at distinct
 thresholds depending on the direction of tuning, forming a hysteresis
 loop. We propose a mathematical model which recapitulates these
 observations and predicts that the Cdk1/Wee1/Cdc25 positive feedback loops
 do not contribute to the observed robustness, supported by experiments.
 Our system can be applied to study how cytoplasmic density affects other
 cellular processes.
description: This dataset contains metadata after image processing, including
 segmentation and tracking of single droplets. Segmentation was achieved by
 a watershed algorithm with a seed generated from the Hough circle
 detection. Tracking was performed by maximizing the segmentation feature
 correlation between two consecutive time frames. Average fluorescent
 intensity profiles of droplets were then extracted for further analysis.
 All analysis above is performed on MatLab 2019a or Python
 3.7.10. This dataset contains 3 different levels of
 simplification, 1. raw data right after image processing. 2. cycle
 description after semi-automatic peak detection and oscillatory feature
 calculation. 3. droplet-level statistics after peak detection. For each
 independent experiment, one or more levels of simplification may be
 provided. See 'Data_structure_for_experimental_data.docx' for
 detailed information about the simplification level of the dataset and
 data structure annotation.
description: This dataset mainly consists of two types of files, MatLab
 metadata (*.mat ) and Osci data (*.txt) after image processing and MatLab
 scripts (*.m) to generate figures.  The dataset is
 categorized based on figures. The data structures are described in the
 "Data_structure_for_experimental_data.docx" file.
DOI: 10.5061/dryad.8pk0p2np4
title: Data from: Influence of different data cleaning solutions of point-occurrence records on downstream macroecological diversity models

description: Digital point-occurrence records from the Global Biodiversity Information
 Facility (GBIF) and other data providers enable a wide range of research
 in macroecology and biogeography. However, data errors may hamper
 immediate use. Manual data cleaning is time-consuming and often
 unfeasible, given that the databases may contain thousands or millions of
 records. Automated data cleaning pipelines are therefore of high
 importance. This study examined the extent to which cleaned data from six
 pipelines using data cleaning tools (e.g., the GBIF web application,
 different R packages) affect downstream species distribution models. In
 addition, we assessed how the pipeline data differ from expert data. From
 13,889 North American Ephedra observations in GBIF, the pipelines removed
 31.7% to 62.7% false-positives, invalid coordinates, and duplicates,
 leading to data sets that included between 9,484 (GBIF application) and
 5,196 records (manual-guided filtering). The expert data consisted of 703
 thoroughly handpicked records, comparable to data from field studies.
 Although differences in the record numbers were relatively large, stacked
 species distribution models (sSDM) from the pipelines and the expert data
 were strongly related (mean Pearson's r across the pipelines: 0.9986,
 versus the expert data: 0.9173). The ever-stronger correlations resulted
 from occurrence information that became increasingly condensed in the
 course of the workflow (from individual occurrences to collectivized
 occurrences in grid cells to predicted probabilities in the sSDMs). In
 sum, our results suggest that the R package-based pipelines reliably
 identified invalid coordinates. In contrast, the GBIF-filtered data still
 contained both spatial and taxonomic errors. However, major drawbacks
 emerge from the fact that no pipeline fully discovered misidentified
 specimens without the assistance of expert taxonomic knowledge. We
 conclude that application-filtered GBIF data will still need additional
 review to achieve higher spatial data quality. Achieving high-quality
 taxonomic data will require extra effort, probably by thoroughly analyzing
 the data for misidentified taxa, supported by experts.
description: The North American Ephedra records were selected from a New World
 Ephedra data set, courtesy of Professor Ickert-Bond. Reviewed herbarium
 vouchers and observations were the basis of the overall data
 set.
description: Follow the manuscript instructions
DOI: 10.5061/dryad.7d7wm37w7
title: Morpho-functional traits of the coral Stylophora pistillata enhance light capture for photosynthesis at mesophotic depths

description: The morphological architecture of photosynthetic corals modulates the
 light capture and functioning of the coral-algal symbiosis on
 shallow-water corals. Since corals can thrive on mesophotic reefs under
 extreme light-limited conditions, we hypothesized that microskeletal coral
 features enhance light capture under low-light environments. Utilizing
 micro-computed tomography scanning, we conducted a novel comprehensive
 three-dimensional (3D) assessment of small-scale skeleton morphology of
 the depth-generalist coral Stylophora pistillata collected from shallow
 (4-5 m) and mesophotic (45-50 m) depths. We detected a high phenotypic
 diversity between depths, resulting in two distinct morphotypes, with
 calyx diameter, theca height, and corallite marginal spacing contributing
 to most of the variation between depths. To determine whether such
 depth-specific morphotypes affect coral light capture and photosynthesis
 on the corallite-scale, we developed 3D simulations of light propagation
 and photosynthesis. We found that microstructural features of corallites
 from mesophotic corals provide a greater ability to use solar energy under
 light-limited conditions; while corals associated with shallow morphotypes
 avoided excess light through self-shading skeletal architectures and the
 results from our study suggest that skeleton morphology plays a key role
 in coral photoadaptation to light limited environments.
DOI: 10.5061/dryad.41ns1rnf9
title: Birds may decorated their nest to exploit a fear of feathers

description: This dataset contains data from experiments carried out in a woodland area
 and described in the paper: “T. Slagsvold, and Wiebe, K. L. (2021)
 "Nest decoration: birds exploit a fear of feathers to guard their
 nest from usurpation".  The experiments investigated a new
 hypothesis, namely that some cavity nesting birds, like titmice, add
 feathers on the top of their nest to prevent usurpation by triggering a
 fear response in their rivals. We presented pied flycatchers (Ficedula
 hypoleuca), blue tits  (Cyanistes caeruleus) and tree swallows
 (Tachycineta bicolor) that were prospecting for a nest site in spring with
 a dyad of nest boxes, to study whether they hesitated to enter a box
 depending on the content of feathers. Main results of the experiments were
 that (1) all three species hesitated to enter boxes with white feathers.
 (2) A similar avoidance of white feathers was found when the alternate
 nest box of a dyad held black feathers. (3) However, the birds readily
 collected white feathers that we placed on the ground in front of their
 nest box, showing the fear of such feathers was context-dependent. We
 suggest that naive prospecting birds may perceive feathers in nests as the
 result of a predation event, and that owners decorate nests with bright
 feathers that can be seen from the opening to deter others from entering.
description: The dataset was collected
 using extensive video filming of nest boxes provided in woodland areas in
 Norway and Canada, as part of a project on cavity nesting birds at Centre
 for Ecological and Evolutionary Synthesis (CEES), Department of
 Biosciences, University of Oslo, Norway, and at Department of Biology,
 University of Saskatchewan, Saskatoon, Canada. From the videos we recorded
 when a nest box was first visited and first entered.
description: The readme file contains an explanation of each of the variables
 in the dataset, and its measurement units. Information on how the
 measurements were done can be found in the associated paper referenced
 above.
DOI: 10.5061/dryad.ksn02v752
title: Plant litter influences the temporal stability of plant community biomass in an alpine meadow by altering the stability and asynchrony of plant functional groups

description: ​​​The stability of a plant community is defined as its ability to resist
 and be resilient to changes. Plant community stability can be driven by a
 range of external perturbations as well as by plant community traits.
 Plant litter traits (species or mass) are widely recognized drivers for
 plant community composition and diversity changes in grasslands. Yet, the
 effects of litter traits on the temporal stability of plant communities in
 natural grasslands are largely unknown.  In this study, a field
 experiment was conducted at an alpine meadow on the Qinghai Tibetan
 Plateau to quantify the effects of litter from Elymus nutans, Kobresia
 setchwanensis and Ligularia virgaurea on the temporal stability of plant
 community biomass at five different mass levels (0, 100, 200, 400 and 600
 g m−2). The experiment was conducted over the period from the pre-growth
 to peak–growth stage between 2017 and 2019, during which temporal
 stability of plant community biomass was assessed in relation to plant
 community characteristics. The effects of litter on temporal stability of
 plant community biomass were mainly driven by the litter mass rather than
 the litter species. A hump-shaped relationship between litter mass and
 temporal stability of plant community biomass was found, with the highest
 stability under intermediate litter mass treatment (200 g m−2). A
 structural equation model identified this response was driven by the
 indirect effects of litter mass on the temporal stability of the biomass
 of the dominant (forbs) and subdominant (grasses) functional groups in the
 community and the asynchrony of plant functional groups. The results of
 this study demonstrate that plant litter traits are important drivers for
 maintaining plant community stability in natural grasslands, highlighting
 the importance of grassland management decisions (e.g., grazing intensity)
 relating to the quantity and quality of litter accumulation.
DOI: 10.5061/dryad.f4qrfj6wz
title: Enforced monoandry and female investment into reproduction

description: While uncovering the costs and benefits of polyandry has attracted
 considerable attention, assessing the net effect of sexual selection on
 population fitness requires the experimental manipulation of female mating
 over generations, which is usually only achievable in laboratory
 populations of arthropods. However, knowing if sexual selection improves
 or impairs the expression of life history traits is key for the management
 of captive populations of endangered species, which are mostly long-lived
 birds and mammals. It might therefore be questionable to extrapolate the
 results gathered on laboratory populations of insects to infer the net
 effect of sexual selection on populations of endangered species. Here, we
 used a longitudinal dataset that has been collected on a long-lived bird,
 the houbara bustard, kept in a conservation breeding program, to
 investigate the effect of enforced monoandry on female investment into
 reproduction. In captivity, female houbara bustards are artificially
 inseminated with sperm collected from a single male (enforced monoandry),
 or sequentially inseminated with semen of different males (polyandry),
 allowing post-copulatory sexual selection to operate. We identified female
 lines that were produced either by monoandrous or polyandrous
 inseminations over three generations, and we compared reproductive
 investment of females from the two mating system groups. We found that
 females in the polyandrous lines had higher investment into reproduction
 as they laid more eggs per season and produced heavier hatchlings. Higher
 reproductive investment into reproduction in the polyandrous lines did not
 result from inherited differences from females initially included in the
 two mating system groups. These results show that removal of sexual
 selection can alter reproductive investment after only few generations,
 potentially hindering population fitness and the success of conservation
 breeding programs.