cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.z612jm6fh
title: Environmental stochasticity increases extinction risk to a greater degree in pollination specialists than in generalists

description: Pollination sustains terrestrial food webs and agricultural systems and
 links the dynamics of interacting plant and pollinator species. Although
 environmental stochasticity is ubiquitous and can propagate through
 communities via species interactions in a way that increases extinction
 risk, it is unknown whether stochasticity affects species uniformly across
 pollination networks. In this paper, we introduce a stochastic dynamic
 model that makes novel use of the birth function and apply it to
 pollination networks of increasing size. We start with two- and
 four-species networks, in order to first illustrate the effects of
 stochasticity per se and then how those effects combine with
 specialization. We then describe the relationship between partner number
 and stochastic extinction risk in empirical networks with &gt;20
 species. In the 2-species network, increasing the variance of the
 stochastic term of the model increased the size of the region in parameter
 space where extinctions occur. In networks with 4 or more species,
 specialists were more vulnerable to extinction than generalists over a
 broad range of variances. Extinction risk in networks with &gt;20
 species declined nonlinearly with increasing mutualist partner number. Our
 results demonstrate the importance of including species interactions and
 stochasticity when using population-dynamic models to compare species’
 extinction risk. While models that omit either of these factors are likely
 to underestimate extinction risk, they disproportionately underestimate
 the vulnerability of specialists.
description: Scripts generating model outputs and graphs.
description: Data are in .csv and .mat formats. The latter can be opened using
 MATLAB or Octave. All scripts are either .R or .m. The
 latter can be viewed with a text editor, and executed in either MATLAB or
 Octave.
DOI: 10.5281/zenodo.18246900
title: The Climate Opportunities of Risks of Contrail Avoidance - Output Climate Data Cases 01-09

description: This repository contains climate data that is outputted to the Aviation Climate and Air Quality Impacts model to generate the climate outputs for the journal publication titled The Climate Opportunities and Risks of Contrail Avoidance. The output files in this repository are files 01 to 09 of 36, denoted by the two-digit number at the start of the file.

The climate data that has been deposited relates to the effective radiative forcing and global surface temperature rise due to carbon dioxide emissions from aviation and contrails, produced using Monte Carlo simulations of uncertain parameters, under various contrail avoidance and modified fuel composition scenarios. The data is separated and labelled with respect to these scenarios. Levels of contrail avoidance effectiveness of 0%, 25%, 50% and 75% are labelled as “no_action”, “eff=25%”, “eff=50%”, “eff=75%” respectively. The scenario with a of contrail avoidance effectiveness of 100% is unlabelled. The aviation growth projections (AGPs) of AGP 0.36, AGP 0.29, AGP 0.21 and AGP 0.14 are labelled as “exp_no_sat”, “exp_sat”, “lin” and “no_growth”, respectively. Scenarios that assume a modified fuel composition have the label “SAF”. Fuel burn penalties of 0.35%, 5% and 10% have the labels “0035”, “0500” and “1000”, respectively. Please see The Climate Opportunities and Risks of Contrail Avoidance for more information.
DOI: 10.5061/dryad.zw3r228bc
title: Obuasi case study data: Performance of neutral SNP barcodes to determine genetic diversity and structure of Plasmodium falciparum in Africa

description: A small number of informative biallelic single nucleotide polymorphisms
 (SNPs) have been proposed to be an economical method to fast-track the
 genotyping and relatedness analysis of Plasmodium falciparum in
 malaria-endemic areas. Whilst used successfully in low-transmission areas
 where infections are monoclonal and highly related,  we present
 the first study to evaluate the performance of these 24- and 96-SNP
 molecular barcodes in African countries characterised by moderate-to-high
 transmission. Using haplotypes generated from the MalariaGEN P. falciparum
 Community Project version 6 database, 52.3% of infections were
 multiclonal, generating high frequencies of mixed-allele calls (MACs) per
 isolate. Both multiclonality and low heterozygosity of SNPs impeded
 haplotype construction for analyses of relatedness. Although fewer SNPs
 provided usable data, these SNP barcodes weakly identified genetic
 differentiation across large geographic distances. However, both minor and
 major alleles' frequencies were temporally unstable. We conclude that
 these standardised SNP barcodes are vulnerable to ascertainment bias.
 While large numbers of SNPs acquired by whole-genome sequencing and
 computational methods to construct haplotypes present a way forward, these
 approaches may not be practical or cost-effective for surveillance on
 large scales in malaria-endemic areas.
DOI: 10.15468/dl.wq6e9t
title: Occurrence Download

description: A dataset containing 25 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is one of (China, Mongolia)",
 "Geometry POLYGON((60.12385 25.06629,154.87615 25.06629,154.87615 62.93371,60.12385 62.93371,60.12385 25.06629))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Festuca litvinovii"
 ]
}

 The dataset includes 25 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003204-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.g79cnp5sk
title: Nutritional status among landslide victims in rural Uganda

description: We assessed food insecurity, diet diversity, and the right to adequate
 food among households in communities in Eastern Uganda that were affected
 by major landslides in 2010 and 2018. A prospective cohort study was
 applied to select 422 households during May–August (the food-plenty
 season) of 2019. In January–March (the food-poor season) of 2020, 388
 households were re-assessed. Socio-demographic, food security, diet
 diversity, and right to adequate food data were collected using structured
 questionnaires. Four focus group discussions and key informant interviews
 with 10 purposively sampled duty-bearers explored issues of food
 insecurity, diet, and the right to adequate food. The affected households
 had significantly higher mean (SE) food insecurity scores than controls,
 both during the food plenty season: 15.3 (0.5) vs. 10.8 (0.5), and during
 food-poor season: 15.9 (0.4) vs. 12.5 (0.0). The affected households had
 significantly lower mean (SE) diet diversity scores than controls during
 the food plenty season: 5.4 (0.2) vs. 7.5 (0.2) and during the food poor
 season: 5.2 (0.2) vs. 7.3 (0.1). Multivariate analyses showed that the
 disaster, education, and main source of livelihood, significantly
 predicted household food security and diet diversity during the
 food-plenty season whereas during the food-poor season, the disaster and
 education were predictors. During both food seasons, the majority of
 affected and control households consumed unsafe food. Cash-handout was the
 most preferred for ensuring the right to adequate food. Comprehension and
 awareness of human rights principles and state obligations were low. The
 severity of food-insecurity and diet diversity differed significantly
 between the affected and control households during both food seasons.
 Moreover, the right to adequate food for landslide victims was not
 sufficiently realized. There is a need to cater to seasonal variations,
 disaster effects, and the right to adequate food in order to reduce
 landslide victims’ vulnerability to food insecurity and poor diet
 diversity.
description: The data were collected by trained fieldworkes who visited the
 study ares twice, 6 months apart.  More details can be found in the
 Method-section of the paper.
description: The data files are in the form of Excel files.
DOI: 10.5061/dryad.w3r2280tq
title: The power of vision: Calibration of auditory space after sight restoration from congenital cataracts

description: Early visual deprivation typically also results in impaired spatial
 cognition in the other sensory modalities (e.g., audition). It has been
 suggested that this happens because, since vision provides the most
 accurate spatial information, it is also used as a reference for
 calibrating space in the other sensory modalities during development. Here
 we found that sight restoration after several years of early-onset visual
 deprivation can lead to the development of more accurate and precise
 auditory space perception. In two experiments we assessed auditory space
 perception in individuals who suffered from congenital bilateral cataracts
 and got surgically treated for sight restoration several years after
 birth.
description: Experiment 1 assessed
 participants’ ability to judge the relative position of a sound (the
 probe) within a sequence of three laterally separated sounds presented
 sequentially (auditory bisection task). In each trial, participants were
 asked to report whether the second sound (probe) was closer to the first
 (left) or third (right) sound. The file ‘Exp1_bisection’ reports all
 experimental trials, meaning each single response from each participant in
 each group for each stimulus presentation: the columns report the sequence
 of participants, participants’ ID, the condition (group) of the
 participant at the time of the test (0=blind; 1=pre-op, i.e., tested
 before surgery; 2=post-op, i.e., tested after surgery; 3=sighted
 participants), position of the probe (i.e., the position–in degrees–in
 which the probe was presented, among 8 possible positions), and
 participant’s response (0=probe closer to the first (left) sound, 1= probe
 closer to the third (right) sound). Experiment 2 tested participants’
 ability to localize single sound sources (‘Exp2_auditory_pointing’) and
 single flashes (‘Exp2_visual_pointing’), in two separate blocks. In each
 trial, participants were presented–for a few seconds– with one stimulus
 that could be presented at any location within a large setup in their
 frontal plane. After the stimulus disappeared, participants (blindfolded)
 had to point and reach the location on the setup where they believed the
 stimulus was presented. The files for each condition (visual, auditory)
 report for each trials: the sequence of participants, participants’ ID,
 the condition (group) they belonged at the time of the test (1=pre-op;
 2=post-op; 3=sighted participants), sensory modality (1=vision, 2=
 audition), the position of the target along the azimuth (x-axis), the
 position of the target in the elevation (y-axis), the position of
 participant’s response along the azimuth (x-axis), the position of
 participant’s response in the elevation (y-axis), and linear error
 (absolute distance in cm) between target’s position and response’s
 position. MATLAB codes (& .txt files as input for the codes) are
 also provided.
DOI: 10.5061/dryad.2v6wwpzrw
title: Contrasting impacts of warming and browning on periphyton

description: We tested interactive effects of warming (+2°C) and browning on periphyton
 accrual and pigment composition when grown on a synthetic substrate
 (plastic strips) in the euphotic zone of sixteen experimental ponds. We
 found that increased DOC alone, or in combination with warming, resulted
 in a substantially enhanced biomass accrual of periphyton, illustrating
 that periphyton is capable of using nutrients associated with DOC, and by
 this may affect nutrient availability for phytoplankton. However, warming
 weakened the positive impact of DOC on periphyton accrual, possibly by
 thermal compensation inferred from altered pigment composition, and/or
 changes in community composition. Our results illustrate that impacts of
 climate change on algal growth are multiple, which could have implications
 for productivity and consumer resource use, especially in shallow areas in
 northern lakes.
description: Phytoplankton: Phytoplankton chla measurements by filtering 100
 mL water, measured using spectrofluorometer (Perkin Elmer LS-55, MA,
 U.S.A.) with 433nm as excitation and 673nm as emission
 wavelength. Periphyton: periphyton grown on plastic
 strips (60cm long, 10cm wide, and 0.75mm thick, excluded the algae growing
 on the top 10cm), measured pigments (chla, chlc, fucoxanthin) on three
 dates, at each date a strip that has been introduced is harvested, i.e. no
 strips that have been harvested before were measured. Duplicate or
 quadruplicate measurements per pond.
DOI: 10.5061/dryad.jwstqjqct
title: Data from: Effects of manipulated food availability and seasonality on innate immune function in a passerine

description: 1. The innate immune system is essential for survival, yet many immune
 traits are highly variable between and within individuals. In recent
 years, attention has shifted to the role of environmental factors in
 modulating this variation. A key environmental factor is food
 availability, which plays a major role in shaping life-histories, and may
 affect resource allocation to immune function through its effect on
 nutritional state. 2. We developed a technique to permanently increase
 foraging costs in seed-eating birds, and leveraged this technique to study
 the effects of food availability on the innate immune system over a
 three-year period in 230 zebra finches housed in outdoor aviaries. The
 immune components we studied were haptoglobin, ovotransferrin, nitric
 oxide, natural antibodies through agglutination, complement-mediated
 lysis, and killing capacity of Escherichia coli and Candida albicans,
 covering a broad spectrum of the innate immune system. We explored effects
 of food availability in conjunction with other potentially important
 variables: season, age, sex, and manipulated natal brood size. 3.
 Increased foraging costs affected multiple components of the immune
 system, albeit in a variable way. Nitric oxide and agglutination levels
 were lower under harsh foraging conditions, while Escherichia coli killing
 capacity was increased. Agglutination levels also varied seasonally, but
 only at low foraging costs. C. albicans' killing capacity was lower
 in winter, and even more so for animals in harsh foraging conditions that
 were raised in large broods. Effects of food availability on
 ovotransferrin were also seasonal, and only apparent in males. Haptoglobin
 levels were independent of foraging costs and season. 4. Males had higher
 levels of immune function than females for 3 of the measured immune
 traits. Innate immune function was independent of age and manipulated
 natal brood size. 5. Our finding that food availability affects innate
 immune function suggests that fitness effects of food availability may at
 least partially be mediated by effects on the immune system. However, food
 availability effects on innate immunity varied in direction between
 traits, illustrating the complexity of the immune system and precluding
 conclusions on the level of disease resistance.
description: For detailed information on methods, see Driessen et al. Journal
 of Animal Ecology, 2022 In short, blood from
 zebrafinches housed under in different foraging environments was collected
 biannually over three years. An array of innate immune
 measures was performed on the blood samples.
description: Use R to open the datafile. Immune measures
 and many dependent variables were median centered and divided by the
 standard deviation before analysis.
DOI: 10.5061/dryad.v15dv41zv
title: Worker survival and egg production depending on the diet

description: Aging is associated with diverse molecular processes such as oxidative
 damage, a decrease in immunocompetence, or an increase in epigenetic
 abnormalities, mutations, and inflammations. Many of these processes are
 linked to nutrient-sensing signaling pathways, suggesting that diet plays
 a critical role in the aging process. In fact, the protein content in the
 diet can affect both longevity and fecundity, but often in opposite
 directions. In many solitary organisms, protein-rich diets dramatically
 shorten lifespan but increase egg production. We used the ant Temnothorax
 rugatulus to investigate the effect of the protein-to-carbohydrate ratio
 in the diet on the survival and fecundity of fertile workers. We fed
 colonies either a moderately high-carbohydrate or high-protein diet (1:2
 and 2:1 respectively) and monitored worker survival and egg production
 over nine weeks. The protein-rich diet did not alter the ability of
 workers to lay eggs, but reduced worker survival, suggesting that
 consuming large amounts of protein may shorten the lifespan in
 fertile ant workers without promoting reproduction. Our study shows for
 the first time that a protein-rich diet reduces the overall fitness of
 fertile workers.
DOI: 10.5061/dryad.mgqnk992h
title: Great hammerhead and shortfin mako gene annotation files

description: These preliminary annotation gff files of great hammerhead and shortfin
 mako chromosome-level genomes are presented here, in hopes of being an
 asset to the shark genomics community. These annotations were not used for
 analysis in our associated paper which focused on conservation genomic
 analyses involving levels of heterozygosity and demographic history of
 these two species. These annotations should be regarded as preliminary
 because of the paucity of quality tissue samples that were available to
 us, from these endangered species, to acquire multiple sets of
 transcriptomic data. As a result, this hammerhead annotation identifies
 genes using ab initio predictions from the Maker2 pipeline (employing
 Augustus and EvidenceModeler) combined with a single tissue transcriptome
 for training the Augustus gene model (see Stanhope et al. for further
 details), and evidence-based predictions for mako, using Stringtie2,
 employing the limited RNA-seq available. The majority of the genes
 reported here could nonetheless prove beneficial for a variety of
 comparative analyses, however, the genomes should not be considered
 thoroughly annotated and the full gene structure should be validated prior
 to use for targeted analyses. The entire mako annotation is presented
 (27,804 protein coding genes). A subset of the hammerhead ab
 initio gene prediction pipeline is presented, representing a
 total of 26,110 protein coding genes, that were supported by blast
 evidence in the hammerhead heart transcriptome sequences. Additionally,
 the gff file contains repeats that were soft masked using RepeatMasker
 prior to annotation per the methods in Stanhope et al.
DOI: 10.5061/dryad.qrfj6q5k5
title: Clinical, technical, and implementation characteristics of real-world health applications using FHIR

description: Fast Healthcare Interoperability Resources (FHIR) has received vast
 support globally, with a growing number of use cases implemented
 throughout various healthcare settings. To assess the use of real-world
 FHIR applications (apps) implemented in practice, we distributed an
 electronic survey to FHIR developers and implementers. The data includes
 characteristics of 112 FHIR apps, including health domain, target
 audience, terminologies, FHIR specifications, implementation details, and
 types of organizations developing with FHIR. This repository includes the
 survey dataset and survey codebook.
description: These data were generated from a Research Electronic Data Capture
 (REDCap®) electronic survey among FHIR app developers and implementers.
 The survey was distributed globally via email using snowball sampling and
 to FHIR app developers among our professional contacts. We defined a FHIR
 app as a software application that uses FHIR as its interface to the data
 it requires and is designed for a human end user (patient, provider, or
 other individual) involved in patient care or related services. Inclusion
 criteria were apps that 1) reported using FHIR, 2) focused on healthcare
 (clinical, administrative, patients/caregivers, research, or educational
 applications), 3) had real-world users (including in pilot mode), and 4)
 had an English-language version available. Apps were excluded if they were
 in conceptual or planning phases.
description: Please refer to the ReadMe file.
DOI: 10.15468/dl.2pk6pj
title: Occurrence Download

description: A dataset containing 24469 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "or" : [
 "Geometry POLYGON((0.59467 45.28742,0.77534 45.28742,0.77534 45.4681,0.59467 45.4681,0.59467 45.28742))",
 "Geometry POLYGON((0.26777 45.37582,0.34276 45.37582,0.34276 45.44644,0.26777 45.44644,0.26777 45.37582))"
 ]
 },
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Animalia"
 ]
}

 The dataset includes 24469 records from 242 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003205-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.tbu3ut
title: Occurrence Download

description: A dataset containing 191843 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Astragalus",
 "Geometry POLYGON((-119 32, -93 32, -93 50, -119 50, -119 32))"
 ]
}

 The dataset includes 191843 records from 233 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002352-260129131611470/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.5jp7qd
title: Occurrence Download

description: A dataset containing 3551 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Mexico",
 "DatasetKey is iNaturalist Research-grade Observations",
 "OccurrenceStatus is Present",
 "TaxonKey is Didelphis virginiana"
 ]
}

 The dataset includes 3551 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002437-260129131611470/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.sypts6
title: Occurrence Download

description: A dataset containing 22 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "or" : [
 "PublishingCountry is Canada",
 "Country is Canada"
 ]
 },
 {
 "and" : [
 "PublishingCountry is one of (Canada)",
 "StateProvince is one of (Québec, Québec (Prov.), Quebec (Prov.), Quebec)",
 "TaxonKey is one of (Potamogeton crispus [GBIF Backbone Taxonomy])",
 "BasisOfRecord is one of (Human Observation, Observation)",
 "VerbatimScientificName is one of (anthriscus sylvestris, phragmites australis, ambrosia artemisiifolia, phragmites australis australis, butomus umbellatus, hydrocharis morsus-ranae, galium mollugo, myriophyllum spicatum, potamogeton crispus, ambrosia artemisiifolia l.)"
 ]
 }
 ]
}

 The dataset includes 22 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002436-260129131611470/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.48331/scielodata.xnt5jn/qfbzjh
title: Selecao_de_resultados_Figura _01.jpeg

description: Resumo dos resultados.
DOI: 10.48331/scielodata.xnt5jn/xdrj8g
title: Tabela_dados_numero_de_processos_

description: Tabela de compilado dos resultados dos julgados.
DOI: 10.48331/scielodata.xnt5jn/nizz4d
title: Acordaos_arquivo_de_resultados_.pdf

description: Material complementar de resultado.
DOI: 10.48331/scielodata.xnt5jn/xglfs8
title: READ ME.txt