cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.k5d0rp0
title: Data from: Drowning mortality by intent: a population-based cross-sectional study of 32 OECD countries, 2012–2014

description: Objective: To compare the drowning mortality rates and proportion of
 deaths of each intent among all drowning deaths in Organisation for
 Economic Co-operation and Development (OECD) countries in 2012–2014.
 Design: A population-based cross-sectional study. Setting: 32 OECD
 countries. Participants: Individuals in OECD countries who died from
 drowning. Main outcome measures: Drowning mortality rates (deaths per
 100,000 population) and proportion (%) of deaths of each intent (i.e.,
 unintentional intent, intentional self-harm, assault, undetermined intent,
 and all intents combined) among all drowning deaths. Results: Countries
 with the highest drowning mortality rates (deaths per 100,000 population)
 were Estonia (3.53), Japan (3.49), and Greece (2.40) for unintentional
 intent; Ireland (0.96), Belgium (0.96), and Korea (0.89) for intentional
 self-harm; Austria (0.57), Korea (0.56), and Hungary (0.44) for
 undetermined intent; and Japan (4.35), Estonia (3.70), and Korea (2.73)
 for all intents combined. Korea ranked 12th and third for unintentional
 intent and all intents combined, respectively. By contrast, Belgium ranked
 second and 15th for intentional self-harm and all intents combined,
 respectively. The proportion of deaths of each intent among all drowning
 deaths in each country varied greatly: from 26.2% in Belgium to 96.8% in
 Chile for unintentional intent; 0.7% in Mexico to 57.4% in Belgium for
 intentional self-harm; 0.0% in nine countries to 4.9% in Mexico for
 assault; and 0.0% in Israel and Turkey to 38.3% in Austria for
 undetermined intent. Conclusions: A large variation in the practice of
 classifying undetermined intent in drowning deaths across countries was
 noted and this variation hinders valid international comparisons of
 intent-specific (unintentional and intentional self-harm) drowning
 mortality rates.
description: OECD drowning
 mortalityDrowning mortality rates
 by intent among OCED countries
DOI: 10.5061/dryad.7b410
title: Data from: Local demographic and epidemiological patterns in the Linum marginale – Melampsora lini association – a multi-year study

description: 1.Many theoretical and empirical studies operate from an assumption that
 pathogens have a significant influence on the fecundity and lifespan of
 their host species. However, there is surprisingly little data
 investigating the long-term fitness impacts and genetic consequences that
 arise from pathogen infection in natural populations. Here, we address
 this gap through the analysis of a dataset investigating the local
 population dynamics of a native host plant (Linum marginale) and an
 associated rust pathogen (Melampsora lini) across 12 years. 2.To
 investigate patterns of disease prevalence and severity and track effects
 on host fecundity and demography we conducted censuses on an annual basis
 at a single site. Annual M. lini infection prevalence ranged from 0% to
 99%. Severe epidemics occurred in 3-4 year cycles causing high
 overwintering mortality and subsequent changes in the relative abundance
 of different host phenotypes. Host population size oscillated in response
 to epidemics and declined towards the end of the observation period.
 Changes in host numbers were found to affect disease severity but not
 infection prevalence. 3.Melampsora lini infection increased L. marginale
 fecundity; the infected plants produced three fold more seed capsules on
 average than uninfected plants (13.3 vs 4.3 seed capsules per plant). 4.To
 investigate how variation in environmental conditions affects epidemiology
 and host demography, we identified climatic factors affecting host growth,
 overwintering, and disease severity. Winter (June) rainfall increased host
 overwintering success and summer (December) rainfall favoured host growth.
 The progress of Melampsora lini disease epidemics benefited from optimal
 temperatures in February and suffered from rainfall in January. 5.We
 further examined links between the genetic structure of the pathogen
 population and disease dynamics. There was a positive correlation between
 mean pathogen infectivity (as measured across a host differential set) and
 the severity of disease epidemics. 6.Synthesis. Our results provide new
 insights into local drivers and consequences of pathogen epidemiology in
 natural populations. Melampsora lini infection can have profound
 consequences on the phenotype, demography and population structure of
 Linum marginale by increasing host fecundity, overwinter mortality and
 disease resistance.
description: Field observations on
 demography and epidemicsData on the Linum
 marginale phenotype and demography. Melampsora lini annual prevalence and
 AUDPC in plant level.Susi et al
 2017.xlsx
DOI: 10.5061/dryad.60c8b
title: Data from: Transgenerational effects modulate density-dependent prophylactic resistance to viral infection in a lepidopteran pest

description: There is an increasing appreciation of the importance of transgenerational
 effects on offspring fitness, including in relation to immune function and
 disease resistance. Here, we assess the impact of parental rearing density
 on offspring resistance to viral challenge in an insect species expressing
 density-dependent prophylaxis (DDP); i.e. the adaptive increase in
 resistance or tolerance to pathogen infection in response to crowding. We
 quantified survival rates in larvae of the cotton leafworm (Spodoptera
 littoralis) from either gregarious- or solitary-reared parents following
 challenge with the baculovirus S. littoralis nucleopolyhedrovirus. Larvae
 from both the parental and offspring generations exhibited DDP, with
 gregarious-reared larvae having higher survival rates post-challenge than
 solitary-reared larvae. Within each of these categories, however, survival
 following infection was lower in those larvae from gregarious-reared
 parents than those from solitary-reared, consistent with a
 transgenerational cost of DDP immune upregulation. This observation
 demonstrates that crowding influences lepidopteran disease resistance over
 multiple generations, with potential implications for the dynamics of
 host–pathogen interactions.
description: Data from virus
 bioassays - both generationsThese are data from two
 bioassays reported in the paperWilsonGraham2015DryadData.csv
DOI: 10.5061/dryad.327sh
title: Data from: Preventing Zika virus infection during pregnancy using a seasonal window of opportunity for conception

description: It has come to light that Zika virus (ZIKV) infection during pregnancy can
 result in trans-placental transmission to the fetus along with fetal
 death, congenital microcephaly and/or Central Nervous System (CNS)
 malformations. There are projected to be &gt; 9, 200, 000 births
 annually in countries with ongoing ZIKV transmission. In response to the
 ZIKV threat, the World Health Organization (WHO) is strategically
 targeting prevention of infection in pregnant women and funding
 contraception in epidemic regions. I propose that the damaging effects of
 ZIKV can be reduced using a seasonal window of opportunity for conception
 that may minimize maternal exposure. Like other acute viral
 infections—including the related flavivirus, dengue virus (DENV)—the
 transmission of ZIKV is anticipated to be seasonal. By seasonally planning
 pregnancy, this aspect of pathogen ecology can be leveraged to align
 sensitive periods of gestation with the low-transmission season.
description: ZIKV_1.1.tar.gzR-package: ZIKV. R-package containing data and functions associated with this manuscript.ZIKV manualPDF manual for the R-package: ZIKVZIKV-manual.pdf
DOI: 10.5061/dryad.86jm9
title: Data from: Evolution of ischemic damage and behavioural deficit over 6 months after MCAo in the rat: selecting the optimal outcomes and statistical power for multi-centre preclinical trials

description: Key disparities between the timing and methods of assessment in animal
 stroke studies and clinical trial may be part of the reason for the
 failure to translate promising findings. This study investigates the
 development of ischemic damage after thread occlusion MCAo in the rat,
 using histological and behavioural outcomes. Using the adhesive removal
 test we investigate the longevity of behavioural deficit after ischemic
 stroke in rats, and examine the practicality of using such measures as the
 primary outcome for future studies. Ischemic stroke was induced in 132
 Spontaneously Hypertensive Rats which were assessed for behavioural and
 histological deficits at 1, 3, 7, 14, 21, 28 days, 12 and 24 weeks
 (n&gt;11 per timepoint). The basic behavioural score confirmed
 induction of stroke, with deficits specific to stroke animals. Within 7
 days, these deficits resolved in 50% of animals. The adhesive removal test
 revealed contralateral neglect for up to 6 months following stroke. Sample
 size calculations to facilitate the use of this test as the primary
 experimental outcome resulted in cohort sizes much larger than are the
 norm for experimental studies. Histological damage progressed from a
 necrotic infarct to a hypercellular area that cleared to leave a fluid
 filled cavity. Whilst absolute volume of damage changed over time, when
 corrected for changes in hemispheric volume, an equivalent area of damage
 was lost at all timepoints. Using behavioural measures at chronic
 timepoints presents significant challenges to the basic science community
 in terms of the large number of animals required and the practicalities
 associated with this. Multicentre preclinical randomised controlled trials
 as advocated by the MultiPART consortium may be the only practical way to
 deal with this issue.
description: Rewell - Raw data - PLOS
 OneThis Excel file
 tabulates the raw infarct and behavioural data described in our
 manuscript.
DOI: 10.15468/dl.etyzbw
title: Occurrence Download

description: A dataset containing 395 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is one of (Human Observation, Specimen)",
 "Geometry POLYGON((105 20,170 20,170 70,105 70,105 20))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Crataegus chlorosarca"
 ]
}

 The dataset includes 395 records from 24 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000905-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.475j7p93
title: Data from: Wolbachia infection and dramatic intraspecific mitochondrial DNA divergence in a fig wasp

description: Mitochondria and Wolbachia are maternally inherited genomes that exhibit
 strong linkage disequilibrium in many organisms. We surveyed Wolbachia
 infections in 187 specimens of the fig wasp species, Ceratosolen solmsi,
 and found an infection prevalence of 89.3%. DNA Sequencing of 20
 individuals each from Wolbachia-infected and uninfected sub-populations
 revealed extreme mtDNA divergence (up to 9.2% and 15.3% in CO1 and
 cytochrome b, respectively) between infected and uninfected wasps.
 Further, mtDNA diversity was significantly reduced within the infected
 group. Our sequencing of a large part of the mitochondrial genome from
 both Wolbachia-infected and uninfected individuals revealed that high
 sequence divergence is common throughout the mitochondrial genome. These
 patterns suggest a partial selective sweep of mitochondria subsequent to
 the introduction of Wolbachia into C. solsmi, by hybrid introgression from
 a related species.
description: Supplementary file
 1_table 1The amino acids sites
 that varied among the cow and Wolbachia-infected and uninfected
 Ceratosolen solmsi for co1 and Cob protein sequences.Supplementary file
 2_opsinPartial opsin gene
 sequences from four individuals of Ceratosolen solmsi, two of which were
 infected by Wolbachia and two were uninfected. Only six of the 1014 sites
 differed.Supplementary file
 3_ITS2ITS2 sequences from
 Ceratosolen solmsi. Seven individuals are infected with Wolbachia and five
 were uninfected. The sequence lengths were 506 bp and 11 sites differed,
 which may be due to either individual variation or inevitable PCR
 errors.
DOI: 10.5061/dryad.17mn5
title: Data from: Determinants of maternal near misses in Morocco: too late, too far, too sloppy?

description: Background: In Morocco, there is little information on the circumstances
 surrounding maternal near misses. This study aimed to determine the
 incidence, characteristics, and determinants of maternal near misses in
 Morocco. Method:A prospective case-control study was conducted at 3
 referral maternity hospitals in the Marrakech region of Morocco between
 February and July 2012. Near-miss cases included severe hemorrhage,
 hypertensive disorders, and prolonged obstructed labor. Three unmatched
 controls were selected for each near-miss case. Three categories of risk
 factors (sociodemographics, reproductive history, and delays), as well as
 perinatal outcomes, were assessed, and bivariate and multivariate analyses
 of the determinants were performed. A sample of 30 near misses and 30
 non-near misses was interviewed. Results:The incidence of near misses was
 12‰ of births. Hypertensive disorders during pregnancy (45%) and severe
 hemorrhage (39%) were the most frequent direct causes of near miss. The
 main risk factors were illiteracy [OR = 2.35; 95% CI: (1.07–5.15)], lack
 of antenatal care [OR = 3.97; 95% CI: (1.42–11.09)], complications during
 pregnancy [OR = 2.81; 95% CI:(1.26–6.29)], and having experienced a first
 phase delay [OR = 8.71; 95% CI: (3.97–19.12)] and a first phase of third
 delay [OR = 4.03; 95% CI: (1.75–9.25)]. The main reasons for the first
 delay were lack of a family authority figure who could make a decision,
 lack of sufficient financial resources, lack of a vehicle, and fear of
 health facilities. The majority of near misses demonstrated a third delay
 with many referrals. The women’s perceptions of the quality of their care
 highlighted the importance of information, good communication, and
 attitude. Conclusion:Women and newborns with serious obstetric
 complications have a greater chance of successful outcomes if they are
 immediately directed to a functioning referral hospital and if the
 providers are responsive.
description: Maternal near misses in
 MoroccoDeterminants of maternal
 near missescode of data base 10 DECEMBRE
 2014.xlsxDATA BASE 10 DECEMBRE 2014
 MATERNAL MORBIDITY BASSARAG DRYAD
 REPOSITORY.xls
DOI: 10.5061/dryad.16j5j
title: Data from: Natural selection on thermal preference, critical thermal maxima and locomotor performance

description: Climate change is resulting in a radical transformation of the thermal
 quality of habitats across the globe. Whereas species have altered their
 distributions to cope with changing environments, the evidence for
 adaptation in response to rising temperatures is limited. However, to
 determine the potential of adaptation in response to thermal variation, we
 need estimates of the magnitude and direction of natural selection on
 traits that are assumed to increase persistence in warmer environments.
 Most inferences regarding physiological adaptation are based on
 interspecific analyses, and those of selection on thermal traits are
 scarce. Here, we estimate natural selection on major thermal traits used
 to assess the vulnerability of ectothermic organisms to altered thermal
 niches. We detected significant directional selection favouring lizards
 with higher thermal preferences and faster sprint performance at their
 optimal temperature. Our analyses also revealed correlational selection
 between thermal preference and critical thermal maxima, where individuals
 that preferred warmer body temperatures with cooler critical thermal
 maxima were favoured by selection. Recent published estimates of
 heritability for thermal traits suggest that, in concert with the strong
 selective pressures we demonstrate here, evolutionary adaptation may
 promote long-term persistence of ectotherms in altered thermal
 environments.
description: Gilbert&Miles trait
 data Proceedings B 2017Raw trait values used in
 estimating natural selection on thermal traits.
DOI: 10.5061/dryad.ng730
title: Data from: Charting the NF-κB pathway interactome map

description: Inflammation is part of a complex physiological response to harmful
 stimuli and pathogenic stress. The five components of the Nuclear Factor
 κB (NF-κB) family are prominent mediators of inflammation, acting as key
 transcriptional regulators of hundreds of genes. Several signaling
 pathways activated by diverse stimuli converge on NF-κB activation,
 resulting in a regulatory system characterized by high complexity. It is
 increasingly recognized that the number of components that impinges upon
 phenotypic outcomes of signal transduction pathways may be higher than
 those taken into consideration from canonical pathway representations.
 Scope of the present analysis is to provide a wider, systemic picture of
 the NF-κB signaling system. Data from different sources such as
 literature, functional enrichment web resources, protein-protein
 interaction and pathway databases have been gathered, curated, integrated
 and analyzed in order to reconstruct a single, comprehensive picture of
 the proteins that interact with, and participate to the NF-κB activation
 system. Such a reconstruction shows that the NF-κB interactome is
 substantially different in quantity and quality of components with respect
 to canonical representations. The analysis highlights that several
 neglected but topologically central proteins may play a role in the
 activation of NF-κB mediated responses. Moreover the interactome structure
 fits with the characteristics of a bow tie architecture. This interactome
 is intended as an open network resource available for further development,
 refinement and analysis.
description: DRYAD_journal.pone.0032678.s004The archive contains files (tab delimited values format; protein list files, protein interaction list files and README files) relative to the proteins datasets and protein-protein interaction data related to, and described in the original article, i.e. DI, UI, MCI, UNION, DG and FEEDBACK datasets.
DOI: 10.15468/dl.sy6hj3
title: Occurrence Download

description: A dataset containing 220 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is one of (Human Observation, Specimen)",
 "Geometry POLYGON((105 20,170 20,170 70,105 70,105 20))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Dryas octopetala asiatica"
 ]
}

 The dataset includes 220 records from 18 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000904-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.61m9p
title: Data from: Impact of treatment and re-treatment with Artemether-Lumefantrine and Artesunate-Amodiaquine on selection of Plasmodium falciparum Multidrug Resistance Gene-1 polymorphisms in the Democratic Republic of Congo and Uganda

description: Background The emergence of resistance against artemisinin combination
 treatment is a major concern for malaria control. ACTs are recommended as
 the rescue treatment, however, there is limited evidence as to whether
 treatment and re-treatment with ACTs select for drug-resistant P.
 falciparum parasites. Thus, the present study wanted to investigate the
 impact of treatment and re-treatment using artesunate-amodiaquine (ASAQ)
 and artemether-lumefantrine (AL) on the selection of P. falciparum
 multidrug resistance-1 (pfmdr1) alleles in clinical settings. Methods P.
 falciparum positive samples were collected from children aged 12-59 months
 in a clinical trial in DR Congo and Uganda. Pfmdr1 single nucleotide
 polymorphisms (SNPs) analysis at codons N86Y, Y184F, and D1246Y were
 performed at baseline and post-treatment with either AL or ASAQ as a
 rescue treatment using nested PCR followed by restriction fragment length
 polymorphism (RFLP) assays. Results The pre-treatment prevalence of Pfmdr1
 N86 and D1246Y varied significantly between the sites, (p&gt;0.001)
 and (p=0.013), respectively. There was borderline significant directional
 selection for Pfmdr1 184F in recurrent infections after treatment with AL
 in Uganda site (p=0.05). Pfmdr1 NFD haplotype did not significantly change
 in post-treatment infections after re-treatment with either AL or ASAQ.
 Comparison between pre-treatment and post-treatment recurrences did not
 indicate directional selection of Pfmdr1 N86, D1246 alleles in either in
 the pre-RCT, RCT and post-RCT phases in both AL and ASAQ treatment arms.
 Pfmdr1 86Y was significantly associated with reduced risk of AL treatment
 failure (RR=0.34, 95% CI:0.11-1.05, p=0.04) while no evidence for D1246
 allele (RR=1.02; 95% CI: 0.42-2.47, p=1.0). Survival estimates showed that
 the Pfmdr1 alleles had comparable mean-time to PCR-corrected recrudescence
 and new infections in both AL and ASAQ treatment arms. Conclusion. We
 found limited impact of treatment and re-treatment with AL or ASAQ on
 selection for Pfmdr1 variants and haplotypes associated with resistance to
 partner drugs. These findings further supplement the evidence use of same
 or alternative ACTs as a rescue therapy for recurrent P.falciparum
 infections. Continued monitoring of genetic signatures of resistance is
 warranted to maintain the efficacy of artemisinin-based combination
 therapies.
description: Raw data _Pfmdr1
 SNPs_revised 16112017Data on the Pfmdr1
 single nucleotide polymorphisms (SNPs) analysis at codons N86Y, Y184F, and
 D1246Y and impact of AL or ASAQ treatment as a rescue
 treatment
DOI: 10.5061/dryad.3f158
title: Data from: Strong positive effects of termites on savanna bird abundance and diversity are amplified by large herbivore exclusion

description: Vast areas of the African savanna landscapes are characterized by
 tree-covered Macrotermes termite mounds embedded within a relatively open
 savanna matrix. In concert with termites, large herbivores are important
 determinants of savanna woody vegetation cover. The relative cover of
 woody species has considerable effects on savanna function. Despite the
 potentially important ecological relationships between termite mounds,
 woody plants, large herbivores, and birds, these associations have
 previously received surprisingly little attention. We experimentally
 studied the effects of termites and large herbivores on the avian
 community in Lake Mburo National Park, Uganda, where woody vegetation is
 essentially limited to termite mounds. Our experiment comprised of four
 treatments in nine replicates; unfenced termite mounds, fenced mounds
 (excluding large mammals), unfenced adjacent savanna, and fenced savanna.
 We recorded species identity, abundance, and behavior of all birds
 observed on these plots over a two-month period, from late dry until wet
 season. Birds used termite mounds almost exclusively, with only 3.5% of
 observations occurring in the treeless intermound savanna matrix. Mean
 abundance and species richness of birds doubled on fenced (large
 herbivores excluded) compared to unfenced mounds. Feeding behavior
 increased when large mammals were excluded from mounds, both in absolute
 number of observed individuals, and relative to other behaviors. This
 study documents the fundamental positive impact of Macrotermes termites on
 bird abundance and diversity in an African savanna. Birds play crucial
 functional roles in savanna ecosystems, for example, by dispersing fruits
 or regulating herbivorous insect populations. Thus, the role of birds in
 savanna dynamics depends on the distribution and abundance of termite
 mounds.
description: Moe et al Ecol Evol
 Behaviour dataMoe et al Ecol Evol GLMM
 dataMoe et al Ecol Evol
 ID_tree_density_richness dataMoe et al Ecol Evol NMDS
 data
DOI: 10.5281/zenodo.18382828
title: Processed data and code used in the paper