cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.3p4f3
title: Data from: Health impact assessment of air pollution in Valladolid, Spain

description: Objective: to estimate the attributable and targeted avoidable deaths of
 outdoor air pollution by ambient PM10, PM2.5 and O3 according to specific
 WHO methodology. Design: health impact assessment. Setting:City of
 Valladolid, Spain (around 300.000 residents). Data sources: demographics;
 mortality; pollutant concentrations collected 1999-2008. Main outcome
 measures: attributable fractions (AFs); attributable and targeted
 avoidable deaths (ADs; TADs) per year for 1999 – 2008. Results: Higher
 TADs estimates (shown here) were obtained when assuming as “target”
 concentrations WHO Air Quality Guidelines instead of Directive 2008/50/EC.
 ADs are considered relative to pollutant background levels.
 All-causemortality associated to PM10 (all ages): 52 ADs (95% CI: 39-64);
 31 TADs (95% CI: 24 – 39). All-causemortality associated to PM10
 (&lt;5 years): 0 ADs (95% CI: 0-1); 0 TADs (95% CI: 0 –1).
 All-causemortality associated to PM2.5 (&gt; 30 years): 326 ADs (95%
 CI: 217-422); 231 TADs (95% CI: 153 - 301). Cardiopulmonary and lung
 cancer mortality associated to PM2.5 (&gt;30 years): o
 Cardiopulmonary: 186 ADs (95% CI: 74-280) ; 94 TADs (95% CI: 36 – 148). o
 Lung cancer : 51 ADs (95% CI: 21-73); 27 TADs (95% CI: 10 – 41).
 All-cause, respiratory and cardiovascular mortality associated to O3(all
 ages): o All-cause: 52ADs (95% CI: 25-77) ; 31 TADs (95% CI: 15 – 45). o
 Respiratory : 5 ADs (95% CI : -2 – 13) ; 3 TADs (95%% CI : -1 – 8). o
 Cardiovascular: 30 ADs (95% CI: 8-51) ; 17 TADs (95% CI: 5 – 30). Negative
 estimates which should be read as zero were obtained when pollutant
 concentrations were below counterfactuals or assumed risk coefficients
 were below 1. Conclusions: Our estimates suggest a not negligible negative
 impact on mortality of outdoor air pollution. The implementation of WHO
 methodology provides critical information to distinguish an improvement
 range in air pollution control.
description: Aggregate data_BMJ
 Open_Health impact assessment of air pollution in
 Valladolid_Spain
DOI: 10.5061/dryad.7j660
title: Data from: Causes of and contributors to infant mortality in a rural community of North India: evidence from verbal and social autopsy

description: Objective: Retrospective analysis of routinely collected data using verbal
 and social autopsy tools to identify the medical causes of death and
 contribution of non-biological factors towards infant mortality Setting:
 The study site was Health and Demographic Surveillance System (HDSS),
 Ballabgarh, North India Participants: All infant deaths during year 2008
 to 2012 were included for verbal autopsy whereas infant deaths from July
 2012 to December 2012 were included for social autopsy. Outcome measures:
 Cause of death ascertained by validated verbal autopsy tool and level of
 delay based on three delay model using INDEPTH social autopsy tool were
 the main outcome measures. Results: Infant mortality rate during study
 period was 46.5/100 live births. Neonatal deaths contributed to 54.3% of
 infant deaths and 39% occurred on first day of life. Birth asphyxia
 (31.5%) followed by Low Birth Weight (LBW)/prematurity (26.5%) were the
 most common causes of neonatal death. While infective cause (57.8) was the
 most common cause of post-neonatal death. Care-seeking was delayed among
 50% of neonatal deaths and 41.2% of post-neonatal deaths. Delay at level 1
 was most common, observed in 32.4% of neonatal deaths and 29.4% of
 post-neonatal deaths. Deaths due to LBW/prematurity were mostly followed
 by delay at level 1. Conclusion: High proportion of preventable infant
 mortality still exists in an area which is under continuous health and
 demographic surveillance. There is need to enhance home based preventive
 care to enable the mother to identify and respond to danger signs. Verbal
 autopsy and social autopsy could be routinely done to guide policy
 interventions aimed at reduction of infant mortality.
description: verbal autopsy data
 ballabgarh 2008-2012BMJ OPen
 Data.xlsx
DOI: 10.15468/dl.rpt6xu
title: Occurrence Download

description: A dataset containing 2 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Pholidoteuthis boschmai",
 "HasCoordinate is true",
 "DecimalLatitude is greater than -90",
 "DecimalLatitude is less than 10",
 "DecimalLongitude is greater than -180",
 "OccurrenceStatus is Present",
 "Year is greater than or equal to 1950",
 "Year is less than or equal to 2014"
 ]
}

 The dataset includes 2 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001173-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.gh5m471
title: Data from: The disproportionate importance of long-unburned forests and woodlands for reptiles

description: 1. Our understanding of the impacts of time since fire on reptiles remains
 limited, partly because there are relatively few locations where
 long-term, spatially explicit fire histories are available. Such
 information is important given the large proportion of some landscapes
 that are managed with frequent prescribed fire to meet fuel management
 objectives. 2. We conducted a space-for-time study across a landscape in
 south-east Australia where the known fire history spanned 6 months to at
 least 96 years. Four methods were used to survey reptiles in 81 forest and
 woodland sites to investigate how time since fire, habitat and
 environmental variables affect reptile richness, abundance and
 composition. 3. We used generalised linear models, generalised linear
 mixed models, PERMANOVA and SIMPER to identify relationships between the
 reptile assemblage (richness, abundance and composition respectively) and
 time since fire, habitat and environmental variables. 4. All three reptile
 metrics were associated with time since fire. Reptile richness and
 abundance were significantly higher in sites &gt;96 years post-fire
 than younger fire ages (0.5-12 years). Reptile composition at
 long-unburned sites was dissimilar to sites burned more recently but was
 similar between sites burned 0.5-2 and 6-12 years prior to sampling. 5.
 Synthesis and applications. Long-unburned forests and woodlands were
 disproportionately more important for reptile richness and abundance than
 areas burned 6 months to 12 years prior to sampling. This is important
 given that long-unburned areas represent less than 8% of our study area.
 Our results therefore suggest that reptiles would benefit from protecting
 remaining long-unburned areas from fire and transitioning a greater
 proportion of the study area to long-unburned. However, some compositional
 differences between the long-unburned sites and sites 0.5-12 years
 post-fire indicate that maintaining a diversity in fire ages is important
 for conserving reptile diversity.
description: Reptile
 richnessReptile species richness
 at each site combined for two years of surveys. Includes environmental,
 fire and habitat data.Rep_rich.csvReptile abundanceReptile abundance data for each survey year. Includes fire, environmental and habitat data.Rep_abund.csv
DOI: 10.5061/dryad.982dd1k
title: Data from: Assessing the contributions of intraspecific and environmental sources of infection in urban wildlife: Salmonella enterica and white ibis as a case study

description: Conversion of natural habitats into urban landscapes can expose wildlife
 to novel pathogens and alter pathogen transmission pathways. Because
 transmission is difficult to quantify for many wildlife pathogens,
 mathematical models paired with field observations can help select among
 competing transmission pathways that might operate in urban landscapes.
 Here we develop a mathematical model for the enteric bacteria Salmonella
 enterica in urban-foraging white ibis (Eudocimus albus) in south Florida
 as a case study to determine (i) the relative importance of contact-based
 versus environmental transmission among ibis and (ii) whether transmission
 can be supported by ibis alone or requires external sources of infection.
 We use biannual field prevalence data to restrict model outputs generated
 from a Latin hypercube sample of parameter space and select among
 competing transmission scenarios. We find the most support for
 transmission from environmental uptake rather than between-host contact
 and that ibis–ibis transmission alone could maintain low infection
 prevalence. Our analysis provides the first parameter estimates for
 Salmonella shedding and uptake in a wild bird and provides a key starting
 point for predicting how ibis response to urbanization alters their
 exposure to a multi-host zoonotic enteric pathogen. More broadly, our
 study provides an analytical roadmap to assess transmission pathways of
 multi-host wildlife pathogens in the face of scarce infection data.
description: Becker et al
 2018_Salmonella prevalenceSalmonella prevalence in
 white ibis (fecal samples) and the environment (soil and water samples),
 mean ibis flock size, and the 95% confidence intervals per each study
 timepoint.Becker et al 2018 ibis
 codeR
 code to perform all simulation and sensitivity analyses
DOI: 10.5061/dryad.f6hs62hq
title: Data from: Genetic uniqueness of the Waorani tribe from the Ecuadorian Amazon

description: South America and especially the Amazon basin is known to be home to some
 of the most isolated human groups in the world. Here we report on a study
 of mitochondrial DNA (mtDNA) in the Waorani from Ecuador, probably the
 most warlike human population known to date. Seeking to look in more depth
 at the characterization of the genetic diversity of this Native American
 tribe, molecular markers from the X and Y chromosomes were also analyzed.
 Only three different mitochondrial DNA haplotypes were detected among the
 Waorani sample. One of them, assigned to Native American haplogroup A2,
 accounted for more than 94% of the total diversity of the maternal gene
 pool. Our results for sex chromosome molecular markers failed to find
 direct kinship between individuals and further emphasized the low genetic
 diversity of the mtDNA found. Bearing in mind the results obtained for
 both the analysis of the mtDNA control region and complete mitochondrial
 genomes, we suggest the existence of a "Waorani-specific" mtDNA
 lineage. According to current knowledge on the phylogeny of haplogroup A2,
 we propose that this lineage could be designated as subhaplogroup A2s. Its
 wide predominance among the Waorani people might have been conditioned by
 severe genetic drift episodes resulting from founding events, long-term
 isolation, and a traditionally small population size most likely
 associated with the striking ethnography of this Amazonian community. In
 all, the Waorani constitute a fine example of how genetic imprint may
 mirror ethnopsychology and sociocultural features in human populations.
description: Cardosoetal_Waorani_Suppl_S3Female genotypes and male haplotypes for 10 X-chromosome STRs in a Waorani population sample
DOI: 10.5061/dryad.mg4nc21
title: Data from: Genetic structure of the Painted Bunting and its implications for conservation of migratory populations

description: The Painted Bunting Passerina ciris is a Neotropical songbird which breeds
 primarily in the United States during the summer and migrates to Mexico,
 Central America, southern Florida, and the Caribbean over the winter. Male
 Painted Buntings are brightly coloured, which makes them highly sought
 after as pets, particularly in Mexico, Central America and Europe. We used
 short sequence repeats (microsatellite DNA) to investigate the population
 genetic structure of the Painted Bunting and its implications in
 conservation management of migratory populations. We found a detectable
 level of population differentiation as revealed by pairwise FST and RST
 comparisons and Bayesian clustering analyses, with strong support for
 differentiation between eastern and western Painted Buntings (e.g.
 Oklahoma and Georgia FST = 0.1; P = 0.005; RST = 0.18; P = 0.04) in
 accordance with previous mitochondrial DNA analysis. We recovered
 additional support for two sub‐groups within the western clade. While
 linking migrant songbirds captured outside of the United States to their
 breeding populations remains a challenge, we show that natural levels of
 population genetic differentiation can be detected via microsatellite DNA
 markers and exploited in migratory connectivity studies. We also
 demonstrate the potential utility of our low‐cost markers for population
 identification of birds recovered from the pet trade by screening a small
 subset of samples (n = 5) collected as part of wildlife tracking. We
 discuss the implications of our results for future efforts to understand
 patterns of population decline in Painted Buntings more generally, as well
 as how we might expand this methodology to combat illegal pet‐trade
 activity in this and other songbird species.
description: DRYAD_CONTINA_IBIS_2018_submittedDNA microsatellites - 13 loci
DOI: 10.21227/79h9-ph88
title: "VGAT-B: Datasets"

description: "six shapefile"
DOI: 10.5061/dryad.89q2c
title: Data from: Sex at the margins: parthenogenesis vs. facultative and obligate sex in a Neotropical ant

description: Geographic parthenogenesis is a distribution pattern, in which
 parthenogenetic populations tend to live in marginal habitats, at higher
 latitudes and altitudes and island-like habitats compared with the sexual
 forms. The facultatively parthenogenetic ant Platythyrea punctata is
 thought to exhibit this general pattern throughout its wide range in
 Central America and the Caribbean Islands. Workers of P. punctata from the
 Caribbean produce diploid female offspring from unfertilized eggs by
 thelytokous parthenogenesis, and mated females and males are rare. In
 contrast, workers in one colony from Costa Rica were incapable of
 thelytoky; instead mated workers produced all female offspring. Because
 sample sizes were very low in former studies, we here use microsatellite
 markers and explicit tests of thelytoky to examine the population genetic
 structure of ancestral and derived populations of P. punctata throughout
 the Caribbean and Central America. Populations from the Caribbean islands
 were fully capable of parthenogenesis and population genetic signatures
 indicate that this is the predominant mode of reproduction, although males
 are occasionally produced. In contrast, the northernmost population on the
 mainland (Texas) showed signatures of sexual reproduction and individuals
 were incapable of reproduction by thelytoky. Contrary to expectations from
 a geographic parthenogenesis distribution pattern, most parts of the
 mainland populations were found to be facultatively thelytokous, with
 population genetic signatures of both sexual and parthenogenetic
 reproduction.
description: Ppunctata_microsatellite
 data
DOI: 10.5061/dryad.g0g1h
title: Data from: Parental effects on the larval performance of a tapeworm in its copepod first host

description: Parents can influence the phenotype of their offspring through various
 mechanisms, besides the direct effect of heredity. Such parental effects
 are little explored in parasitic organisms, perhaps because in many
 parasites per capita investment into offspring is low. I investigated
 whether parental identity, beyond direct genetic effects, could explain
 variation in the performance of the tapeworm Schistocephalus solidus in
 its first intermediate host, a copepod. I first determined that two
 breeding worms could be separated from one another after ~48 hrs of in
 vitro incubation and that the isolated worms continued producing
 outcrossed eggs, i.e. rates self-fertilization did not increase after
 separation. Thus, from a breeding pair, two sets of genetically comparable
 eggs can be collected that have unambiguous parental identities. In an
 infection experiment, I found that the development of larval worms tended
 to vary between the two parental worms within breeding pairs, but
 infection success and growth rate in copepods did not. Accounting for this
 parental effect decreased the estimated heritability for development by
 nearly half. These results suggest that larval performance is not simply a
 function of a worm’s genotype; who mothered or fathered an offspring can
 also affect offspring fitness, contradicting the perhaps naïve idea that
 parasites simply produce large quantities of uniformly low-quality
 offspring.
description: Sep_dryadData from breeding protocol experimentInf_exp_dryadData from infection experiment.
DOI: 10.5061/dryad.22k3c
title: Data from: Asymmetric energetic costs in reciprocal-cross hybrids between carnivorous mice (Onychomys)

description: Aerobic respiration is a fundamental physiological trait dependent on
 coordinated interactions between gene products of the mitochondrial and
 nuclear genomes. Mitonuclear mismatch in interspecific hybrids may
 contribute to reproductive isolation by inducing reduced viability (or
 even complete inviability) due to increased metabolic costs. However, few
 studies have tested for effects of mitonuclear mismatch on respiration at
 the whole organism level. We explored how hybridization affects metabolic
 rates in closely related species of grasshopper mice (genus Onychomys) to
 better understand the role of metabolic costs in reproductive isolation.
 We measured metabolic rate across a range of temperatures to calculate
 basal metabolic rates (BMR) and cold-induced metabolic rates (MRc) in O.
 leucogaster, O. torridus, and O. arenicola, and in reciprocal F1 hybrids
 between the latter two species. Within the genus, we found a negative
 correlation between mass-specific BMR and body mass. Although O. arenicola
 was smaller than O. torridus, hybrids from both directions of the cross
 resembled O. arenicola in body mass. In contrast, hybrid BMR was strongly
 influenced by the direction of the cross: reciprocal F1 hybrids were
 different from each other but indistinguishable from the maternal species.
 In addition, MRc was not significantly different between hybrids and
 either parental species. These patterns indicate that metabolic costs are
 not increased in Onychomys F1 hybrids and, while exposure of
 incompatibilities in F2 hybrids cannot be ruled out, suggests that
 mitonuclear mismatch does not act as a primary barrier to gene flow.
 Maternal matching of BMR is suggestive of a strong effect of mitochondrial
 genotype on metabolism in hybrids. Together, our findings provide insight
 into the metabolic consequences of hybridization, a topic that is
 understudied in mammals.
description: Onychomys
 energeticsBMRs for Onychomys and
 hybridsShipleyetalJEB_Compiled.csv
DOI: 10.5061/dryad.kr85t
title: Data from: Eyespots deflect predator attack increasing fitness and promoting the evolution of phenotypic plasticity

description: Some eyespots are thought to deflect attack away from the vulnerable body,
 yet there is limited empirical evidence for this function and its adaptive
 advantage. Here, we demonstrate the conspicuous ventral hindwing eyespots
 found on Bicyclus anynana butterflies protect against invertebrate
 predators, specifically praying mantids. Wet season (WS) butterflies with
 larger, brighter eyespots were easier for mantids to detect, but more
 difficult to capture compared to dry season (DS) butterflies with small,
 dull eyespots. Mantids attacked the wing eyespots of WS butterflies more
 frequently resulting in greater butterfly survival and reproductive
 success. With a reciprocal eyespot transplant, we demonstrated the fitness
 benefits of eyespots were independent of butterfly behaviour. Regardless
 of whether the butterfly was WS or DS, large marginal eyespots pasted on
 the hindwings increased butterfly survival and successful oviposition
 during predation encounters. In previous studies, DS B. anynana
 experienced delayed detection by vertebrate predators, but both forms
 suffered low survival once detected. Our results suggest predator
 abundance, identity and phenology may all be important selective forces
 for B. anynana. Thus, reciprocal selection between invertebrate and
 vertebrate predators across seasons may contribute to the evolution of the
 B. anynana polyphenism.
description: PrudicEtAl_PRSB_DataAll data (3 experiments) reported in the paper
DOI: 10.21227/pjqb-n745
title: "VGAT-B: Datasets"

description: "six shapefile"
DOI: 10.21227/tskj-ym18
title: "VGAT-B: Datasets"

description: "six shapefile"
DOI: 10.5061/dryad.480tf
title: Data from: Demographic drivers of a refugee species: large-scale experiments guide strategies for reintroductions of hirola

description: Effective reintroduction strategies require accurate estimates of vital
 rates and the factors that influence them. We estimated vital rates of
 hirola (Beatragus hunteri) populations exposed to varying levels of
 predation and rangeland quality from 2012 to 2015, and then built
 population matrices to estimate the finite rate of population change (λ)
 and demographic sensitivities. Mean survival for all age classes and
 population growth was highest in the low predation/high-rangeland quality
 setting (λ = 1.08 ± 0.03 SE), and lowest in the high
 predation/low-rangeland quality setting (λ = 0.70 ± 0.22 SE).
 Retrospective demographic analyses revealed that increased fecundity (the
 number of female calves born to adult females annually) and calf survival
 were responsible for higher population growth where large carnivores were
 absent. In contrast, variation in adult survival was the primary
 contributor to differences in population growth attributable to rangeland
 quality. Our analyses suggest that hirola demography is driven by a
 combination of top-down (predation) and bottom-up (rangeland quality)
 forces, with populations in the contemporary geographic range impacted
 strongly by declining rangeland quality. To enhance the chances of
 successful reintroductions, conservationists can consider rangeland
 restoration to boost both the survival and fecundity of adult females
 within the hirola’s historical range.
description: Adults.conservancyThree year sight-resight data of adults within the Conservancy settingAdults.outlyingThree years sight-resight data of adults in the rangeland settingAdults.sanctauryThree years sight-resight data of adults in the sanctuary settingAdults.sanctuary.csvSubAdults.conservancyThree years sight-resight data of subadults in the conservancy settingSubAdults.outlyingThree years sight-resight data of subadults in the rangeland settingSubAdults.sanctuaryThree years sight-resight data of subadults in the sanctuary settingCalves.conservancyThree years sight-resight data of calves in the conservancy settingCalves.outlyingThree years sight-resight data of calves in the rangeland settingCalves.sanctuaryThree years sight-resight data of calves in the sanctuary settingElasticity rates_all settings2_elas2This file contains data on hirola vital rates that we used for the Life table response experiment. The data include survival rates of different age classes, fecundity estimates, elasticity and sensitivity values.LTRE DATA and Hirola vital rate estimates.csv