cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.4nt54
title: Data from: Social monogamy versus polyandry: ecological factors associated with sex-roles in two closely related birds within the same habitat

description: Why mainly males compete and females take a larger share in parental care
 remains an exciting question in evolutionary biology. Role-reversed
 species are of particular interest, because such exceptions′ help to test
 the rule. Using mating systems theory as a framework, we compared the
 reproductive ecology of the two most contrasting coucals with regard to
 sexual dimorphism and parental care: the black coucal with male-only care
 and the bi-parental white-browed coucal. Both species occur in the same
 lush habitat and face similar ecological conditions, but drastically
 differ in mating system and sexual dimorphism. Black coucals were
 migratory and occurred at high breeding densities. With females being
 obligatory polyandrous and almost twice as heavy as males, black coucals
 belong to the most extreme vertebrates with reversed sexual dimorphism.
 Higher variance in reproductive success in fiercely competing females
 suggests that sexual selection is stronger in females than males. In
 contrast, resident white-browed coucals bred at low densities and
 invariably in pairs. They were almost monomorphic and the variance in
 reproductive success was similar between the sexes. Black coucals were
 more likely to lose nests than white-browed coucals, probably facilitating
 female emancipation of parental care in black coucals. We propose that a
 combination of high food abundance, high population density, high degree
 of nest loss, and male bias in the adult sex ratio are ecological
 conditions that facilitate role reversal and polyandry in coucals and
 terrestrial vertebrates in general.
description: Raw data of black and
 white-browed coucals for J Evol Biol paper 2015This file contains
 several Excel sheets that served as raw data for the analyses in the paper
 by Goymann et al. "Social monogamy versus polyandry: ecological
 factors associated with sex-roles in two closely related birds within the
 same habitat" to appear in Journal of Evolutionary Biology
 2015black_and_white-browed_coucal_JEB2015_data.xlsx
DOI: 10.5061/dryad.72t83
title: Data from: Infant feeding and risk of developing celiac disease: a systematic review

description: Objective: To review the evidence for the association of breast feeding,
 breastfeeding duration or the timing of gluten introduction and the later
 development of celiac disease (CD). Design: Systematic review. Methods: We
 searched MEDLINE, via PubMed, EMBASE and Web of Science, for studies
 published up to 31 August 2015 investigating the association of
 breastfeeding duration, breast feeding at the moment of gluten
 introduction or the timing of gluten introduction and the later
 development of CD. Prospective studies had to enrol infants/children at
 high risk of CD. For retrospective studies, participants had to be
 children or adults with CD. The paper quality was assessed by means of a
 GRADE score and the bias risk was assessed by the Newcastle-Ottawa Scale
 (for observational cohort studies) and Cochrane Collaboration's tool
 (for randomised trials). Results: Out of 149 retrieved papers, 48 were
 considered in depth and 16 were included in this review (9 were
 prospective and 2 were interventional). We found that neither duration of
 breastfeeding nor breastfeeding at time of gluten introduction nor the
 delayed introduction of gluten during weaning were effective in preventing
 later development of CD. Conclusions: Currently, there is no evidence on
 the optimal breastfeeding duration or the effects of avoiding early
 (&lt;4 months of age) or late (≥6 or even at 12 months) gluten
 introduction in children at risk of CD. Accordingly, no specific general
 recommendations about gluten introduction or optimal breastfeeding
 duration can be presently provided on evidence-based criteria in order to
 prevent CD.
description: Full
 textPapers whose full text
 has been retrived for the possible selection in the systematic
 reviewdryad_full_text.docx
DOI: 10.5061/dryad.n626b
title: Data from: Patterns of cranial shape diversification during the phylogenetic branching process of New World monkeys (Primates: Platyrrhini)

description: One of the central topics in evolutionary biology is understanding the
 processes responsible for phenotypic diversification related to ecological
 factors. New World monkeys are an excellent reference system to
 investigate processes of diversification at macroevolutionary scales.
 Here, we investigate the cranial shape diversification related to body
 size and ecology during the phylogenetic branching process of
 platyrrhines. To investigate this diversification, we used geometric
 morphometric techniques, a molecular phylogenetic tree, ecological data
 and phylogenetic comparative methods. Our statistical analyses
 demonstrated that the phylogenetic branching process is the most important
 dimension to understand cranial shape variation among extant platyrrhines
 and suggested that the main shape divergence among the four principal
 platyrrhine clades probably occurred during the initial branching process.
 The phylogenetic conservatism, which is the retention of ancestral traits
 over time within the four principal platyrrhine clades, could be the most
 important characteristic of platyrrhine cranial shape diversification.
 Different factors might have driven early shape divergence and posterior
 relative conservatism, including genetic drift, stabilizing selection,
 genetic constraints due to pleiotropy, developmental or functional
 constraint, lack of genetic variation, among others. Understanding the
 processes driving the diversification among platyrrhines will probably
 require further palaeontological, phylogenetic and comparative studies.
description: Perez et al
 Ecological_variablesEcological
 variablesPerez et al
 Shape_variablesShape
 variablesPerez et al
 DNA_sequencesConcatenated molecular
 matrixPerez et al
 MB_Filogenetic_TreeBI molecular
 phylogenetic tree
DOI: 10.5061/dryad.r78vn
title: Data from: Different DMRT3 genotypes are best adapted for harness racing and riding in Finnhorses

description: Previous studies showed a positive effect of the DMRT3 “gait keeper”
 mutation on harness racing performance in Standardbreds, French-, and
 Nordic trotters. The mutation has also been shown to influence riding
 traits in multiple breeds. This study investigated the effect of the DMRT3
 mutation on harness racing performance and riding traits in Finnhorses.
 Finnhorses used for harness racing (n = 180) and for riding (n = 59) were
 genotyped for the DMRT3 mutation. For the trotters the genotypes were
 evaluated for association with racing performance (number of starts,
 victories, placings, earnings, and race times). At 3–6 years of age the AA
 genotype was superior compared with the CA and CC genotypes. The AA horses
 had a significantly higher proportion of victories (P = 1.4×10−6) and
 placings (P = 4.1×10−7), better race times (P = 0.01), and earned more
 money (P = 0.009) compared with C-horses. For the Finnhorses used for
 riding the owners answered a questionnaire to score how well the horse
 performed the gaits walk, trot, and canter on a scale from 1 to 6. These
 scores were tested for association with the DMRT3 genotypes. Although AA
 horses were more successful as racehorses, the CC and CA horses appear
 more adapted for classical riding disciplines. The AA horses received
 significantly lower gait scores compared with C-horses for the majority of
 gaits. Except for rhythm in extended canter (P = 0.05), there were no
 significant differences between CA and CC horses. This study shows that
 there are different optimal genotypes for different disciplines and the
 DMRT3 mutation clearly influences gaits and performance in Finnhorses.
description: DMRT3 genotypes and
 performance data for FinnhorsesDMRT3 genotypes and
 phenotype information for Finnhorses. The riding performance data was
 collected via questionnaires and the harness racing performance data was
 provided by The Finnish trotting and breeding association (Hippos). The
 harness racing performance data shows the total number of starts and
 placings for each horse.Data for
 Dryad_JOH.xlsx
DOI: 10.5061/dryad.8gr58
title: Data from: Hysteresis in an experimental phytoplankton population

description: The road to recovery of a deteriorated system is often different, and
 fraught with more barriers, than the path to the system's
 deterioration. This phenomenon is called hysteresis, and is inherent to
 systems presenting alternative stable states. In such systems, the
 stability of a given state is the product of positive feedback loops. A
 broad range of natural systems have been predicted to show hysteretic
 behaviour, but hysteresis has so far only been unambiguously demonstrated
 at cellular or metabolic levels, not yet at the population or ecosystem
 level. To extend our understanding of hysteresis at the population level,
 we performed an experiment on light-stressed cyanobacteria and found
 hysteresis between alternative stable states. Furthermore, during the
 experiment, the cyanobacteria adapted physiologically to high light
 levels, and deviated from their theoretically predicted pathway of
 hysteresis, therewith also avoiding extinction. Our experiment confirmed
 that a population that loses resilience due to deteriorating external
 conditions can show a delayed – hysteretic – recovery-response when
 conditions are improved. This population-level study also indicates that
 the slowness of these systems may obscure the true state they are in,
 which is important to factor into ecosystem monitoring. Additionally, we
 show that adaptation can drastically alter the systems’ predicted
 behaviour to ecosystem management. Flexibility of species and slowness
 should, therefore, be included in the monitoring and prediction of
 ecosystem responses to environmental changes.
description: Experimental data
 'Hysteresis in a phytoplankton population'Lightdata,
 cyanobacterial data and spectra of the experimental vessel in which a
 cyanbacterial population showed hysteretic behaviour as a result of light
 stress.Hysteresis data
 Dryad.xls
DOI: 10.5061/dryad.rr4pm
title: Data from: When does intraspecific trait variation contribute to functional beta-diversity?

description: 1. Intraspecific trait variation (ITV) is hypothesized to play an
 important role in community assembly and the maintenance of biodiversity.
 However, fundamental gaps remain in our understanding of how ITV
 contributes to mechanisms that create spatial variation in the
 functional-trait composition of communities (functional β-diversity).
 Importantly, ITV may influence the perceived importance of environmental
 filtering across spatial scales. 2. We examined how ITV contributes to
 functional β-diversity and environmental filtering in woody plant
 communities in a temperate forest in the Ozark ecoregion, Missouri, USA.
 To test the hypothesis that ITV contributes to changes in the perceived
 importance of environmental filtering across scales, we compared patterns
 of functional β-diversity across soil-resource and topographic gradients
 at three spatial grains and three spatial extents. To quantify the
 contribution of ITV to functional β-diversity, we compared patterns that
 included ITV in five traits (leaf area, specific leaf area, leaf water
 content, leaf toughness, and chlorophyll content) to patterns based on
 species-mean trait values. 3. Functional β-diversity that included ITV
 increased with spatial extent and decreased with spatial grain, suggesting
 stronger environmental filtering within spatially extensive landscapes
 that contain populations locally adapted to different habitats. In
 contrast, functional β-diversity based on species-mean trait values
 increased with spatial extent but did not change with spatial grain,
 suggesting weaker environmental filtering among larger communities which
 each contain a variety of habitats and locally adapted populations. 4.
 Synthesis. Although studies typically infer community assembly mechanisms
 from species-mean trait values, our study suggests that mean trait values
 may mask the strength of assembly mechanisms such as environmental
 filtering, especially in landscape-scale studies that encompass strong
 environmental gradients and locally adapted populations. Our study
 highlights the utility of integrating ITV into studies of functional
 β-diversity to better understand the ecological conditions under which
 trait variation within and among species contributes most strongly to
 patterns of biodiversity across spatial scales.
description: Tyson Forest Dynamics
 Plot leaf functional trait dataData on functional
 traits (leaf size, specific leaf area (SLA), leaf water content (LWC),
 leaf toughness, and chlorophyll content) measured on three leaves each of
 681 individuals across for 35 woody plant species in a 12-ha section of
 the Tyson Forest Dynamics Plot, Missouri, USAAppendix S3 Trait
 data.xlsx
DOI: 10.5061/dryad.sc724
title: Data from: Predicting the ancestral character changes in a tree is typically easier than predicting the root state

description: Predicting the ancestral sequences of a group of homologous sequences
 related by a phylogenetic tree has been the subject of many studies, and
 numerous methods have been proposed for this purpose. Theoretical results
 are available that show that when the substitution rate become too large,
 reconstructing the ancestral state at the tree root is no longer feasible.
 Here, we also study the reconstruction of the ancestral changes that
 occurred along the tree edges. We show that, depending on the tree and
 branch length distribution, reconstructing these changes (i.e.
 reconstructing the ancestral state of all internal nodes in the tree) may
 be easier or harder than reconstructing the ancestral root state. However,
 results from information theory indicate that for the standard Yule tree,
 the task of reconstructing internal node states remains feasible, even for
 very high substitution rates. Moreover, computer simulations demonstrate
 that for more complex trees and scenarios, this result still holds. For a
 large variety of counting, parsimony-based and likelihood-based methods,
 the predictive accuracy of a randomly selected internal node in the tree
 is indeed much higher than the accuracy of the same method when applied to
 the tree root. Moreover, parsimony- and likelihood-based methods appear to
 be remarkably robust to sampling bias and model mis-specification.
description: ONLINE_APPENDIX_REVISEDCommon LISP simulation programsThese two .zip archives contain the LISP programs that have been used in the simulation section for: (1) Yule trees and the 2-state symmetric model, (2) non-molecular-clock trees and HKY+G4 model. Readme are enclosed for further explanations.Archive.zip
DOI: 10.5061/dryad.2j3c073
title: Data from: Unraveling the seasonal epidemiology of pneumococcus

description: Infections caused by Streptococcus pneumoniae—including invasive
 pneumococcal diseases (IPDs)—remain a significant public health concern
 worldwide. The marked winter seasonality of IPDs is a striking, but still
 enigmatic aspect of pneumococcal epidemiology in nontropical climates.
 Here we confronted age-structured dynamic models of carriage transmission
 and disease with detailed IPD incidence data to test a range of hypotheses
 about the components and the mechanisms of pneumococcal seasonality. We
 find that seasonal variations in climate, influenza-like illnesses, and
 interindividual contacts jointly explain IPD seasonality. We show that
 both the carriage acquisition rate and the invasion rate vary seasonally,
 acting in concert to generate the marked seasonality typical of IPDs. We
 also find evidence that influenza-like illnesses increase the invasion
 rate in an age-specific manner, with a more pronounced effect in the
 elderly than in other demographics. Finally, we quantify the potential
 impact of seasonally timed interventions, a type of control measures that
 exploit pneumococcal seasonality to help reduce IPDs. Our findings shed
 light on the epidemiology of pneumococcus and may have notable
 implications for the control of pneumococcal infections.
description: Data and R codes
 associated with the paper "Unraveling the seasonal epidemiology of
 pneumococcus"The zipped folder
 contains the data and the R codes needed to perform the estimation of the
 models described in Domenech de Cellès et al., "Unraveling the
 seasonal epidemiology of pneumococcus", PNAS.dir_dryad.zip
DOI: 10.5061/dryad.p7n02t0
title: Data from: Return to work after ischemic stroke in young adults: a registry-based follow-up study

description: Objective: We aimed to investigate the proportion of young patients not
 returning to work (NRTW) at one year after ischemic stroke (IS) and during
 follow-up, and clinical factors associated with NRTW. Methods: Patients
 from Helsinki Young Stroke Registry with an IS occurring in the years
 1994-2007, who were at paid employment within one year before IS, and with
 National Institutes of Health Stroke Scale (NIHSS) score ≤15 points at
 hospital discharge, were included. Data on periods of payment came from
 the Finnish Centre for Pensions, and death data from Statistics Finland.
 Multivariate logistic regression analyses assessed factors associated with
 NRTW one year after IS and Lasagna plots visualized the proportion of
 patients returning to work over time. Results: We included a total of 769
 patients, of whom 289 (37.6%) were not working at one year, 323 (42.0%) at
 two years, and 361 (46.9%) at five years from IS. When adjusted for age,
 sex, socioeconomic status and NIHSS score at admission, factors associated
 with NRTW at one year after IS were large anterior strokes, strokes caused
 by large-artery atherosclerosis, high-risk sources of cardioembolism, and
 rare causes other than dissection compared with undetermined cause,
 moderate to severe aphasia versus no aphasia, mild and moderate to severe
 limb paresis versus no paresis, and moderate to severe visual field
 deficit versus no deficit. Conclusions: NRTW is a frequent adverse outcome
 after IS in young adults with mild to moderate IS. Clinical variables
 available during acute hospitalization may allow prediction of NRTW.
description: Supplemental
 dataTables
 e-1-5.Supplemental_Data_280318_final.pdf
DOI: 10.5061/dryad.343nt5s
title: Data from: Combining role-play with interactive simulation to motivate informed climate action: evidence from the World Climate simulation

description: Climate change communication efforts grounded in the information deficit
 model have largely failed to close the gap between scientific and public
 understanding of the risks posed by climate change. In response,
 simulations have been proposed to enable people to learn for themselves
 about this complex and politically charged topic. Here we assess the
 impact of a widely-used simulation, World Climate, which combines a
 socially and emotionally engaging role-play with interactive exploration
 of climate change science through the C-ROADS climate simulation model.
 Participants take on the roles of delegates to the UN climate negotiations
 and are challenged to create an agreement that meets international climate
 goals. Their decisions are entered into C-ROADS, which provides immediate
 feedback about expected global climate impacts, enabling them to learn
 about climate change while experiencing the social dynamics of
 negotiations. We assess the impact of World Climate by analyzing pre- and
 post-survey results from &gt;2,000 participants in 39 sessions in
 eight nations. We find statistically significant gains in three areas: (i)
 knowledge of climate change causes, dynamics and impacts; (ii) affective
 engagement including greater feelings of urgency and hope; and (iii) a
 desire to learn and do more about climate change. Contrary to the deficit
 model, gains in urgency were associated with gains in participants'
 desire to learn more and intent to act, while gains in climate knowledge
 were not. Gains were just as strong among American participants who oppose
 government regulation of free markets - a political ideology that has been
 linked to climate change denial in the US - suggesting the
 simulation's potential to reach across political divides. The results
 indicate that World Climate offers a climate change communication tool
 that enables people to learn and feel for themselves, which together have
 the potential to motivate action informed by science.
description: 2018-Jan-31 WCE Combined
 Final SessionsThis SPSS data file
 provides all of the survey responses and background characteristics of the
 participants in the World Climate Exercise as covered in the
 article.World Climate
 Data.sav
DOI: 10.5061/dryad.kd11tj14
title: Data from: Host tracking or cryptic adaptation? Phylogeography of Pediobius saulius (Hymenoptera, Eulophidae), a parasitoid of the highly invasive horse-chestnut leafminer

description: Classical biological control is often advocated as a tool for managing
 invasive species. However, accurate evaluations of parasitoid species
 complexes and assessment of host-specificity are impeded by the lack of
 morphological variation. Here we study the possibility of host
 races/species within the eulophid wasp Pediobius saulius, a pupal
 generalist parasitoid that parasitize the highly invasive horse-chestnut
 leaf-mining moth Cameraria ohridella. We analysed the population genetic
 structure, host associations and phylogeographic patterns of P. saulius in
 Europe using the COI mitochondrial gene. This marker strongly supports a
 division into at least five highly differentiated parasitoid complexes,
 within two of which, clades with differing degrees of host specialization
 were found: a Balkan clade that mainly (but not only) attacks C.
 ohridella, and a more generalist European group which attacks many hosts,
 including C. ohridella. The divergence in COI (up to 7.6%) suggests the
 existence of cryptic species, although this is neither confirmed by
 nuclear divergence nor morphology. We do not find evidence of host
 tracking. The higher parasitism rates observed in the Balkans and the
 scarcity of the Balkan-Cameraria haplotypes out of the Balkans, open the
 possibility of using these Balkan haplotypes as biological control agents
 of C. ohridella elsewhere in Europe.
description: PedioCO1Aligned CO1 sequences in nexus format.Pediobius28SAligned 28S-D2 sequences in nexus format. Information on the samples given in the Excel readme file.PediobiusITS2Aligned ITS sequences in nexus format. Information on individual samples in the Excel readme file. Samples with no BOLD ID were new individuals.