cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.5pc3g
title: Data from: The Proterozoic record of eukaryotes

description: Proterozoic strata host evidence of global “Snowball Earth” glaciations,
 large perturbations to the carbon cycle, proposed changes in the redox
 state of oceans, the diversification of microscopic eukaryotes, and the
 rise of metazoans. Over the past half century, the number of fossils
 described from Proterozoic rocks has increased exponentially. These
 discoveries have occurred alongside an increased understanding of the
 Proterozoic Earth system and the geological context of fossil occurrences,
 including improved age constraints. However, the evaluation of
 relationships between Proterozoic environmental change and fossil
 diversity has been hampered by several factors, particularly lithological
 and taphonomic biases. Here we compile and analyze the current record of
 eukaryotic fossils in Proterozoic strata to assess the effect of biases
 and better constrain diversity through time. Our results show that mean
 within assemblage diversity increases through the Proterozoic Eon due to
 an increase in high diversity assemblages, and that this trend is robust
 to various external factors including lithology and paleogeographic
 location. In addition, assemblage composition changes dramatically through
 time. Most notably, robust recalcitrant taxa appear in the early
 Neoproterozoic Era, only to disappear by the beginning of the Ediacaran
 Period. Within assemblage diversity is significantly lower in the
 Cryogenian Period than in the preceding and following intervals, but the
 short duration of the nonglacial interlude and unusual depositional
 conditions may present additional biases. In general, large scale patterns
 of diversity are robust while smaller scale patterns are difficult to
 discern through the lens of lithological, taphonomic, and geographic
 variability.
description: Appendix Data
 TableData on Proterozoic
 fossil diversity used for analysis in this study. All data compiled from
 the literature.Cohen_Appendix_Table.xlsAppendix ReferencesAll references cited in the Appendix data table
DOI: 10.5061/dryad.7qb11
title: Data from: Dispersal, niche, and isolation processes jointly explain species turnover patterns of nonvolant small mammals in a large mountainous region of China

description: Understanding the mechanisms that govern the spatial patterns of species
 turnover (beta diversity) has been one of the fundamental issues in
 biogeography. Species turnover is generally recognized as strong in
 mountainous regions, but the way in which different processes (dispersal,
 niche, and isolation) have shaped the spatial turnover patterns in
 mountainous regions remains largely unexplored. Here, we explore the
 directional and elevational patterns of species turnover for nonvolant
 small mammals in the Hengduan Mountains of southwest China and distinguish
 the relative roles of geographic distance, environmental distance, and
 geographic isolation on the patterns. The spatial turnover was assessed
 using the halving distance (km), which was the geographic distance that
 halved the similarity (Jaccard similarity) from its initial value. The
 halving distance was calculated for the linear, logarithmic, and
 exponential regression models between Jaccard similarity and geographic
 distance. We found that the east–west turnover is generally faster than
 the south–north turnover for high-latitudinal regions in the Hengduan
 Mountains and that this pattern corresponds to the geographic structure of
 the major mountain ranges and rivers that mainly extend in a south–north
 direction. There is an increasing trend of turnover toward the
 higher-elevation zones. Most of the variation in the Jaccard similarity
 could be explained by the pure effect of geographic distance and the joint
 effects of geographic distance, environmental distance, and average
 elevation difference. Our study indicates that dispersal, niche, and
 isolation processes are all important determinants of the spatial turnover
 patterns of nonvolant small mammals in the Hengduan Mountains. The spatial
 configuration of the landscape and geographic isolation can strongly
 influence the rate of species turnover in mountainous regions at multiple
 spatial scales.
description: Small mammal
 datasetPresence-absence dataset
 of small mammals in 164 counties of the Hengduan
 MountainsAppendix S2_small mammal
 dataset.xls
DOI: 10.5061/dryad.db017
title: Data from: Influences of climate and historical land connectivity on ant beta diversity in East Asia

description: Aim Biodiversity patterns reflect both ecological and evolutionary
 processes interacting with geographical variation in climate and the
 current and historical connectivity between land areas. We sought to
 disentangle these effects in explaining the organization of ant diversity
 across geographical areas and islands in East Asia. Location The Japanese
 Archipelago including the Ryukyu and Ogasawara Islands, Taiwan and coastal
 continental regions of Korea, China and Russia. Methods We aggregated
 species occurrence records from published literature, specimen databases
 and museum records, and compiled climatic variables for islands and
 politically defined continental areas. Current and historic land
 connections in the Last Glacial Maximum were determined using bathymetric
 databases. We analysed factors driving patterns of Simpson composition
 dissimilarity using multiple regression of distance matrices (MRM).
 Results Temperature was the largest driver of dissimilarity among areas,
 with geographical distance and historical land contiguity also being
 important. Current land contiguity had no detectable effect. Main
 Conclusions We found climate to be a primary driver of ant diversity
 patterns on large scales, consistent with previous work on ants and other
 organisms. Interestingly, land connectivity during historical periods of
 low sea level was more important than current land connectivity in
 explaining faunal similarities. This implies that despite the potential
 overwater dispersal of ants, overland dispersal via transient land
 connections is a more important driver of regional-scale biogeographical
 pattern in East Asia.
description: Ant species occurrence
 records from East AsiaAnt species checklists
 representing local species pools across 159 islands and areas in East Asia
 were compiled, including Japan, South Korea, North Korea, China and Russia
 (Far East). The records represent nominal valid species and are based on
 1093 publications from 1874-2014. This .txt file consists of two columns,
 listing species and area names. The preceding letters before the area
 names separated by an underscore abbreviate countries or island
 archipelagoes where the areas belong to (C China, DT Daito Islands, IZ Izu
 Islands, J Japan, JM Japanese main islands, NK North Korea, OG Ogasawara
 Islands, R Russia, RC Ryukyu Islands - central, RFE Russia Far East, RN
 Ryukyu Islands - north, RS Ryukyu Islands south, SK South Korea, SKM South
 Korea mainland, SN Senkaku Islands).Dryad-data.txt
DOI: 10.5061/dryad.3ds63
title: Data from: New criteria for sepsis-induced coagulopathy (SIC) following the revised sepsis definition: a retrospective analysis of a nationwide survey

description: OBJECTIVE: Recent clinical studies have shown that anticoagulant therapy
 might be effective only in specific at-risk subgroups of patients with
 sepsis and coagulation dysfunction. The definition of sepsis was recently
 modified and old scoring systems may no longer be proper for the diagnosis
 of sepsis-associated coagulopathy. The aim of this study was to evaluate
 prognostic factors in patients diagnosed as sepsis and coagulopathy
 according to the new sepsis definition and assess their accuracy in
 comparison to existing models. DESIGN, SETTING AND SUBJECTS: The data set
 was obtained from a post-marketing survey examining recombinant human
 soluble thrombomodulin and offered by Japanese Society on Thrombosis and
 Hemostasis. A total of 1498 patients with sepsis and coagulopathy
 complications who were treated with recombinant thrombomodulin were
 analyzed in this study. MAIN OUTCOME MEASURES: The platelet count,
 prothrombin time (PT) ratio, fibrinogen and fibrin degradation products
 (FDP), systemic inflammatory response syndrome (SIRS) score, and
 sequential organ failure assessment (SOFA) score obtained just before the
 start of treatment were examined in relation to the 28-day mortality rate.
 RESULTS: The platelet count, PT ratio, and total SOFA were independent
 predictors of a fatal outcome in a logistic regression model. A
 sepsis-induced coagulation (SIC) score was defined using the 3
 above-mentioned variables with a positivity threshold of 4 points or more.
 The SIC score predicted higher 28-day mortality rate compared to the
 Japanese Association for Acute Medicine (JAAM)-DIC score (38.4% vs.
 34.7%). CONCLUSIONS: The SIC scoring is based on readily available
 parameters, is easy to calculate and owns a high predictive value for
 28-day mortality. Future studies are warranted to evaluate whether the SIC
 score may guide the decision to initiate anticoagulant therapy.
description: REC1498data set of 1498 cases
DOI: 10.5061/dryad.p25m0
title: Data from: Bees explain floral variation in a recent radiation of Linaria

description: The role of pollinators in floral divergence has long attracted the
 attention of evolutionary biologists. Although abundant studies have
 reported the effect of pollinators on flower shape variation and plant
 speciation, the influence of pollinators on plant species differentiation
 during rapid radiations and the specific consequences of shifts among
 similar pollinators are not well understood. Here, we evaluate the
 association between pollinators and floral morphology in a closely related
 and recently diversifying clade of Linaria species (sect. Supinae subsect.
 Supinae). Our approach combined pollinator observations, functional floral
 morphometric measures and phylogenetic comparative analyses. The fauna
 visiting Linaria species was determined by extensive surveys and
 categorized by a modularity algorithm, while the size and shape of flowers
 were analyzed by means of standard and geometric morphometric measures.
 Standard measures failed to find relationships between the sizes of
 representative pollinators and flowers. However, discriminant-function
 analyses of geometric morphometric data revealed that pollination niches
 are finer predictors of flower morphologies in Linaria if compared with
 phylogenetic relationships. Species with the most restrictive flowers
 displayed the most slender spurs and were pollinated by bees with larger
 proboscides. These restrictive flower shapes likely appeared more than
 once during the evolutionary history of the study group. We show that
 floral variation can be driven by shifts between pollinators that have
 been traditionally included in a single functional group, and discuss the
 consequences of such transitions for plant species differentiation during
 rapid radiations.
description: Raw data for
 accumulation curves_DryadDatasets included in
 Supplementary Tables_DryadSupplementary
 Tables_Dryad.docx
DOI: 10.5061/dryad.7j504
title: Data from: Malaria infections reinforce competitive asymmetry between two Ficedula flycatchers in a recent contact zone

description: Parasites may influence the outcome of interspecific competition between
 closely related host species through lower parasite virulence in the host
 with which they share the longer evolutionary history. We tested this idea
 by comparing the prevalence of avian malaria (Haemosporidia) lineages and
 their association with survival in pied and collared flycatchers (Ficedula
 hypoleuca and F. albicollis) breeding in a recent contact zone on the
 Swedish island of Öland. A nested PCR protocol amplifying haemosporidian
 fragments of mtDNA was used to screen the presence of malaria lineages in
 1048 blood samples collected during 6 years. Competitively inferior pied
 flycatchers had a higher prevalence of blood parasites, including the
 lineages that were shared between the two flycatcher species. Multistate
 mark–recapture models revealed a lower survival of infected versus
 uninfected female pied flycatchers, while no such effects were detected in
 male pied flycatchers or in collared flycatchers of either sex. Our
 results show that a comparatively new host, the collared flycatcher,
 appears to be less susceptible to a local northern European malarial
 lineage where the collared flycatchers have recently expanded their
 distribution. Pied flycatchers experience strong reproductive interference
 from collared flycatchers, and the additional impact of species-specific
 blood parasite effects adds to this competitive exclusion. These results
 support the idea that parasites can strongly influence the outcome of
 interspecific competition between closely related host species, but that
 the invading species need not necessarily be more susceptible to local
 parasites.
description: GLMM
 codeR
 code used for GLMM analysisDRYAD-GLMM_code.RSequence alignmentsSequence alignments of malaria lineages identified in pied and collared flycatchersDRYAD-sequences.fasMARK-CF_analysisMARK code for general analysis (CF, collared flycatchers)DRYAD-MARK-CF_analysis.DBFMARK-PF_analysisMARK code for general analysis (PF, pied flycatchers)DRYAD-MARK-PF_analysis.DBFMARK-CF-recapture_dataMARK (input) recapture data (CF, collared flycatchers)DRYAD-MARK-CF-recapture_data.txtMARK-PF-recapture_dataMARK (input) recapture data (PF, pied flycatchers)DRYAD-MARK-PF-recapture_data.txtGLMM_input_dataDRYAD-GLMM-input.data.txt
DOI: 10.5061/dryad.fh34h
title: Data from: Parental effects alter the adaptive value of an adult behavioural trait

description: The parents' phenotype, or the environment they create for their
 young, can have long-lasting effects on their offspring, with profound
 evolutionary consequences. Yet virtually no work has considered how such
 parental effects might change the adaptive value of behavioural traits
 expressed by offspring upon reaching adulthood. To address this problem,
 we combined experiments on burying beetles (Nicrophorus vespilloides) with
 theoretical modelling, and focussed on one adult behavioural trait in
 particular: the supply of parental care. We manipulated the early life
 environment and measured the fitness payoffs associated with the supply of
 parental care when larvae reached maturity. We found that (1) adults that
 received low levels of care as larvae were less successful at raising
 larger broods, and suffered greater mortality as a result: they were low
 quality parents. Furthermore (2) high quality males that raised offspring
 with low quality females subsequently suffered greater mortality than
 brothers of equivalent quality, which reared larvae with higher quality
 females. Our analyses identify three general ways in which parental
 effects can change the adaptive value of an adult behavioural trait: by
 influencing the associated fitness benefits and costs; by consequently
 changing the evolutionary outcome of social interactions; and by modifying
 the evolutionarily stable expression of behavioural traits that are
 themselves parental effects.
description: kilner2015_exp1Data for experiment 1: Parent quality was manipulated and assayed by providing broods of different sizes for which to care.kilner2015_exp2Data for experiment two: Female quality was manipulated by removing parents at different times during development. They bred twice with the same male. Costs and benefits for both parents were measured.field_beetlesThe comparison between body size distributions of experimental and wild-caught beetles.
DOI: 10.5061/dryad.8645
title: Data from: Coevolution of male mating signal and female preference during early lineage divergence of the Hawaiian cricket, Laupala cerasina

description: Sexual selection is a powerful evolutionary force shaping mate choice
 phenotypes, initiating phenotypic shifts resulting in (or reinforcing)
 population divergence and speciation when such shifts reduce mating
 probabilities among divergent populations. In the Hawaiian cricket genus
 Laupala, pulse rate of male calling song, a conspicuous mating signal,
 differs among species, potentially behaving as a speciation phenotype.
 Populations of the widespread species L. cerasina show variation in pulse
 rate. We document the degree of population differentiation in three
 features of calling song: pulse rate, pulse duration, and carrier
 frequency. All show significant population differentiation, with pulse
 rate showing the greatest heterogeneity. A Mantel test found no
 relationship between geographic distance and pulse rate divergence,
 indicating that a simple model of greater divergence with increasing
 distance cannot explain the observed pattern of differentiation. We
 demonstrate that female preference functions for pulse rate are unimodal,
 and that preference means show significant differentiation among
 populations. Furthermore, estimates of pulse rate preference correlate
 significantly with mean pulse rates across populations, indicating song
 and preference coevolve in a stepwise manner. This correlated divergence
 between signal and preference suggests that sexual selection facilitates
 the establishment of sexual isolation, reduced gene flow, and population
 differentiation, prerequisites for speciation.
description: Grace&Shaw2011Evolution_dryadThis file contains the entire set of raw data used to generate the results reported in the Evolution article. These data include complete phonotaxis results for each female and detailed song measurements for each male. These data span three years of sampling from wild-caught individuals plus the second-generation lab-reared offspring for one of those years. File consists of 3 data sheets: one with all of the female phonotaxis data (sheet 1), one with all of the male song data (sheet 2), and one with a description/brief explanation of column headings for both the other sheets (sheet 3, but rearranged to appear as the leftmost tab).
DOI: 10.5061/dryad.39k32
title: Data from: Fine-scale vertical stratification and guild composition of saproxylic beetles in lowland and montane forests: similar patterns despite low faunal overlap

description: The finer scale patterns of arthropod vertical stratification in forests
 are rarely studied and poorly understood. Further, there are no studies
 investigating whether and how altitude affects arthropod vertical
 stratification in temperate forests. We therefore investigated the
 fine-scale vertical stratification of diversity and guild structure of
 saproxylic beetles in temperate lowland and montane forests and compared
 the resulting patterns between the two habitats. The beetles were sampled
 with flight intercept traps arranged into vertical transects (sampling
 heights 0.4, 1.2, 7, 14, and 21 m). A triplet of such transects was
 installed in each of the five sites in the lowland and in the mountains;
 75 traps were used in each forest type 381 species were collected in the
 lowlands and 236 species in the mountains. Only 105 species (21%) were
 found at both habitats; in the montane forest as well as in the lowlands,
 the species richness peaked at 1.2 m, and the change in assemblage
 composition was most rapid near the ground. The assemblages clearly
 differed between the understorey (0.4 m, 1.2 m) and the canopy (7 m, 14 m,
 21 m) and between the two sampling heights within the understorey, but
 less within the canopy. The stratification was better pronounced in the
 lowland, where canopy assemblages were richer than those near the forest
 floor (0.4 m). In the mountains the samples from 14 and 21 m were more
 species poor than those from the lower heights. The guild structure was
 similar in both habitats. The main patterns of vertical stratification and
 guild composition were strikingly similar between the montane and the
 lowland forest despite the low overlap of their faunas. The assemblages of
 saproxylic beetles were most stratified near ground. The comparisons of
 species richness between canopy and understorey may thus give contrasting
 results depending on the exact sampling height in the understorey.
description: Saproxyic beetle data
 from two forest areas the Czech Republic in 2007 &
 2008This file contains
 information on saproxylic beetles that where caught in a lowland forest
 area along the lower Dyje (Thaya) and Morava (March) rivers in southern
 Moravia and a montane forest area in the Moravian-Silesian Beskids
 (Beskydy) in the years 2007 and 2008, respectively. The file contains a
 species-abundance list of all the species caught in the study, as well as
 a list with further information (saproxylic status, feeding guild, red
 list status, indicator species) on the beetle species
 themselves.FITBeetleData_CzechRepublic_2007+2008.xls
DOI: 10.5061/dryad.97s4d
title: Data from: Statistical analysis for subjective and objective evaluations of dental drill sounds

description: The sound produced by a dental air turbine handpiece (dental drill) can
 markedly influence the sound environment in a dental clinic. Indeed, many
 patients report that the sound of a dental drill elicits an unpleasant
 feeling. Although several manufacturers have attempted to reduce the sound
 pressure levels produced by dental drills during idling based on ISO
 14457, the sound emitted by such drills under active drilling conditions
 may negatively influence the dental clinic sound environment. The physical
 metrics related to the unpleasant impressions associated with dental drill
 sounds have not been determined. In the present study, psychological
 measurements of dental drill sounds were conducted with the aim of
 facilitating improvement of the sound environment at dental clinics.
 Specifically, we examined the impressions elicited by the sounds of 12
 types of dental drills in idling and drilling conditions using a semantic
 differential. The analysis revealed that the impressions of dental drill
 sounds varied considerably between idling and drilling conditions and
 among the examined drills. This finding suggests that measuring the sound
 of a dental drill in idling conditions alone may be insufficient for
 evaluating the effects of the sound. We related the results of the
 psychological evaluations to those of measurements of the physical metrics
 of equivalent continuous A-weighted sound pressure levels (LAeq) and
 sharpness. Factor analysis indicated that impressions of the dental drill
 sounds consisted of two factors: “metallic and unpleasant” and “powerful”.
 LAeq had a strong relationship with “powerful impression”, calculated
 sharpness was positively related to “metallic impression”, and “unpleasant
 impression” was predicted by the combination of both LAeq and calculated
 sharpness. The present analyses indicate that, in addition to a reduction
 in sound pressure level, refining the frequency components of dental drill
 sounds is important for creating a comfortable sound environment in dental
 clinics.
description: Raw data of the physical
 metrics.Equivalent continuous
 A-weighted sound pressure levels (LAeq) and sharpness in relation to
 drilling conditions of dental drills.plos data2(2nd
 revise).xlsRaw data of the
 psychological experiment.Participants'
 impressions elicited by the sound stimuli of 12 dental drills in idling
 and drilling conditions.plos data
 1(revised).xls