cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.cfxpnvx43
title: Detailed description of the new genus and speceis, Cretophengodes azari Li, Kundrata, Tihelka and Cai sp. nov.

description: Bioluminescent beetles of the superfamily Elateroidea (fireflies, fire
 beetles, glow-worms) are the most speciose group of terrestrial
 light-producing animals. The evolution of bioluminescence in elateroids is
 associated with unusual morphological modifications, such as
 soft-bodiedness and neoteny, but the fragmentary nature of the fossil
 record discloses little about the origin of these adaptations. We report
 the discovery of a new bioluminescent elateroid beetle family from the
 mid-Cretaceous of northern Myanmar (ca. 99 Ma), Cretophengodidae fam. nov.
 Cretophengodes azari gen. et sp. nov. belongs to the bioluminescent
 lampyroid clade, and represents a transitional fossil linking the
 soft-bodied Phengodidae + Rhagophthalmidae clade and hard-bodied
 elateroids. The fossil male possesses a light organ on the abdomen which
 presumably served a defensive function, documenting a Cretaceous radiation
 of bioluminescent beetles coinciding with the diversification of major
 insectivore groups such as frogs and stem-group birds. The discovery adds
 a key branch to the elateroid tree of life and sheds light on the timing
 of the evolution of soft-bodiedness and historical biogeography of
 elateroid beetles.
description: The Burmese amber
 specimen studied here originates from amber mines near the Noije Bum Hill
 (26°20' N, 96°36' E), Hukawng Valley, Kachin State, northern
 Myanmar. The specimen is deposited in the Nanjing Institute of Geology and
 Palaeontology (NIGP), Chinese Academy of Sciences, Nanjing, China. The
 amber piece was trimmed with a small table saw, ground with emery papers
 of different grain sizes, and finally polished with polishing
 powder.  Photographs under
 incident light were taken with a Zeiss Discovery V20 stereo microscope.
 Widefield fluorescence images were captured with a Zeiss Axio Imager 2
 light microscope combined with a fluorescence imaging system. Confocal
 images were obtained with a Zeiss LSM710 confocal laser scanning
 microscope. Images under incident light and widefield fluorescence were
 stacked in Helicon Focus 7.0.2 or Zerene Stacker 1.04. Confocal images
 were manually stacked in Adobe Photoshop CC. Images were further processed
 in <i>Adobe Photoshop</i> CC to enhance
 contrast.
DOI: 10.5061/dryad.bcc2fqzb6
title: Datasets and code for alpine <em>Festuca</em>: AFLP, ITS, and plastid alignments supporting Pleistocene sky-island colonization in Tropical Africa

description: The afroalpine sky-islands present one of the most interesting models to
 study discrete biogeographic patterns in a terrestrial island
 system. Here, we performed range-wide sampling of the afroalpine
 clade of fine-leaved Festuca grasses. We focus on the widespread species
 F. abyssinica and explore the role of the eastern and western African
 sky-islands in the evolution of biodiversity and its dispersal
 patterns. We combine data from field surveys, phylogeography,
 coalescence-based dispersal modelling, and environmental niche and
 dispersal costs analyses to infer patterns of genetic diversity,
 genealogical relationships, colonization routes, and range shifts under
 two Quaternary climates (current - to represent warm periods and Last
 Glacial Maximum (LGM) - to represent cold periods).**** The westernmost
 populations in East Africa show higher genetic diversity and higher
 similarities with the West African populations and the Ethiopian Simen
 Mountains than with the more closely situated East African populations.
 Dispersal models and ecological niche predictions of F. abyssinica
 supported multiple long-distance dispersals (LDD) among the eastern
 African sky-islands, and at least two dispersal events between the two
 sides of Africa (0.86 Ma and 0.52 Ma), probably facilitated by bridging
 suitable habitats during the coldest periods of the Pleistocene. We
 hypothesize an afroalpine mountain-hopping dispersal model, with
 migrations occurring between adjacent sky-islands in eastern Africa, and
 through a Central Africa - Sudan pathway connecting afroalpine patches on
 the two sides of the continent.
description: These data contain the *Festuca abyssinica* datasets (original AFLP data
 matrix of Afroalpine *Festuca* species, ITS, trnLF, and trnTL nexus
 alignments used in the phylogenetic analyses, and input/script files used
 to perform the dating and DIYABC analyses) associated with the manuscript
 *Multiple mountain-hopping colonization of sky-islands on the two sides of
 Tropical Africa during the Pleistocene: the afroalpine Festuca grasses*
 (Journal of Biogeography,
 [https://doi.org/10.1111/jbi.14117](https://doi.org/10.1111/jbi.14117)).
 Dataset DOI: [10.5061/dryad.bcc2fqzb6](10.5061/dryad.bcc2fqzb6) ##
 Description of the data and file structure The data file included in
 "DRYAD_FESTUCA_doi_10.5061_dryad.bcc2fqzb6__v3.zip" are original
 AFLP data matrix of Afroalpine Festuca species, ITS, trnLF and trnTL nexus
 alignments used in the phylogenetic analyses, and input/scripts files used
 to perform the dating and DIYABC analyses. ## Code/software MrBaYES,
 AFLPscore, and DIYABC software
DOI: 10.5061/dryad.dbrv15f0c
title: Comparing three screen-based sedentary behaviours’ effect upon adolescents’ participation in physical activity: The ESSENS study

description: Background: Literature focusing on the association between sedentary
 behaviours and physical activity has provided equivocal results and has
 been dominated by TV viewing as the indicator of sedentary behaviour.
 There is a need for more studies exploring the association between
 contemporary screen activities and physical activity among youth. Methods:
 A cross-sectional study including 742 adolescents was conducted in 2016.
 Data were collected at school through an online questionnaire. Regression
 analyses were used to explore the association between different
 screen-based sedentary behaviours and participation in physical activity.
 Results: The results showed that those with lower (vs higher) time spent
 on TV/movie streaming and electronic game playing both on weekdays and
 weekend days had significantly higher odds of participating in physical
 activity. There were no significant associations between
 socializing/surfing online both on weekdays and weekend days and physical
 activity in adjusted models. Conclusions: TV/movie streaming and
 electronic game playing during both weekdays and weekend days were
 significantly inversely related with participating in physical activity.
 Initiatives aimed at reducing screen-based sedentary activities might
 result in favourable effects on physical activity levels among
 adolescents.
description: Questionnaire - online  Statistical analysis,
 SPSS
description: Missing values are set to 100
DOI: 10.5061/dryad.1rn8pk0s2
title: An invasive grass species has both local and broad-scale impacts on diversity: Potential mechanisms and implications

description: Questions The impact of invasive plant species on native diversity varies
 with spatial scale, with some invaders leading to broad-scale diversity
 declines and others only local declines. These discrepancies may reflect
 the invaders capacity to reduce niche opportunities across spatial scales
 which can be associated with their functional traits. We investigated
 impact-scale relationships and trait-based mechanisms, in areas invaded by
 the exotic perennial grass species, Bothriochloa pertusa. We examine root
 traits specifically, as belowground competition was considered
 particularly important to the success of this species. Location Grassy
 ‘ironbark’ woodlands of eastern Queensland, Australia Methods We examined
 plots with varying degrees of invasion by B. pertusa, at multiple spatial
 scales (up to 1000 m2) and analysed changes to the species area
 relationships (SARs) with increasing invader cover. Changes to SARs were
 assessed in relation to the invaders effect on rare (low-patch-occupancy)
 and common species in the community. In a separate analysis within the
 same habitat we collected root cores across a gradient of invader cover
 and analysed changes to community root traits that were considered
 important correlates of competition for space and nutrients. Results
 Invasion-induced reductions in diversity were pervasive at all scales
 investigated, and this was associated with a proportionally greater effect
 on rare species in the community. In the separate root analysis, changes
 in community root traits with increasing invader cover were potentially
 indicative of more intense competition for resources rather than space.
 Conclusions The observed regional-scale dominance of B. pertusa and
 associated declines in diversity warrant serious concern for the
 conservation of native plant communities and species in a region already
 at risk from other anthropogenic threats. Intense competition for
 belowground resources is likely a contributing mechanism to the success of
 B. pertusa in this study system. Experimental examination of this and
 other mechanisms would help to validate these findings.
DOI: 10.5061/dryad.jh9w0vt9c
title: Contributions of affective temperament traits to professional choice. Evidence from the study of six professional groups

description: Background: The purpose of this study was to expand knowledge about the
 relationship between temperament and the choice of profession by comparing
 temperaments among representatives of various professional groups. Method:
 759 subjects aged 18-71 - representatives of six professional groups:
 firefighters, musicians, athletes, bank managers, nurses and paramedics,
 were included in the study. Temperament was assessed using the TEMPS-A
 autoquestionaire. Results: In comparison to others studied groups
 musicians showed a higher intensity of depressive and anxious temperament
 and Firefighters lower on cyclothymic dimension. Athletes, bank managers
 and paramedics showed a higher intensity of hyperthymic temperament
 compared to firefighters, musicians and nurses. Athletes showed a lower
 intensity of depressive dimension compared to bankers, musicians and
 nurses. Bankers obtained lower results of irritable temperament compared
 to musicians, athletes and nurses. Nurses showed a higher intensity of
 anxious temperament compared to firefighters, athletes and paramedics.
 Conclusions: The results obtained support the concept of adaptive and
 socially useful role of affective temperaments. The studied professional
 groups show different individual temperamental profile, which is justified
 in such aspects of the profession, as the level of stimulation, stress
 encountered, the necessity of making important decisions, or entering into
 relationship with the patient.
DOI: 10.5061/dryad.fj6q573sp
title: Intermedia agenda-setting networks

description: We investigate the impact of noise and topology on opinion diversity in
 social networks. We do so by extending well-established models of opinion
 dynamics to a stochastic setting where agents are subject both to
 assimilative forces by their local social interactions, as well as to
 idiosyncratic factors preventing their population from reaching consensus.
 We model the latter to account for both scenarios where noise is entirely
 exogenous to peer influence and cases where it is instead endogenous,
 arising from the agents' desire to maintain some uniqueness in their
 opinions. We derive a general analytical expression for opinion diversity,
 which holds for any network and depends on the network's topology
 through its spectral properties alone. Using this expression, we find that
 opinion diversity decreases as communities and clusters are broken down.
 We test our predictions against data describing empirical influence
 networks between major news outlets and find that incorporating our
 measure in linear models for the sentiment expressed by such sources on a
 variety of topics yields a notable improvement in terms of explanatory
 power.
DOI: 10.5061/dryad.sn02v6x2t
title: Population genomics reveals repeated signals of adaptive divergence in the Atlantic salmon of northeastern Europe

description: Our ability to examine genetic variation across entire genomes have
 enabled many studies searching for the genetic basis of local adaptation.
 These studies have identified numerous loci as candidates for differential
 local selection, however relatively few have examined the overlap among
 candidate loci identified from independent studies of the same species in
 different geographic areas or evolutionary lineages. We used an
 allelotyping approach with a 220K SNP array to characterize the population
 genetic structure of Atlantic salmon in northeastern Europe and ask
 whether the same genomic segments emerged as outliers among populations in
 different geographic regions. Genome-wide data recapitulated the
 phylogeographic structure previously inferred from mtDNA and
 microsatellite markers. Independent analyses of three genetically and
 geographically distinct groups of populations repeatedly inferred the same
 17 haploblocks to contain loci under differential local selection. The
 most strongly supported of these replicated haploblocks had known strong
 associations with life history variation or immune response in Atlantic
 salmon. Our results are consistent with these genomic segments harbouring
 large-effect loci which have a major role in Atlantic salmon
 diversification and are ideal targets for validation studies.
description: See associated manuscript.
description: A ReadMe file is included with the datasets
DOI: 10.5061/dryad.1rn8pk0s3
title: Genotyping validates the efficacy of photographic identification in a capture-mark-recapture study based on the head scale patterns of the prairie lizard (Sceloporus consobrinus)

description: Population studies often incorporate capture-mark-recapture (CMR)
 techniques to gather information on long-term biological and demographic
 characteristics. A fundamental requirement for CMR studies is that an
 individual must be uniquely and permanently marked to ensure reliable
 reidentification throughout its lifespan. Photographic identification
 involving automated photographic identification software has become a
 popular and efficient non-invasive method for identifying individuals
 based on natural markings. However, few studies have a) robustly assessed
 the performance of automated programs by using a double-marking system or
 b) determined their efficacy for long-term studies by incorporating
 multi-year data. Here, we evaluated the performance of the program
 Interactive Individual Identification System (I3S) by cross-validating
 photographic identifications based on the head scale pattern of the
 prairie lizard (Sceloporus consobrinus) with individual microsatellite
 genotyping (N=863). Further, we assessed the efficacy of the program to
 identify individuals over time by comparing error rates between
 within-year and between-year recaptures. Recaptured lizards were correctly
 identified by I3S in 94.1% of cases. We estimated a false rejection rate
 (FRR) of 5.9% and a false acceptance rate (FAR) of 0%. By using I3S we
 correctly identified 97.8% of within-year recaptures (FRR=2.2%; FAR=0%)
 and 91.1% of between-year recaptures (FRR=8.9%; FAR=0%).
 Misidentifications were primarily due to poor photo quality (N=4).
 However, two misidentifications were caused by indistinct scale
 configuration due to scale damage (N=1) and ontogenetic changes in head
 scalation between capture events (N=1). We conclude that automated
 photographic identification based on head scale patterns is a reliable and
 accurate method for identifying individuals over time. Because many lizard
 or reptilian species possess variable head squamation, this method has
 potential for successful application in many species.
DOI: 10.5061/dryad.bk3j9kd99
title: Machine learning identifies girls with central precocious puberty based on multi-source data

description: Objective: The study aimed to develop simplified diagnostic models for
 identifying girls with central precocious puberty (CPP), without the
 expensive and cumbersome gonadotropin-releasing hormone (GnRH) stimulation
 test, which is the gold standard for CPP diagnosis. Materials and Methods:
 Female patients who had secondary sexual characteristics before 8 years
 old and had taken a GnRH analog (GnRHa) stimulation test at a medical
 center in Guangzhou, China were enrolled. Data from clinical visiting,
 laboratory tests and medical image examinations were collected. We first
 extracted features from unstructured data such as clinical reports and
 medical images. Then, models based on each single-source data or
 multi-source data were developed with Extreme Gradient Boosting (XGBoost)
 classifier to classify patients as CPP or non-CPP. Results: The best
 performance achieved an AUC of 0.88 and Youden index of 0.64 in the model
 based on multi-source data. The performance of single-source models based
 on data from basal laboratory tests and the feature importance of each
 variable showed that the basal hormone test had the highest diagnostic
 value for a CPP diagnosis. Conclusion: We developed three simplified
 models that use easily accessed clinical data before the GnRH stimulation
 test to identify girls who are at high risk of CPP. These models are
 tailored to the needs of patients in different clinical settings. Machine
 learning technologies and multi-source data fusion can help to make a
 better diagnosis than traditional methods.
description: In this study, girls with secondary sexual characteristics onset
 under the age of 8 were enrolled from the Pediatric Endocrinology
 Department of Guangzhou Women and Children's Medical Center.
 Individuals with genetic disorders, tumors, lesions, McCune-Albright
 syndrome, neurofibromatosis, ovarian cysts, or other diseases and those
 taking hormone medications were excluded from this study. All patients
 underwent the GnRHa stimulation test. This study was
 approved by the institutional review board of Guangzhou Women and
 Children’s Medical Center and conducted in accordance with the ethical
 guidelines of the Declaration of Helsinki of the World Medical
 Association. The requirement to obtain informed consent was waived because
 of the retrospective nature of the study. The data used in this study were
 anonymous, and no identifiable personal data of the patients were
 available for the analysis. Instead of text data, we
 extracted values directly from unstructured reports (such as medical
 records, medical examination reports).
description: We eliminated data with missing rate over 60%. Missing values for
 continuous variables were filled with mean values of samples in the
 corresponding age group. As reports from medical image
 examinations were Chinese, and we actually only used numerical values
 extracted from these reports. It is the same with medical
 reports.
DOI: 10.15468/dl.u8j9nb
title: Occurrence Download

description: A dataset containing 1165 species occurrences available in GBIF matching the query:
{
 "and" : [
 "OccurrenceStatus is Present",
 "TaxonKey is Chamaedorea elegans"
 ]
}

 The dataset includes 1165 records from 125 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002641-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.59zw3r25v
title: Supplementary data from: Decoupling of morphological disparity and taxonomic diversity during the end-Permian mass extinction

description: An increasing number of unexpectedly diverse benthic communities are being
 reported from microbially-precipitated carbonate facies in shallow-marine
 platform settings after the end-Permian mass extinction. Ostracoda, which
 was one of the most diverse and abundant metazoan groups during this
 interval, recorded their greatest diversity and abundance associated with
 these facies. Previous studies, however, focused mainly on their taxonomic
 diversity and, therefore, left room for discussion of paleoecological
 significance. Here, we apply a morphometric method (semi-landmarks) to
 investigate morphological variance through time to better understand the
 ecological consequences of the end-Permian mass extinction, and to examine
 the hypothesis that microbial mats played a key role in ostracod survival.
 Our results show that taxonomic diversity and morphological disparity were
 decoupled during the end-Permian extinction, and that morphological
 disparity declined rapidly at the onset of the end-Permian extinction,
 even though the high diversity of ostracods initially survived in some
 places. The decoupled changes in taxonomic diversity and morphological
 disparity suggest that the latter is a more robust proxy for understanding
 the ecological impact of the extinction event, and the low morphological
 disparity of ostracod faunas is a consequence of sustained environmental
 stress or a delayed post-Permian radiation. Furthermore, the similar
 morphological disparity of ostracods between microbialite and
 non-microbialite facies indicates that microbial mats most likely
 represent a taphonomic window rather than a biological refuge during the
 end-Permian extinction interval.
DOI: 10.5061/dryad.866t1g1p9
title: Population studies of the wild tomato species Solanum chilense reveal geographically structured major gene-mediated pathogen resistance

description: Natural plant populations encounter strong pathogen pressure and
 defense-associated genes are known to be under selection dependent on the
 pressure by the pathogens. Here we use populations of the wild tomato
 Solanum chilense to investigate natural resistance against Cladosporium
 fulvum, a well-known ascomycete pathogen of domesticated tomatoes. Host
 populations used are from distinct geographical origins and share a
 defined evolutionary history. We show that distinct populations of S.
 chilense differ in resistance against the pathogen. Screening for major
 resistance gene mediated pathogen recognition throughout the whole species
 showed clear geographical differences between populations and complete
 loss of pathogen recognition in the south of the species range. In
 addition, we observed high complexity in a homologues of Cladosporium
 resistance (Hcr) locus, underlying the recognition of C. fulvum, in
 central and northern populations. Our findings show that major gene
 mediated recognition specificity is diverse in a natural
 plant-pathosystem. We place major gene resistance in a geographical
 context that also defined the evolutionary history of that species. Data
 suggest that the underlying loci are more complex than previously
 anticipated, with small-scale gene recombination being possibly
 responsible for maintaining balanced polymorphisms in the populations that
 experience pathogen pressure.
description: Additional data for the manuscript "Population studies in
 the wild tomato species Solanum chilense reveal maintenance and loss of
 resistance at geographically distinct locations"
 Contains: METADATA MICROSCOPY<br> jpg
 and xml metadata files for the microscopy images used in our
 study SNP DATA<br> Alignment files (fasta) for
 the genes mentioned in the study<br>     3chil*.fa<br>
 Intermediate files used for the generation of above fasta files<br>
     Coreceptors*<br> Solanum lycopersicum gene sequences used in the
 analysis above<br>     Solyc*.fa<br> Description of the
 pipeline used to identify the coreceptors and their mutations<br>   
  Pipeline_fv.txt OTHERS<br> R scripts used for
 graphs<br>     *.R<br> Tables with raw qPCR data as used in
 the study<br>     qpcrdata.csv<br> Details on the populations
 used in this study<br>     Population-details.ods
 Details on the populations used in this study<br>    
 Avrmix.csv<br> Dualfigure.csv