cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.9cf3404
title: Data from: The mediating effect of action planning on physical activity behaviors of university students in South Korea: based on an integrated theory

description: Background: The main concern in many countries is to increase physical
 activity levels of adolescent populations in terms of prevention of
 obesity and adult disease. Physical activity levels of university students
 in South Korea have decreased remarkably in recent years. The motivation
 process has been regarded as a key factor for the understanding of
 participation and maintenance in physical activity. As a research gap
 discovered in previous studies, the exploration of motivational processes
 including multiple factors is helpful to find out the precise reason
 students engage in physical activity, then improving their physical
 activity levels. In particular, this study focused on the mediating role
 of action planning to explore the effects on physical activity behavior
 drawn by motivational tenets of Self-Determination Theory and Planned
 Behavior of Theory. Purpose: The purpose of this study examined the
 relationships between autonomous motivation, behavioral intention, action
 planning, and physical activity behavior using the tenets of
 Self-Determination Theory and Planned Behavior of Theory. The study
 hypothesized that action planning mediates the relationship between
 behavioral intention and physical activity behavior being moderated by
 autonomous motivation. Method: A total of 203 students in two universities
 located at Daejeon city in South Korea participated in physical education
 classes for one semester. The participants completed four well-validated
 questionnaires at the end of the semester. To test the hypothesized model,
 structural equation modeling (SEM) analysis was used. Findings and
 conclusions: A moderated mediation model indicated that action planning
 mediated the relationship between behavioral intention and physical
 activity behavior through its mediation effect. The results also revealed
 autonomous motivation self-regulated by students facilitated the transfer
 of behavioral intention into physical activity behavior through action
 planning. The findings demonstrated that action planning played as an
 effective tool to occur physical activity behaviors via behavioral
 intention moderated by autonomous motivation and provided useful
 strategies as an intervention to increase physical activity levels of
 university students in South Korea.
description: Rawdata(SDT+TPB)1
DOI: 10.5061/dryad.s7f2gk3
title: Data from: Seasonal changes in diet and toxicity in the Climbing Mantella frog (Mantella laevigata)

description: Poison frogs acquire chemical defenses from the environment for protection
 against potential predators. These defensive chemicals are lipophilic
 alkaloid toxins that are sequestered by poison frogs from dietary
 arthropods and stored in skin glands. Despite decades of research focusing
 on identifying poison frog toxins, we know relatively little about how
 environmental variation and subsequent arthropod availability impacts
 toxicity in poison frogs. We investigated how seasonal environmental
 variation influences poison frog toxin profiles through changes in the
 diet of the Climbing Mantella (Mantella laevigata). We collected M.
 laevigata females on the Nosy Mangabe island reserve in Madagascar during
 the wet and dry seasons and tested the hypothesis that seasonal
 differences in temperature and rainfall are associated with changes in the
 diet and skin toxin profiles of M. laevigata. The arthropod diet of each
 frog was characterized into five groups (i.e. ants, termites, mites,
 larvae and other) using visual identification and cytochrome oxidase 1 DNA
 barcoding. We found that frog diet differed between the wet and dry
 seasons, where frogs had a more diverse diet in the wet season and
 consumed a higher percentage of ants in the dry season. To determine if
 these differences in diet were associated with variation in frog defensive
 chemical composition, we used gas chromatography / mass spectrometry to
 quantify toxins from individual skin samples. Although the assortment of
 identified toxins was similar across seasons, we detected significant
 differences in the abundance of certain alkaloids, which we hypothesize
 reflects seasonal variation in the diet of M. laevigata. We suggest that
 tThese variations could originate from seasonal changes in either
 arthropod leaf litter composition or changes in frog behavioral patterns
 between wet and dry seasons. Although additional studies are needed to
 understand the consequences of long-term environmental shifts, this work
 suggests that toxin profiles are relatively robust against short-term
 environmental perturbations.
description: Frog stomach content specimen photos
 arthropods.tar.gz Frog skin GCMS
 data mantellaskingcms.tar.gz
DOI: 10.5061/dryad.st65n12
title: Data from: Palaeobiogeography and evolutionary patterns of the larger foraminifer Borelis de Montfort (Borelidae)

description: The palaeobiogeography of the alveolinoid Borelis species reveals the
 evolutionary patterns leading to the two extant representatives, which
 occur in shallow-water tropical carbonate, coral reef-related settings.
 Type material and new material of fossil Borelis species, along with
 Recent specimens were studied to assess their taxonomic status, species
 circumscriptions (based on proloculus size, occurrence of Y-shaped
 septula, and the index of elongation), palaeobiogeography and evolutionary
 dynamics. The species dealt with here are known from exclusively fossil
 (B. pygmaea, B. inflata, B. philippinensis, B. melo, B. curdica), and from
 fossil and modern (B. pulchra, B. schlumbergeri) specimens. For the first
 time, fossil and Recent Borelis specimens are illustrated via
 micro-computed tomography scanning images. Depending on the occurrence of
 Y-shaped septula, two lineages are distinguished. Deriving from the
 middle–upper Eocene Borelis. vonderschmitti, the first lineage includes B.
 inflata, B. pulchra and B. pygmaea, lacking Y-shaped septula. The first
 species bearing Y-shaped septula is the Rupelian B. philippinensis of the
 western Indo-Pacific. The westward migrants of B. philippinensis into the
 Mediterranean gave rise to B. melo (Aquitanian–Messinian) and B. curdica
 (Burdigalian–Tortonian). These two species became isolated from the
 Indo-Pacific by the Langhian eastern closure of the Mediterranean basin
 and disappeared during the Messinian Salinity Crisis. Since the Tortonian,
 B. schlumbergeri, which descended from B. philippinensis, has inhabited
 the Indo-Pacific along with B. pulchra. From the central Pacific Ocean, B.
 pulchra reached the Caribbean area before the early Piacenzian closure of
 the Central America seaway.
description: Video model of Borelis
 curdica (Reichel, 1937), early Langhian, Hungary This is the video model
 of the X-ray Computed Tomography (CT)-scanning images of Borelis curdica
 (Reichel, 1937) from the early Langhian, Bagoly Hill, Letkés village,
 Hungary. This specimen is illustrated in Fig. 10 of the paper.
 Ungheria1_70kvp_100uA_1s_300_300_249_substack.avi inverted_Ungheria1_70kvp_100uA_1s_300_300_249_substack.avi Image stack of computed tomography of Borelis curdica Image stack of the X-ray micro-tomography (micro-CT) scan of the fossil larger foraminifer Borelis curdica (Reichel, 1937). This specimen is illustrated in the Fig. 10 of the paper. The text file contains scan details and settings. Open this file via ImageJ software. Ungheria1_70kvp_100uA_1s_300_300_249_substack.tif
DOI: 10.5061/dryad.k8bc83s
title: Data from: Assessment of the ant fauna in the forests of Penang Hill, Pulau Pinang, Malaysia

description: A total of 105 ant species from 54 genera and 10 subfamilies have been
 identified from the collections made during the 2017 assessment of ants of
 Penang Hill, Malaysia. Additional work is ongoing to process and identify
 the remaining samples, which will undoubtedly raise the total number of
 species. Our data add to a growing dataset on the ant fauna of peninsular
 Malaysia. Ants play important roles as predators, scavengers, and seed
 dispersers in tropical forests. Baseline data on ants may provide more
 granular information on differences between habitats within the peninsular
 Malaysia, and may help identify areas of high diversity and endemism
 within the region.
description: Specimen data from:
 Assessment of the ant fauna in the forests of Penang Hill, Pulau Pinang,
 MYSpecimen
 data from - Assessment of the ant fauna in the forests of Penang Hill,
 Pulau Pinang, MY.xlsx
DOI: 10.5061/dryad.c4483c6
title: Data from: Blockade of dengue virus transmission from viremic blood to Aedes aegypti mosquitoes using human monoclonal antibodies

description: Background Dengue is the most prevalent arboviral disease of humans. Virus
 neutralizing antibodies are likely to be critical for clinical immunity
 after vaccination or natural infection. A number of human monoclonal
 antibodies (mAbs) have previously been characterized as able to neutralize
 the infectivity of dengue virus (DENV) for mammalian cells in cell-culture
 systems.   Methodology/Principle findings We tested the capacity
 of 12 human mAbs, each of which had previously been shown to neutralize
 DENV in cell-culture systems, to abrogate the infectiousness of dengue
 patient viremic blood for mosquitoes. Seven of the twelve mAbs (1F4,
 14c10, 2D22, 1L12, 5J7, 747(4)B7, 753(3)C10), almost all of which target
 quaternary epitopes, inhibited DENV infection of Ae. aegypti. The mAbs
 14c10, 747(4)B7 and 753(3)C10 could all inhibit transmission of DENV in
 low microgram per mL concentrations. An Fc-disabled variant of 14c10 was
 as potent as its parent mAb.   Conclusions/Significance The
 results demonstrate that mAbs can neutralize infectious DENV derived from
 infected human cells, in the matrix of human blood. Coupled with previous
 evidence of their ability to prevent DENV infection of mammalian cells,
 such mAbs could be considered attractive antibody classes to elicit with
 dengue vaccines, or alternatively, for consideration as therapeutic
 candidates.
description: Trung Vu_Antibody
 MS_Data_2018-10-18Data are arranged by 11
 columns and 8,929 rows. Each column shows a variable measured/recorded in
 either patients for mosquitoes. Each row represents data from a
 mosquitoe.
DOI: 10.5061/dryad.qj76320
title: Data from: Baja: a new monospecific genus segregated from Cheilanthes s.l. (Pteridaceae)

description: The phylogenetic position of Cheilanthes brandegeei, a fern endemic to the
 Baja California Peninsula of Mexico, was investigated using three plastid
 markers (atpA, rbcL, trnG-R) and comparative morphology. Here we present
 robust evidence for the recognition of C. brandegeei as a member of the
 bommeriids, the sister clade to all other cheilanthoid ferns; it is sister
 to all Bommeria. Because of its distinctive morphology within the
 bommeriid clade–– pinnate leaf architecture, well-developed
 pseudoindusium, and narrow, concolorous red-brown rhizome scales, here we
 propose the new genus Baja to accommodate it. Our results place Baja
 brandegeei together with other taxa that have a distribution in the Baja
 California Peninsula and mainland Mexico, rather than with hypothesized
 congeners in South America and Africa. Morphological characters
 traditionally used to classify this species as a Cheilanthes (patterns of
 sporangial distribution, presence of a well-developed pseudoindusium, and
 fractiferous petioles) are extensively homoplasious across cheilanthoids.
 We identify three characters that unite the newly-expanded bommeriid
 clade: leaf indument of acicular trichomes, reticulate-cristate perispore
 morphology, and lateral initiation of the gametophyte meristem.
description: AlignmentsThe "Alignment" folder includes the alignments (nexus file) of three plastid markers, atpA, rbcL, and trnGR, and a concatenate dataset (abbreviate as "conc.").TreesThe "Trees" folder include the Bayesian, best Maximum Likelihood (ML_best), Maximum Likelihood bootstrap (ML_BS), best Maximum Parsimony (MP), and Maximum Parsimony bootstrap (MP_BS) trees inferred from the four datasets atpA, rbcL, trnGR, and a concatenate dataset (abbreviate as "conc.").
DOI: 10.5061/dryad.4b240j4
title: Genetic dissection of assortative mating behavior

description: The evolution of new species is made easier when traits under divergent
 ecological selection are also mating cues. Such ecological mating cues are
 now considered more common than previously thought, but we still know
 little about the genetic changes underlying their evolution, or more
 generally about the genetic basis for assortative mating behaviors. Both
 tight physical linkage and the existence of large effect preference loci
 will strengthen genetic associations between behavioral and ecological
 barriers, promoting the evolution of assortative mating. The warning
 patterns of Heliconius melpomene and H. cydno are under disruptive
 selection due to increased predation of non-mimetic hybrids, and are used
 during mate recognition. We carried out a genome-wide quantitative trait
 locus (QTL) analysis of preference behaviors between these species and
 showed that divergent male preference has a simple genetic basis. We
 identify three QTLs that together explain a large proportion (~60%) of the
 differences in preference behavior observed between the parental species.
 One of these QTLs is just 1.2 (0-4.8) cM from the major color pattern gene
 optix, and, individually, all three have a large effect on the preference
 phenotype. Genomic divergence between H. cydno and H. melpomene is high
 but broadly heterogenous, and admixture is reduced at the preference-optix
 color pattern locus, but not the other preference QTL. The simple genetic
 architecture we reveal will facilitate the evolution and maintenance of
 new species despite on-going gene flow by coupling behavioral and
 ecological aspects of reproductive isolation.
description: Raw_data_and_analysisRaw data and analysis code for "Genetic dissection of assortative mating behavior". See readme for detailsanalysis.zip
DOI: 10.5061/dryad.9707661
title: Clinical characteristics of patients hospitalized for ocular chemical injuries in Shanghai from 2012 to 2017

description: Objective: To summarize the clinical characteristics of patients with
 ocular chemical injuries and evaluate their potential relationship with
 the visual outcome by analyzing the medical records of these patients from
 January 1, 2012, to December 31, 2017. Design: A retrospective case series
 study. Setting: Jinshan Hospital of Fudan University in Shanghai. Methods:
 Patient data included age, gender, occupational classification, location
 of ocular chemical injury, initial and final best-corrected distance
 visual acuity (BCDVA), intraocular pressure (IOP), nature and chemical
 phase, distribution and severity of chemical injury, management methods,
 and complications. All variables were evaluated for their potential
 relationship with visual outcome. Results: A total of 160 patients were
 hospitalized with ocular chemical injuries. The majority of the patients
 were factory workers and arrived at the consultation room less than 24
 hours after injury. The most common ocular injury setting, classification
 of severity, causative chemical, chemical phase, and complications were
 workplace, grade Ⅱ, unknown and mixed substance, liquid, and elevated IOP,
 respectively. Initial BCDVA was significantly worse in the solid group
 than in the liquid group (P = 0.009). The risk factors for poor final
 BCDVA were identified as older age, poor initial BCDVA, and irrigation 24
 hours after injury (P &lt; 0.001, P &lt; 0.001, and P = 0.011,
 respectively). Conclusion: We elaborate the clinical characteristics and
 outcomes of patients with ocular chemical injuries in Jinshan District,
 Shanghai. A comprehensive education program should be established and the
 use of protective eyewear should be promoted to prevent occupation-related
 ocular chemical injuries.
description: Clinical characteristics
 of patients hospitalized for ocular chemical injuries in Shanghai from
 2012 to 20171: male; 2:
 femaleData.xlsx
DOI: 10.5061/dryad.sv6t740
title: Data from: Research data sharing: practices and attitudes of geophysicists

description: Open data policies have been introduced by governments, funders, and
 publishers over the past decade. Previous research showed a growing
 recognition by scientists of the benefits of data-sharing and reuse, but
 actual practices lag and are not always compliant with new regulations.
 The goal of this study is to investigate motives, attitudes, and data
 practices of the community of earth and planetary geophysicists, a
 discipline believed to have accepting attitudes towards data sharing and
 reuse. A better understanding of the attitudes and current data-sharing
 practices of this scientific community could enable funders, publishers,
 data managers, and librarians to design systems and services that help
 scientists understand and adhere to mandates and to create practices,
 tools, and services that are scientist-focused. An online survey was
 distributed to the members of the American Geophysical Union (AGU),
 producing 1372 responses from 116 countries. The attitudes of researchers
 to data sharing and reuse were generally positive, but in practice
 scientists had concerns about sharing their own research data. These
 concerns include the possibility of potential data misuse and the need for
 assurance of proper citation and acknowledgement. Training and assistance
 in good data management practices are lacking in many scientific fields
 and might help to alleviate these doubts.
description: Scientists_Second_FollowUpAGUSurvey of geophysicists from the American Geophysical Union on data management attitudes and practices
DOI: 10.5061/dryad.8g68615
title: Phylogenetic conflicts, combinability, and deep phylogenomics in plants

description: Studies have demonstrated that pervasive gene tree conflict underlies
 several important phylogenetic relationships where different species tree
 methods produce conflicting results. Here, we present a means of
 dissecting the phylogenetic signal for alternative resolutions within a
 dataset in order to resolve recalcitrant relationships and, importantly,
 identify what the dataset is unable to resolve. These procedures extend
 upon methods for isolating conflict and concordance involving specific
 candidate relationships and can be used to identify systematic error and
 disambiguate sources of conflict among species tree inference methods. We
 demonstrate these on a large phylogenomic plant dataset. Our results
 support the placement of Amborella as sister to the remaining extant
 angiosperms, Gnetales as sister to pines, and the monophyly of extant
 gymnosperms. Several other contentious relationships, including the
 resolution of relationships within the bryophytes and the eudicots, remain
 uncertain given the low number of supporting gene trees. To address
 whether concatenation of filtered genes amplified phylogenetic signal for
 relationships, we implemented a combinatorial heuristic to test
 combinability of genes. We found that nested conflicts limited the ability
 of data filtering methods to fully ameliorate conflicting signal amongst
 gene trees. These analyses confirmed that the underlying conflicting
 signal does not support broad concatenation of genes. Our approach
 provides a means of dissecting a specific dataset to address deep
 phylogenetic relationships while also identifying the inferential
 boundaries of the dataset.
description: seqs_c1c2_f25
 Sequence files
 used for the analyses.   
 ml_sh_trees
 ML gene trees
 with SH values calculated.   
 comb_run
 Files from the
 combinability runs on the Wickett data.
DOI: 10.5061/dryad.t9g44v3
title: A large-scale systematic framework of Chinese snakes based on a unified multilocus marker system

description: Snakes are one of the most diverse groups of terrestrial vertebrates, with
 approximately 3500 extant species, some of which are closely related to
 human life. A robust phylogeny and taxonomy of snakes is crucial for us to
 know, study, protect and make use of them. For a large group such as
 snakes, cross-study data utilization is important which can be facilitated
 by standardization of the loci used for systematic analyses. In this
 study, we combined 5 mitochondrial markers, 19 vertebrate-universal
 nuclear protein coding (NPC) markers and 72 snake-specific noncoding
 intron markers, and generated a unified multilocus marker system for
 studies of snake systematics. This marker system is an addition to the
 squamate conserved locus set compiled for large-scale sequence capture
 experiments. We applied this marker system to over 440 snake samples and
 constructed the currently most comprehensive systematics framework of the
 snakes in China. Robust snake phylogenetic relationships were recovered at
 both deep and shallow evolutionary depths, demonstrating the usefulness of
 this multilocus marker system. Discordance was revealed by a parallel
 comparison between the snake tree based on our multilocus marker system
 and that based on only the mitochondrial loci, highlighting the necessity
 of using multiple marker types to better understand the snake evolutionary
 histories. The divergence times of different snake groups were estimated
 with the multilocus data set. Our comprehensive snake tree not only
 confirms many important nodes inferred in previous studies but also
 contributes new insights into the phylogenetic relationships among snakes.
 Suggestions are made for the current snake taxonomy.
description: Alignments for
 phylogenyThere are three
 alignments for phylogenetic analysis.Supplementary Figures
 & TablesSupplementary Fig S1-S4
 & Table S1-S3Table
 S4Fossil calibrations used
 in this study for estimating divergence timesSupplementary Figures
 & TablesGenBank accession
 numbers of the newly-generated sequence for 24 genes and 443
 speciesTable S5_accersion_numbers_of
 _newly-gernerated_sequence.xls