cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.1j29991
title: Data from: Segmentation of laterally symmetric overlapping objects: application to images of collective animal behavior

description: Video analysis is currently the main non-intrusive method for the study of
 collective behavior. However, 3D-to-2D projection leads to overlapping of
 observed objects. The situation is further complicated by the absence of
 stall shapes for the majority of living objects. Fortunately, living
 objects often possess a certain symmetry which was used as a basis for
 morphological fingerprinting. This technique allowed us to record forms of
 symmetrical objects in a pose-invariant way. When combined with image
 skeletonization, this gives a robust, nonlinear, optimization-free, and
 fast method for detection of overlapping objects, even without any rigid
 pattern. This novel method was verified on fish (European bass,
 Dicentrarchus labrax, and tiger barbs, Puntius tetrazona) swimming in a
 reasonably small tank, which forced them to exhibit a large variety of
 shapes. Compared with manual detection, the correct number of objects was
 determined for up to almost 90% of overlaps, and the mean Dice-Sørensen
 coefficient was around 0.83. This implies that this method is feasible in
 real-life applications such as toxicity testing.
description: Segmentation of
 Laterally Symmetric Overlapping Objects: Application to Images of
 Collective Animal BehaviourBinary image data and
 source Matlab codes for segmentation/reconstruction of fish in overlaps -
 revised extended versionmorphpaper.zip
DOI: 10.5061/dryad.66mb8nj
title: Data from: Pennellia yalaensis (Brassicaceae: Halimolobeae), a new species from the Andes of Northern Argentina

description: Pennellia yalaensis, a new species of Brassicaceae from Jujuy Province in
 Argentina, is described and illustrated, and its phylogenetic
 relationships with nearest relatives are discussed. This novelty is
 morphologically related to P. boliviensis and P. brachycarpa, which also
 grow in Central Andes of Argentina. However, P. yalaensis clearly differs
 from both species by the plant height, inflorescence type, and petal
 length. In addition, trichomes of the basal leaves distinguish the new
 species from P. boliviensis, and fruit length and number of ovules/seed
 from P. brachycarpa. Phylogenetic analyses, based on DNA sequences of
 nuclear ITS and plastid trnL-F regions, confirmed these affinities.
description: Figure
 S1FIGURE. S1. Bayesian 50%
 majority-rule consensus trees from 6002 trees generated by Bayesian
 inference with MrBayes A. ITS dataset. B. trnL-F dataset. C. Concatenated
 ITS + trnL-F dataset. Circles on nodes indicate Bayesian posterior
 probability. The white arrows indicate phylogenetic position of Pennellia
 yalaensis. Units of branch length are proportional to nucleotide
 substitutions per site.FigS1.pdfITS_alignmentITS alignment of tribe Halimolobeae dataset.trnLF_alignmenttrnL-F alignment of tribe Halimolobeae dataset.ITS_RAxML_ML_bestTreeMaximum likelihood tree for tribe Halimolobeae generated with RAxML using the ITS dataset.trnLF.RAxML_ML_bestTreeMaximum likelihood tree for tribe Halimolobeae generated with RAxML using the trnL-F dataset.ITS+trnLF_RAxML_ML_bestTreeMaximum likelihood tree for tribe Halimolobeae generated with RAxML and using the concatenated ITS+ trnL-F datasets.ITS.con50.MrBayesBayesian 50% majority-rule consensus trees from 6002 trees generated by Bayesian inference with MrBayes for tribe Halimolobeae and the ITS dataset.ITS_TOTAL.trees.MrBayes6002 trees generated by Bayesian inference with MrBayes for tribe Halimolobeae and the ITS dataset.trnLF.con50.MrBayesBayesian 50% majority-rule consensus trees from 6002 trees generated by Bayesian inference with MrBayes for tribe Halimolobeae and the trnL-F dataset.trnLF_TOTAL.trees.MrBayes6002 trees generated by Bayesian inference with MrBayes for tribe Halimolobeae and the trnL-F dataset.ITS+trnLF.con50.MrBayesBayesian 50% majority-rule consensus trees from 6002 trees generated by Bayesian inference with MrBayes for tribe Halimolobeae and the concatenated ITS + trnL-F dataset.ITS+trnLF_TOTAL.trees.MrBayes6002 trees generated by Bayesian inference with MrBayes for tribe Halimolobeae and the concatenated ITS + trnL-F dataset.Appendix 1APPENDIX 1. Specimens examined for morphological studies.Appendix 2APPENDIX 2. Taxa and GenBank accession numbers for the ITS and trnL-F sequences used in the phylogenetic analyses. New sequences generated for this study are indicated by the underlined numbers and also include the specimen vouchers.
DOI: 10.15151/esrf-es-2313091446
title: NO BEAM - samples preparation for HC6338

description: Substitution of Te surface layer of 2D material Te-FeGe-Te, by exposure to H2S in the INS2 UHV chamber (BM32 EH3). Monitoring of the process by electron diffraction.
DOI: 10.5061/dryad.7nr377v
title: Data from: The bHLH family member ZmPTF1 regulates drought tolerance in maize by promoting root development and ABA synthesis

description: Drought stress is the most important environmental stress limiting maize
 production. ZmPTF1, a phosphate starvation-induced basic helix-loop-helix
 (bHLH) transcription factor (TF), contributes to root development and
 low-phosphate tolerance in maize. In this paper, ZmPTF1 expression,
 drought tolerance and the underlying mechanisms were studied by using
 maize ZmPTF1 overexpression lines and mutants. ZmPTF1 was found to be a
 positive regulator of root development, ABA synthesis, signalling pathways
 and drought tolerance. ZmPTF1 was also found to bind to the G-box element
 within the promoter of 9-cis-epoxycarotenoid dioxygenase (NCED),
 C-repeat-binding factor (CBF4), ATAF2/NAC081, NAC30 and other TFs and act
 as a positive regulator of the expression of those genes. The dramatically
 upregulated NCEDs led to increased ABA synthesis and activation of the ABA
 signalling pathway. The upregulated TFs hierarchically regulate the
 expression of the genes involved in root development, stress responses and
 modifications of transcriptional regulation. The improved root system;
 increased ABA content; and activated ABA-, CBF4-, ATAF2- and
 NAC30-mediated stress responses increased the drought tolerance of the
 ZmPTF1 overexpression lines, while the mutants showed opposite trends.
 This study describes a useful gene for transgenic breeding and helps us
 understand the role of a bHLH protein in plant root development and stress
 responses.
description: able S7 Differentially
 expressed genes between ZmPTF1 overexpression line and
 WTThe
 diffeentially expressed genes between ZmPTF1 over expression maize lines
 and WTTable
 S7 Differentially expressed genes between ZmPTF1 overexpression line and
 WT.xlsxDifferentially expressed
 genes between ZmPTF1 and WTZmPTF RNAseq raw
 dataRNA seq raw data of
 ZmPTF1 L+4 line and WT, root of seedling stage plants were
 used.
DOI: 10.5061/dryad.sm0kk00
title: Data from: Taxonomic survey of Agaricomycetes (Fungi: Basidiomycota) in Ontario tallgrass prairies determined by fruiting body and soil rDNA sampling

description: The fungal composition of North America’s grasslands is poorly known, but
 an important area of study due to grassland conservation concerns and
 their close relation to agricultural lands. This study is a survey of
 Agaricomcyetes from fifteen diverse tallgrass prairies across southwestern
 Ontario, determined through fruiting body surveys (above-ground) and
 next-generation sequencing of soil ribosomal DNA (below-ground), and makes
 comparisons between the results of these two techniques. The most species
 rich taxa were the Clavariaceae, Hygrophoraceae, and Entolomataceae, each
 detected by both techniques, with the addition of the Sebacinaceae and
 Polyporaceae sensu lato below-ground, and Hymenogastraceae (Hebeloma spp.)
 and Mycenaceae above-ground. Many of the most abundant species belonged to
 these species-rich taxa and were highly abundant by either technique. The
 above-ground surveys found at least 73 species and the below-ground
 technique 238 operatonal taxonomic units. Although many fine-scale taxa
 (species and approximate families) were unique to one technique or the
 other (only eight genetic species were shared between both), the
 below-ground technique uncovered a greater breadth of higher taxa (mostly
 equivalent to orders), including ones undetected by the above-ground
 technique. A review of grassland fungi surveys around the world shows many
 similarities and the potential for grassland fungal conservation in North
 America. Given current technological advancements and grassland
 conservation concerns, it is prudent to further study North America’s
 grassland fungi.
description: Metadata and
 Supplemental Data Sheets A, B, C, D, and EExcel file containing
 metadata and five sheets of supplementary data. Includes lists for species
 and operational taxonomic units (OTUs), their sequences and GenBank
 accession numbers, placement in minor and major clades referenced in the
 manuscript, and raw quantitative data. The final sheet is a list of
 detailed data for mushroom voucher specimens and
 observations.TaxSurveyAgaricomycetesONTGP_SupplDataABCDE_2019-01-11.xlsxMetadata and Supplemental Data Sheets A, B, C, D, and EZipped collection of six CSV files: metadata and five sheets of supplementary data. Includes lists for species and operational taxonomic units (OTUs), their sequences and GenBank accession numbers, placement in minor and major clades referenced in the manuscript, and raw quantitative data. The final sheet is a list of detailed data for mushroom voucher specimens and observations.TaxSurveyAgaricomycetesONTGP_SupplDataABCDE_2019-01-11.zip
DOI: 10.5061/dryad.6h6s350
title: Data from: Cranial osteology of the Middle Jurassic (Callovian) Martillichthys renwickae (Neopterygii, Pachycormiformes) with comments on the evolution and ecology of edentulous pachycormiforms

description: Our understanding of the ecology and phylogenetic relationships of
 Pachycormiformes, a group of Mesozoic stem teleosts including the iconic
 Leedsichthys, has often been hindered by a lack of comprehensive
 morphological information. Micro‐CT scanning of an articulated, although
 flattened, cranium of the edentulous Martillichthys renwickae from the
 Middle Jurassic (Callovian) Oxford Clay of the UK reveals previously
 unknown internal details of the most complete suspension‐feeding
 pachycormiform skull known, including the palate, braincase and branchial
 skeleton. The latter preserves gill rakers with elongate, pointed
 projections similar to those of Asthenocormus, in contrast to the finer
 fimbriations associated with Leedsichthys. We also reinterpret some
 previously described features, including dermal bone patterns of the
 snout, skull roof and lower jaw, and the morphology of the ventral hyoid
 arch. These new anatomical data reinforce the phylogenetic placement of
 Martillichthys as part of the Jurassic clade of edentulous
 pachycormiforms. The elongate skull geometry of these Jurassic taxa is
 strikingly similar to that of Ohmdenia, the sister taxon to edentulous
 pachycormiforms, but contrasts sharply with the morphology of the Late
 Cretaceous edentulous pachycormiform Bonnerichthys, raising questions over
 the phylogenetic relationships among these taxa. Most significantly,
 Martillichthys shows specialized characters with a restricted phylogenetic
 distribution among suspension‐feeding pachycormiforms, including the
 distinctive gill rakers and a greatly extended occipital stalk. Our
 analysis of Martillichthys supports past interpretations of a close
 relationship with Asthenocormus, and provides a model for interpreting the
 less complete remains of other members of this enigmatic group of fishes.
description: Martillichthys
 PLYsThe 3D PLY files for the
 Martillichthys renwickae CT scanMartillichthys_PLYs.tar.gzMartillichthys NHMUK P61563The mimics file containing the scan data for Martillichthys renwickae (NHM P61563), and segmented structures used for the fossil description and analysis.Martillichthys TIF stackThe TIF stack produced by the Martillichthys renwickae (NHM P61563) scan.Martillichthys-TIF-stack.tarREADMEDetails of the specimen scanned, and the scanning parameters used for the description of Martillichthys renwickae.
DOI: 10.5281/zenodo.18391566
title: Spectral Data for Overlap Matrices from Edwards-Anderson Spin Glasses

description: Data for spin glass matrices.
DOI: 10.5281/zenodo.18391567
title: Spectral Data for Overlap Matrices from Edwards-Anderson Spin Glasses

description: Data for spin glass matrices.
DOI: 10.5061/dryad.k5r2bb0
title: Data from: The Muensterelloidea: phylogeny and character evolution of Mesozoic stem octopods

description: The Muensterelloidea is a superfamily of teudopseid octobrachians with a
 posteriorly patella-shaped gladius. A morphometric comparison based on 148
 muensterelloid gladii has yielded five new species accommodated in three
 new genera: Engeseriteuthis arcuatus gen. nov. sp. nov., Muensterella
 jillae sp. nov., Muensterella spinosa sp. nov., Tyrionella fauseri gen.
 nov. sp. nov., and Muensterellina johnjagti gen. nov. sp. nov. Cretaceous
 taxa “Tusoteuthis” cobbani and “Muensterella” tonii are re-combined and
 placed within the genus Enchoteuthis. We introduce categories for gladius
 proportions applicable for both muensterelloid and non-muensterelloid
 octobrachian gladii. 2D-landmark analyses including 64 muensterelloid and
 non-muensterelloid gladii statistically confirms that the Muensterelloidea
 possess the smallest median field sizes of all Mesozoic gladii. The
 lateral field-dominated “gladius” of the family Patelloctopodidae
 (Patelloctopus, Pearceiteuthis) is considered to be vestigial; i.e.
 shorter than the mantle length; a view that expose the Patelloctopodidae
 as the last shared ancestors of incirrate and cirrate octopods. According
 to a phylogenetic analysis based on 31 gladius characters, the
 Muensterelloidea mainly consists of the “Muensterella-Enchoteuthidae” and
 the “patelloctopodid” clade. Ancestral character state reconstructions
 suggest that an increasing posterior growth front is accompanied by a
 continuous decrease of the median field length. This milestone in the
 evolution of the octopod gladius vestige occurred between the Early and
 Middle Jurassic. The benthic life style of incirrate octopods (including
 Cretaceous palaeoctopodids) has been adopted from Jurassic
 Patelloctopodidae, which itself arose from nectonic to nectobenthic
 teudopseid ancestors. There is currently no evidence to assume a pelagic
 origin for benthic octopods.
description: Appendix
 1_Muensterelloidea_character description3Detailed character
 descriptionAppendix 2_Data
 matrixData matrix including
 cntinuous and discrete charactersAppendix
 3_autapomorphiesAutapomorphies and
 character changes of all nodes
DOI: 10.82294/dvn3ch6hi
title: Entrevistas semiestructuradas. Territorio: Amazonas. Sector Educación. Año: 2024

description: A partir de un proceso de acompañamiento situado, se recopilaron testimonios por medio de entrevistas semiestructuradas durante el año 2024, las cuales indagaron sobre 4 categorías que describían la práctica en educación artística de docentes, cultores, sabedores de la enseñanza del arte, que hacían parte de los programas de formación en educación artística y cultural del sector Educación (educación formal) en la ciudad de Cali.
DOI: 10.5061/dryad.ss27j10
title: Data from: Pawsitively sad: pet-owners are more sensitive to negative emotion in animal distress vocalisations

description: Pets have numerous, effective methods to communicate with their human
 hosts. Perhaps most conspicuous of these are distress vocalisations: in
 cats, the ‘meow’ and in dogs, the ‘whine’ or ‘whimper’. We compared a
 sample of young adults who owned cats and or dogs (“pet owners” n=264) and
 who did not (n=297) on their ratings of the valence of animal distress
 vocalisations, taken from a standardised database of sounds. We also
 examined these participants’ self-reported symptoms of anxiety and
 depression, and their scores on a measure of interpersonal relationship
 functioning. Pet owners rated the animal distress vocalisations as sadder
 than adults who did not own a pet. Cat owners specifically gave the most
 negative ratings of cat meows compared to other participants, but were no
 different in their ratings of other sounds. Dog sounds were rated more
 negatively overall, in fact as negatively as human baby cries. Pet-owning
 adults (cat only, dog only, both) were not significantly different from
 adults with no pets on symptoms of depression, anxiety or on self-reported
 interpersonal relationship functioning. We suggest that pet ownership is
 associated with greater sensitivity to negative emotion in cat and dog
 distress vocalisations.
description: animal-sounds0103Data from participants from the main experiment, prolific online experiment, and analysis of acoustic properties of soundsAnalysis_0103syntax and output for results in the ms
DOI: 10.5061/dryad.7v4p29f
title: Data from: Phylogenetic analysis of the Archaeocidaridae and Palaeozoic Miocidaridae (Echinodermata, Echinoidea) and the origin of crown group echinoids

description: The archaeocidarids comprise the most derived stem group echinoids and
 have long been regarded as closely related to the crown group echinoids.
 The fossil record of echinoids in the Palaeozoic is, however, poor, so
 details surrounding the initial divergence of crown group echinoids are
 not well constrained. In order to better understand the phylogenetic
 relationships of the most derived stem group and most basal crown group
 echinoids, a phylogenetic analysis was undertaken of the Archaeocidaridae,
 including the genera Nortonechinus, Devonocidaris, Lepidocidaris,
 Polytaxicidaris, and Archaeocidaris and the Palaeozoic miocidarid
 cidaroids from the genus Eotiaris. Our analyses find that Archaeocidaris
 appears to be paraphyletic with respect to crown group echinoids.
 Furthermore, we mapped character evolution along our phylogeny and found
 that the diversification of archaeocidarids and miocidarids may be linked
 to large-scale macroecological changes taking place in the Late
 Palaeozoic, including increasing predation pressure and echinoid
 encrustation by epibionts. We compared the stratigraphic distribution of
 archaeocidarid and miocidarid occurrences to our resulting phylogenies,
 and found that the fit of our cladograms to the stratigraphic record of
 archaeocidarid occurrences is worse than other echinoid groups, supporting
 the idea that the imbricate plated archaeocidarids have a poor fossil
 record. In the course of carrying out these analyses, we also felt it
 necessary to describe a new species of Archaeocidaris, Archaeocidaris
 ivanovi n. sp. We also provide novel descriptions and interpretations for
 Devonocidaris primaevus, Archaeocidaris brownwoodensis, Archaeocidaris
 apheles, and revise the synonymy of Archaeocidaris legrandensis and
 ?Eotiaris meurevillensis, which may be a crown group echinoid.
description: Age
 FileA
 file including taxon names and ages for use in the STRAP R package for
 calculation of stratigraphic congruence metrics.Archaeocidaris_Ages.txtCode for STRAP AnalysesR Code to run analyses of stratigraphic congruence used in the manuscript.Archaeocidaris_Plot_Strap_Code_Final.RMPTs ReweightedMost parsimonious trees from the reweighted parsimony analysis and used in STRAP analyses.MPTs_Reweighted.treMPTs UnweightedMost parsimonious trees resulting from unweighted parsimony analysis.MPTs_Unweighted.treStratigraphic Congruence ResultsTable displaying results of stratigraphic congruence analyses.Strat_Fit_Archaeocidaris.csvTable S1Character matrix of archaeocidarid and miocidarid taxa used for phylogenetic analyses.Table_S1.xlsxTable S2SCI, RCI, and GER values and results of significance tests for the six most parsimonious trees resulting from the reweighted parsimony analysis.Table_S2.csv
DOI: 10.5061/dryad.rr48616
title: Data from: Redescription of Macurdablastus and redefinition of Eublastoidea as a clade of Blastoidea (Echinodermata)

description: Eublastoids are a large clade of blastoids, stemmed blastozoan echinoderms
 diagnosed by their conservative body plan (three basals, four deltoid
 plates, and five radial plates), lancet plate supporting the ambulacra,
 and hydrospire respiratory structures. Although Eublastoidea is a highly
 successful clade in the middle and late Paleozoic it is absent from early
 echinoderm radiations during the Cambrian and Ordovician. Here we provide
 a reevaluation of Macurdablastus uniplicatus Broadhead from the Ordovician
 using detailed morphological assessment based on advanced synchrotron
 tomography and phylogenetic analysis. Macurdablastus uniplicatus falls
 outside Eublastoidea because of the morphological differences in lancet
 plate and respiratory structures. The oldest recorded eublastoid is thus
 middle Silurian in age. The re-evaluation of the morphology of
 Macurdablastus provides a basis for revising blastoid phylogeny and
 classification.
description: Supplemental Material
 S1Synchrotron tomographic
 data including modified images that were used to generate SPIERS files
 along with SPIERSedit and SPIERSview files and animation of specimen with
 internal structures outlined in blue.Supplemental Material
 S2List of characters that
 were utilized in the phylogenetic analysis of taxa.Supplemental Material
 S3Character matrixes
 utilized for phylogenetic analyses. Mesquite was used to organize and
 examine the data and PAUP was used to execute phylogenetic analyses. Both
 files are included.Supplemental Material
 S4.
 Includes the maximum parsimony strict consensus tree and single maximum
 likelihood tree with labeled nodes that correspond to the associated
 document that lists out all supporting characters for each of the nodes in
 detail. Underneath are the four most parsimonious trees recovered from the
 maximum parsimony analysis.
DOI: 10.5061/dryad.843814d
title: Data from: Anthropogenic remediation of heavy metals selects against natural microbial remediation

description: In an era of unprecedented environmental change, there have been
 increasing ecological and global public health concerns associated with
 exposure to anthropogenic pollutants. While there is a pressing need to
 remediate polluted ecosystems, human intervention might unwittingly oppose
 selection for natural detoxification, which is primarily carried out by
 microbes. We test this possibility in the context of a ubiquitous chemical
 remediation strategy aimed at targeting metal pollution: the addition of
 lime-containing materials. Here we show that raising pH by liming
 decreased the availability of toxic metals in acidic mine-degraded soils,
 but as a consequence selected against microbial taxa that naturally
 remediate soil through the production of metal-binding siderophores. Our
 results therefore highlight the crucial need to consider the
 eco-evolutionary consequences of human environmental strategies on
 microbial ecosystem services and other traits.
description: The effect of lime
 addtion on microbial siderophore production in polluted soil
 communitiesThe first data sheet in
 this Excel file contains a brief description of the study locations as
 well as data quantifying the effect of lime addition on changes in soil pH
 measured over a time frame of 12 weeks. The second data sheet provides
 information about the availability of 16 heavy metals in limed and control
 soil microbial communities. The third data sheet provides information
 about siderophore production (measured using liquid CAS assays) of 24
 clones per unique community and across three different selection regimes
 (natural, lime and control soil communitiesDryad_Hesse.xlsx