cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.qjq2bvqk2
title: Tutorial video for: A toolbox for the retrodeformation and muscle reconstruction of fossil specimens in Blender

description: Accurate muscle reconstructions can offer new information on the anatomy
 of fossil organisms and are also important for biomechanical analysis
 (multibody dynamics and finite element analysis). For the sake of
 simplicity, muscles are often modeled as point-to-point strands or frustra
 (cut off cones) in biomechanical models. However, there are cases in which
 it is useful to model the muscle morphology in 3D, to better examine the
 effects of muscle shape and size. This is especially important for fossil
 analyses, where muscle force is estimated from the reconstructed muscle
 morphology (rather than based on data collected in vivo). The two main
 aims of this paper are as follows. First, we created a new interactive
 tool in the free open access software Blender to enable interactive 3D
 modeling of muscles. This approach can be applied to both palaeontological
 and human biomechanics research to generate muscle force magnitudes and
 lines of action for finite element analysis. Second, we provide a guide on
 how to use existing Blender tools to reconstruct distorted or incomplete
 specimens. This guide is aimed at palaeontologists but can also be used by
 anatomists working with damaged specimens or to test functional
 implication of hypothetical morphologies.
description: This video demonstrates use of the Blender add-on. The Python
 code for the add-on, as well as installation instructions, can be found on
 Github (https://github.com/evaherbst/MyoGenerator). If using this add-on, please cite our paper as well as the Zenodo DOI for the Github release (doi.org/10.5281/zenodo.6914448).
description: Note that this add-on has been tested and works on v. 2.91.0 -
 2.93.0 of Blender. Older or newer versions may break the code.
DOI: 10.5061/dryad.hdr7sqvm6
title: Acoustic data of calls of Manx shearwater on Lundy Island

description: Vocalizations are widely used to signal behavioural intention in animal
 communication, but may also carry additional information encoded in the
 signal, in particular, vocalisations may carry acoustic signatures unique
 to the calling individual. Manx shearwater (Puffinus puffinus) are
 nocturnal seabirds that breed in dense colonies, where they must recognize
 and locate mates among thousands of conspecifics calling in the dark.
 There is evidence for individual vocal signatures in two shearwater
 species, but quantitative data on the vocalisations of Manx
 shearwater are lacking. We recorded calls of 13 Manx shearwaters on Lundy
 Island, UK, by eliciting vocal responses to playback of conspecific calls.
 We measured several spectral and temporal parameters of the calls, applied
 linear discriminate analysis with leave-one-out cross-validation, and have
 confirmed the individual vocal signatures. We then calculated
 among-individual repeatability of 34 features describing the vocalization
 to determine the extent to which these features may contribute to
 individual signature coding. We found that calls cluster by individual in
 both temporal and spectral characteristics, suggesting these are
 contributing to Manx shearwaters’ unique call signatures.
DOI: 10.5061/dryad.tx95x6b1g
title: SUMOylation of NaV1.2 channels regulates the velocity of backpropagating action potentials in cortical pyramidal neurons

description: Voltage-gated sodium channels located in axon initial segments (AIS)
 trigger action potentials (AP) and play pivotal roles in the excitability
 of cortical pyramidal neurons. The differential electrophysiological
 properties and distributions of NaV1.2 and NaV1.6 channels lead to
 distinct contributions to AP initiation and backpropagation.
  While NaV1.6 at the distal AIS promotes AP initiation and
 forward propagation, NaV1.2 at the proximal AIS promotes backpropagation
 of APs to the soma.  Here, we show the Small Ubiquitin-like
 Modifier (SUMO) pathway modulates persistent sodium current (INaP)
 generation at the AIS to increase neuronal gain and the speed of
 backpropagation.  Since SUMO does not affect NaV1.6, these
 effects were attributed to SUMOylation of NaV1.2.  Moreover, SUMO
 effects were absent in a mouse engineered to express NaV1.2-Lys38Gln
 channels that lack the site for SUMO linkage.  Thus, SUMOylation
 of NaV1.2 exclusively controls INaP generation and AP backpropagation,
 thereby playing a prominent role in synaptic integration and plasticity.
description: The data set includes experimental data obtained in whole-cell
 recordings from L5 mouse pyramidal neurons in cortical brain slices.  The
 recordings were done in the current clamp (Figures 1-3, 6) or voltage
 clamp (Figures 4,5) mode, using hardware and software from Molecular
 Devices.  Figure 7 presents the results of the dual whole cell (soma) and
 loose patch (axon) recordings obtained using hardware and software from
 Molecular Devices.  In part of the experiments, fast
 fluorescence imaging of the Na<sup>+</sup> indicator, SBFI,
 was performed along with the electrical recording.  Fluorescence data were
 obtained and analyzed using hardware and software from RedShirtImaging.
 Compartmental modeling was done using the Neuron 8.1 simulation
 environment.
description: Electrical recordings (PClamp 9, Microcal Origin 6)
 Fast fluorescence imaging (Neuroplex, RedShirt Imaging)
 Compartmental modeling (Neuron, Yale)
DOI: 10.5061/dryad.zcrjdfngh
title: Meliodosis risk factors, Udupi, India, 2018

description: We initiated an epidemiological investigation following the death of a
 previously healthy 17 year-old boy with neuro-melioidosis. A case was
 defined as a culture-confirmed melioidosis patient from Udupi district
 admitted to hospital A from January 2013 - July 2018. For the case control
 study, we enrolled a subset of cases admitted to hospital A from January
 2017- July 2018. A control was resident of Udupi district admitted to
 hospital A in July  2018 with a non-infectious condition. Using a
 matched case-control design, we compared each case to 3 controls using age
 and sex groups. We assessed for risk factors related to water storage,
 activities of daily living, injuries and environmental exposures (three
 months prior to hospitalization), using conditional regression analysis.
 We identified 50 cases with case fatality rate 16%. Uncontrolled diabetes
 mellitus was present in 84% cases and 66% of cases occurred between May
 and October (rainy season). Percutaneous inoculation through exposure to
 stagnant water and injury leading to breakage in the skin were identified
 as an important mode of transmission. We used these findings to develop a
 surveillance case definition and initiated training of the district
 laboratory for melioidosis diagnosis.
description: For cases, we collected clinical and laboratory data and created
 a line list without patient identifiers. Clinical data was available for
 patients attending the hospital after 2016. All controls were selected
 from the hospital admission records. We collected risk factor data for
 both cases and controls.
description: Microsoft excel
DOI: 10.5281/zenodo.18400887
title: Data from Stark and Manninen: Plant δ15N signatures in historical reindeer corrals in boreal forests show long-term immobilization of animal-derived nitrogen in bryophytes and plant litter

description: This datafile consists the biomasses of the dominant understorey plant species and functional types as well as their δ15N an δ13C signatures in 26 control forests and historical reindeer (Rangifer tarandus L.) corrals used in animal husbandry between late 1800’s to early 1960’s. The forest sites were assigned to two forest types that represent different levels of site productivity: mesic forests (high productivity; N = 8) and sub-xeric forests (low productivity, N = 18).
DOI: 10.5281/zenodo.18400886
title: Data from Stark and Manninen: Plant δ15N signatures in historical reindeer corrals in boreal forests show long-term immobilization of animal-derived nitrogen in bryophytes and plant litter

description: This datafile consists the biomasses of the dominant understorey plant species and functional types as well as their δ15N an δ13C signatures in 26 control forests and historical reindeer (Rangifer tarandus L.) corrals used in animal husbandry between late 1800’s to early 1960’s. The forest sites were assigned to two forest types that represent different levels of site productivity: mesic forests (high productivity; N = 8) and sub-xeric forests (low productivity, N = 18).
DOI: 10.15468/dl.cmu9pf
title: Occurrence Download

description: A dataset containing 16063 species occurrences available in GBIF matching the query:
{
 "and" : [
 "DatasetKey is USDA United States National Fungus Collections",
 "Country is Sweden"
 ]
}

 The dataset includes 16063 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003193-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.9s4mw6mkb
title: Phase contrast images of Hierodula membranacea spermatocytes in metaphase I

description: These are phase contrast images of Hierodula membranacea primary
 spermatocytes.  For each image, 608 px=10 µm.
description: Living cells in meiosis I were imaged using a Zeiss inverted
 microscope equipped with a 100× 1.25 NA phase-contrast, oil immersion
 objective and an Infinity 1 camera with Infinity Analyze software.  These
 are raw, unprocessed images.  For each image, 608 px=10 µm.
description: Any software that allows observation of jpg files will open these
 data files (e.g. imageJ, Adobe Photoshop).
DOI: 10.6071/m3k39s
title: Transcriptome assemblies associated with: A cnidarian phylogenomic tree fitted with hundreds of 18S leaves

description: Cnidarians have been an experimental system for a diversity of research
 areas ranging from development to biomechanics to global change biology.
 Yet we still lack a well-resolved, taxonomically balanced, cnidarian tree
 of life to place this research in appropriate phylogenetic context. To
 move towards this goal, we combined data from 26 new anthozoan
 transcriptomes with 86 previously published cnidarian and outgroup
 datasets to generate two 748-locus alignments containing 123,051 (trimmed)
 and 449,935 (untrimmed) amino acids. We estimated maximum likelihood
 phylogenies for both matrices under partitioned and unpartitioned
 site-homogeneous and site-heterogenous models of substitution. We used the
 resulting topology to constrain a phylogenetic analysis of 1,814 small
 subunit ribosomal (18S) gene sequences from GenBank. Our results confirm
 the position of Ceriantharia (tube-dwelling anemones), a historically
 recalcitrant group, as sister to Hexacorallia across all phylogenies
 regardless of data matrix or model choice. We also find unanimous support
 for the sister relationship of Endocnidozoa and Medusozoa and propose the
 name Operculozoa for the clade uniting these taxa. Our 18S hybrid
 phylogeny provides insight into relationships of 15% of extant taxa.
 Together these data are an invaluable resource for comparative cnidarian
 research and provide perspective on the future of cnidarian systematics.
DOI: 10.5061/dryad.vx0k6djvt
title: The evolution of dynamic and flexible courtship displays that reveal individual quality

description: Abstract Sexual selection is a major force shaping morphological and
 behavioral diversity. Existing theory focuses on courtship display traits
 such as morphological ornaments whose costs and benefits are assumed be to
 fixed across individuals’ lifetimes. In contrast, empirically observed
 displays are often inherently dynamic, as vividly illustrated by the
 acrobatic dances, loud vocalizations, and vigorous motor displays involved
 in courtship behavior across a broad range of taxa. One empirically
 observed form of display flexibility occurs when signalers adjust their
 courtship investment based on the number of rival signalers. The
 predictions of established sexual selection theory cannot readily be
 extended to such displays because display expression varies between
 courtship events, such that any given display may not reliably reflect
 signaler quality. We thus lack an understanding of how dynamic displays
 coevolve with sexual preferences and how signalers should tactically
 adjust their display investment across multiple courtship opportunities.
 To address these questions, we extended an established model of the
 coevolution of a female sexual preference and a male display trait to
 allow for flexible, dynamic displays. We find that such a display can
 coevolve with a sexual preference away from their naturally selected
 optima, though display intensity is a weaker signal of male quality than
 for non-flexible displays. Furthermore, we find that males evolve to
 decrease their display investment when displaying alongside more rivals.
 This research represents a first step towards generalizing the findings of
 sexual selection theory to account for the ubiquitous dynamism of animal
 courtship. Significance statement Animal courtship displays are typically
 costly for survival: songs attract predators; dances are exhausting;
 extravagant plumage is cumbersome. Because of the trade-off between mating
 benefits and survival costs, displaying individuals often vary their
 displays across time, courting more intensely when the potential benefit
 is higher or the cost is lower. Despite the ubiquity of such adjustment in
 nature, existing theory cannot account for how this flexibility might
 affect the coevolution of displays with sexual preferences, nor for the
 patterns of tactical display adjustment that might result, because those
 models treat displays as static, with fixed costs and benefits.
 Generalizing a well-studied model of sexual selection, we find that a
 static display and a flexible display can evolve under similar conditions.
 Our model predicts that courtship should be less intense when more
 competitors are present.
description: The model is written in the C and C++ languages.
DOI: 10.5061/dryad.hmgqnk9kz
title: The evolution of conspicuousness in frogs: when to signal toxicity?

description: Many organisms use conspicuous color patterns to advertise their toxicity
 or unpalatability, a strategy known as aposematism. Despite the recognized
 benefits of this antipredator tactic, not all chemically defended species
 exhibit warning coloration. Here, we use a comparative approach to
 investigate which factors predict the evolution of conspicuousness in
 frogs, a group in which conspicuous coloration and toxicity have evolved
 multiple times. We extracted color information from dorsal and ventral
 photos of 594 frog species for which chemical defense information was
 available. Our results show that chemically defended and diurnal species
 have higher internal chromatic contrast, both ventrally and dorsally, than
 chemically undefended and/or nocturnal species. Among species that are
 chemically defended, conspicuous coloration is more likely to occur if
 species are diurnal. Our results also suggest that the evolution of
 conspicuous color is more likely to occur in chemically defended prey with
 smaller body size. We discuss potential explanations for this association
 and suggest that prey profitability (related to body size) could be an
 important force driving the macroevolution of warning signals.
description: The dataset attached includes colour information for 594 species
 of frogs, extracted from photographs (from this study). It also contains
 additional variables employed in the comparative analysis. These variables
 were extracted from sources described in the methods of the paper, and
 include the presence of chemical defences and the time of activity
 (diurnal/nocturnal).  Each row represents a different
 species and the names match the phylogeny of Jetz & Pyron
 (2018).  Files also contain the links to the
 photographs (dorsal and ventral) used for each species, and the raw values
 of colouration extracted (RGB pixel values for each colour
 extracted). 
description: The datasets can be accesed using excel.
DOI: 10.5281/zenodo.18401059
title: Ensemble climatic suitability model outputs and minimal code for Glossina across Africa

description: This repository provides ensemble climatic suitability raster outputs and minimal modelling code supporting the study “Climate change drives widespread erosion and spatial reorganization of climatic suitability for Glossina across Africa”.

The archived data include ensemble mean climatic suitability maps for present-day conditions and future projections under SSP1-2.6 and SSP5-8.5 for the period 2021–2040, based on the BCC-CSM2-MR climate model.

The modelling code is provided in a minimal form to document the analytical workflow and modelling logic, and is intended for inspection and transparency rather than full reproduction of all analyses.

Occurrence data were obtained from the Global Biodiversity Information Facility (GBIF; https://doi.org/10.15468/dl.4cpjht). Climatic variables were derived from publicly available datasets including WorldClim and CMIP6 climate projections.
DOI: 10.5281/zenodo.18401060
title: Ensemble climatic suitability model outputs and minimal code for Glossina across Africa

description: This repository provides ensemble climatic suitability raster outputs and minimal modelling code supporting the study “Climate change drives widespread erosion and spatial reorganization of climatic suitability for Glossina across Africa”.

The archived data include ensemble mean climatic suitability maps for present-day conditions and future projections under SSP1-2.6 and SSP5-8.5 for the period 2021–2040, based on the BCC-CSM2-MR climate model.

The modelling code is provided in a minimal form to document the analytical workflow and modelling logic, and is intended for inspection and transparency rather than full reproduction of all analyses.

Occurrence data were obtained from the Global Biodiversity Information Facility (GBIF; https://doi.org/10.15468/dl.4cpjht). Climatic variables were derived from publicly available datasets including WorldClim and CMIP6 climate projections.
DOI: 10.5061/dryad.gmsbcc2rf
title: Personality-mediated speed-accuracy tradeoffs in mating in a 17-year periodical cicada

description: There exists growing evidence that animal personality (consistent between
 individual differences in behavior) can influence an individual’s fitness.
 Furthermore, limitations in behavioral plasticity may cause
 personality-mediated tradeoffs to occur, for example, between speed and
 accuracy in decision making. We explored whether various measures of
 personality could predict speed-accuracy tradeoffs in mate selection using
 Pharaoh cicadas (Magicicada septendecim) and examined the phenotypic
 traits predicting male mating performance and advertisement rates. We
 assessed whether male exploration behavior, boldness, and weight, could
 predict a male’s overall copulation attempt rate (the number of attempted
 copulations with conspecifics of either sex), the number of errors a male
 made when selecting a mate (the number of same-sex copulation attempts),
 and male reproductive performance (whether a male successfully copulated
 with a female). We also assessed whether personality-dependent variation
 in male advertisement rate (the number of calling song bouts) might
 underpin the correlation between exploration behavior and mating
 performance. Although male exploration behavior did not predict male
 advertisement rate, we found that faster-exploring males exhibited higher
 overall rates of attempted copulations while also attempting more same-sex
 copulations, compared to slower-exploring males, suggesting a
 personality-mediated speed-accuracy tradeoff. Despite making more mate
 choice errors, however, faster explorers were more likely to successfully
 copulate with females, compared to slower explorers, indicating that speed
 may be favored over accuracy in systems where heavily male-biased sex
 ratios lead to scramble competition. Overall, this work highlights the
 role of personality in sexual selection and demonstrates that personality
 can influence speed-accuracy trade-offs in mating.
description: Behavioral data was manually collected.
description: Excel; R
DOI: 10.25338/b8xw7g
title: The emergence and development of behavioral individuality in clonal fish

description: Behavioral individuality is a ubiquitous phenomenon in animal populations,
 yet the origins and developmental trajectories of individuality,
 especially very early in life, are still a black box. Using a
 high-resolution tracking system, we mapped the behavioral trajectories of
 genetically identical fish (Poecilia formosa), separated immediately after
 birth into identical environments, over the first 10 weeks of their life
 at 3s resolution. We find that (i) strong behavioral individuality is
 present at the very first day after birth, (ii) behavioral differences at
 day 1 of life predict behavior up to at least 10 weeks later, and (iii)
 patterns of individuality strengthen gradually over developmental time.
 Our results establish a null model for how behavioral individuality can
 develop in the absence of genetic and environmental variation and provide
 experimental evidence that later-in-life individuality can be strongly
 shaped by factors pre-dating birth like maternal provisioning,
 epigenetics, and pre-birth developmental stochasticity.
DOI: 10.15468/dl.ng9vqu
title: Occurrence Download

description: A dataset containing 5531 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Cloeon simile"
 ]
}

 The dataset includes 5531 records from 104 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003197-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.