cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.kwh70rz2d
title: Data from: Group-level variation in co-feeding tolerance between two sanctuary-housed communities of chimpanzees (Pan troglodytes)

description: Social tolerance in group-living animals can be viewed as a counterweight
 against competitive interests necessary to obtain coexistence equilibrium
 and maintain group cohesion. As such, it forms an interesting phenomenon
 to study at the group-level, but how can this be done most informatively?
 Here, we use three group-level co-feeding assays and social network
 analysis to study social tolerance in two groups of chimpanzees living
 under similar circumstances within a sanctuary to i) reassess
 whether social tolerance may be a group-specific parameter in chimpanzees
 and derive inferences about its long-term stability, and ii)
 compare the characteristics and resultant patterns between two established
 and one new assay. We show that the three assays expose the same
 (predicted) group-level differences in social tolerance as in the previous
 study eight years ago, thereby providing preliminary evidence for
 stability in group-specific levels of social tolerance in chimpanzees,
 despite changing group compositions. Furthermore, from an experimental
 point of view, we identify the new assay as more valid than the two
 established ones based on the consideration that resources may deplete at
 different rates across groups, which would consequently alter the need for
 tolerance differentially. We discuss implications for the study of social
 tolerance and highlight the importance of taking into account
 intraspecific variation in social animals.
description: Experimental data collected by Van Donink. Data scored from
 video.
description: The data in the file "van Leeuwen_experimental co-feeding
 data" are organized such that each line represents one scan of the
 co-feeding experiment. Each line states the date, the scan, the group in
 which the experiment (assay) took place, the number of co-feeding group
 members and the total number of group members in the enclosure during that
 scan. These data are the input data for the GLMMs as explained in the
 manuscript. The data in the file "van
 Leeuwen_experimental proximity data" are organized such that on each
 sheet per scan the subjects are noted in a single dyadic-format column
 that were in close proximity to each other while co-feeding during the
 experiment. Each sheet corresponds to one assay (separate for each group).
 These data are the input data for the social network analysis as explained
 in the manuscript.
DOI: 10.5061/dryad.1zcrjdfqp
title: Protective behaviour or ‘true’ tool use? Scrutinizing the tool use behaviour of ants

description: In the genus Aphaenogaster, workers use tools to transport liquid food to
 the colony. During this behaviour, ants place or drop various kinds of
 debris into liquid or soft food and then they carry the food-soaked tools
 back to the nest. According to some authors, this behaviour is not ‘true’
 tool use because it represents two separate processes: a defence response
 to cover the dangerous liquid and the transport of food. Here, we
 investigated the debris dropping and retrieving behaviour of the ant
 Aphaenogaster subterranea to establish which of the two hypotheses is more
 probable by conducting manipulative experiments. We tested the responses
 of eight colonies to liquid food (honey-water) and non-food liquids
 (water) in different distances from the nest and to non-threatening
 liquids previously covered or presented as small droplets. We also tested
 whether the nutritional condition of colonies (i.e., starved or satiated)
 would affect the intensity and rate of debris dropping. Our results were
 consistent with the tool-using behaviour hypothesis. Firstly, ants clearly
 differentiated between honey-water and water, and they directed more of
 their foraging effort towards liquids farther from the nest. Secondly,
 ants performed object dropping even into liquids that did not pose the
 danger of drowning or becoming entangled. Lastly, the nutritional
 condition of colonies had a significant effect on the intensity and rate
 of object dropping, but in an opposite direction than we expected. Our
 results suggest that the foraging behaviour of A. subterranea is more
 complex than that predicted by the two-component behaviour hypothesis and
 deserves to be considered as ‘true’ tool-use.
DOI: 10.15468/dl.mvejdk
title: Occurrence Download

description: A dataset containing 1847 species occurrences available in GBIF matching the query:
{
 "and" : [
 "OccurrenceStatus is Present",
 "TaxonKey is Livistona chinensis"
 ]
}

 The dataset includes 1847 records from 178 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002606-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.bk3j9kd8x
title: Phylogenomics and species delimitation for effective conservation of manta and devil rays

description: Practical biodiversity conservation relies on delineation of biologically
 meaningful units. Manta and devil rays (Mobulidae) are threatened
 worldwide, yet morphological similarities and a succession of recent
 taxonomic changes impede the development of an effective conservation
 strategy. Here, we generate genome-wide single nucleotide polymorphism
 (SNP) data from a geographically and taxonomically representative set of
 manta and devil ray samples to reconstruct phylogenetic relationships and
 evaluate species boundaries under the general lineage concept. We show
 that nominal species units supported by alternative data sources
 constitute independently evolving lineages, and find robust evidence for a
 putative new species of manta ray in the Gulf of Mexico. Additionally, we
 uncover substantial incomplete lineage sorting indicating that rapid
 speciation together with standing variation in ancestral populations has
 driven phylogenetic uncertainty within Mobulidae. Finally, we detect
 cryptic diversity in geographically distinct populations, demonstrating
 that management below the species level may be warranted in certain
 species. Overall, our study provides a framework for molecular genetic
 species delimitation that is relevant to wide-ranging taxa of conservation
 concern, and highlights the potential for genomic data to support
 effective management, conservation, and law enforcement strategies.
description: Here we used ddRAD sequencing to reconstruct phylogenetic
 relationships and evaluate species boundaries in manta and devil rays.
 Illumina sequencing was carried out for a geographically and taxonomically
 representative set of over 100 individuals. This repository contains the
 tree topologies contained within the 95% Highest Posterior Density from
 the SNAPP analysis. Demultiplexed ddRAD sequencing reads are stored in the
 European Nucleotide Archive (ENA) under study accession
 PRJEB40372.
description: A repository containing the analysis code to
 reproduce the figures can be found here:
 https://github.com/elhumble/mobulid_phylo
DOI: 10.15468/dl.xyqa9p
title: Occurrence Download

description: A dataset containing 3255 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Prosopium cylindraceum",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 3255 records from 41 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002607-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.5mkkwh748
title: Sound of honeybees during New Year's Eve 2019

description: During the New Year’s Eve 2019, a microphone was placed in a hive, in
 order to analyze the potential changes in the acoustic behavior of the
 honeybees. It turned out that the honeybees produced worker piping
 signals, which are usually signals that are produced shortly before
 takeoff of a swarm, or are the sign of a disturbed colony. This behavior
 was solely observed during this peculiar night. It is hypothesized that
 planetary enhancement of electromagnetic radiation produces a disturbing
 pollution for honeybees, such as during the New Year’s Eve night.
description: The device employed for the recording of the honeybees’ sounds
 consisted of a bidirectional compact microphone (Olympus ME-31) with
 frequency response from 70 to 15,000 Hz connected to a vocal recorder
 (Olympus LS-11). The microphone was placed in the bottom part of the
 hive. The vocal recorder was connected to an external
 battery (Panasonic LC-R123R4P ; https://na.industrial.panasonic.com/) via a 12V-to-4.5V voltage converter (Dupertuis Electronique S.A., Lausanne, Switzerland).
description: Audio file 1. Recording of honey bees during the New Year’s Eve
 2019. Recording is starting at 5:03:00 AM and is lasting 15
 seconds Audio file 2. Recording of honey bees during
 the New Year’s Eve 2019. Recording is starting at 9:40:00 AM and is
 lasting 15 seconds Audio file 3. Recording of honey
 bees during the New Year’s Eve 2019. Recording is starting at 00:22:55 PM
 and is lasting 15 seconds Audio file 4. Recording of
 honey bees during the New Year’s Eve 2019. Recording is starting at
 01:53:50 PM and is lasting 15 seconds Audio file 5.
 Recording of honey bees during the New Year’s Eve 2019. Recording is
 starting at 03:16:35 PM and is lasting 15 seconds Large
 audio file entitled "Honeybees New Year's Eve 2019 Favre".
 Full recording of the honeybees in the hive, starting 17.00 local time the
 31stof December, 2019.
DOI: 10.5061/dryad.d7wm37q04
title: The photoelectrical performance of anodized titanium sheets

description: Anodization is a widely used method to obtain multicolored oxidized
 titanium sheets. However, most researchers paid great attention to the
 color related properties of
 TiO2 nanotube instead of photoelectrical
 properties of titanium oxide film. In this work, to study their
 photoelectrical properties, a series of multicolored oxidized titanium
 sheets were prepared by anodization method, and UV-Vis absorption and
 photocurrents were tested. The anodized titanium sheets not only can be
 used as decoration material such as Jewelry, but also are supposed to be
 used as photoelectrical catalyst. The relationship between
 anodization voltages/anodization durations and
 photocurrents of titanium sheets was studied. Results show that titanium
 sheets have excellent photoelectrical performance. With the
 increase of anodization voltage, number of UV-Vis absorption peaks
 increased under visible light which means increasing absorption. When
 anodization duration increased, absorption band edge also increased in
 visible light region, which means band gap needed to produce charge
 transfer transition decreased. Under simulated sunlight and applied
 voltage of +0.4V, photocurrent increased with the increase of
 either anodization voltage or anodization duration, and can be
 expressed by linear equations respectively. In
 addition, anodization currents were recorded during anodization.
 Morphology, crystal structure and photoelectrical properties of anodized
 titanium sheets were characterized.
description: 1. Anodization current
 recording Universal electric meter
 (Fluck289, USA)                                   Excel and Origin  2. Characterization of crystal
 structure (XRD and Raman)        X-ray diffraction (XRD) patterns
 were obtained through a UItimaIV diffractoneter (Japan). Raman spectra
 were collected on a Micro-Raman spectrometer RM 2000 (Renishaw in
 Via-reflex, 532 nm excitation laser).      Excel Origin   3. UV-Vis absorption   
   Ultraviolet-Visible (UV-Vis)
 spectra were taken with an UV-3900H spectro-photometer (Hitachi, Japan). 
    Excel and
 Origin 4.Photoeletrical performance 
   Photoelectrical
 properties were tested using electrochemical workstation with a solution
 of 0.05 mol L<sup>-1</sup> Na<sub>2</sub>SO<sub>4</sub> as electrolyte. The anodized titanium sheet was used as working electrode, counter electrode was graphite rod, and reference electrode was Ag/AgCl. A 500 W Xenon lamp was placed in front of the working electrode as  simulated sunlight source with wavelength range of 200-900 nm.
description: The names of tables and tables are
 described, includes 5 summary tables.
DOI: 10.5061/dryad.xsj3tx9d4
title: MGMT promoter methylation and IDH mutation detected in 301 patients with GBM

description: The datasets had listed the information of IDH mutation
 or wildtype at c.395G&gt;A and MGMT promoter
 methylation status in 301 samples with GBM.
description: MGMT promoter methylation and IDH mutation were detected by
 sequencing.
description: Variant_Classification of
 each sample was shown in the datasets of IDH1 status
 sheet. Variant_Classification was based on cDNA_Change（c.395G&gt;A is
 for missense_variant，c.395G&gt;G is for wild_type). MGMT promoter_CpG
 was detected by pyrosequencing and was displayed in the datasets of the
 MGMT promoter status sheet. The samples were considered MGMT promoter
 methylated with average methylation of &gt;10% in MGMT
 promoter_CpG.
DOI: 10.5061/dryad.h9w0vt4gb
title: Data from: Sensing the structural characteristics of surfaces: Texture encoding by a bottom-dwelling fish

description: The texture of contacted surfaces influences our perception of the
 physical environment and modulates behavior. Texture perception and its
 neural encoding mechanisms have traditionally been studied in the primate
 hand, yet animals of all types live in richly textured environments and
 regularly interact with textured surfaces. Here we explore texture
 sensation in a different type of vertebrate limb by investigating touch
 and potential texture encoding mechanisms in the pectoral fins of fishes,
 the forelimb homologs. We investigated the pectoral fins of the round goby
 (Neogobius melanostomus), a bottom-dwelling species that lives on
 substrate types of varying roughness and whose fins frequently contact the
 bottom. Analysis shows that the receptive field sizes of fin ray afferents
 are small and afferents exhibit response properties to tactile motion that
 are consistent with those of primates and other animals studied
 previously. In response to a periodic stimulus (coarse gratings),
 afferents phase lock to the stimulus temporal frequency and thus can
 provide information about surface texture. These data demonstrate that
 fish can have the capability to sense the tactile features of their near
 range physical environment with fins.
DOI: 10.5061/dryad.31zcrjdjc
title: Elevation alters outcome of competition between resident and range-shifting species

description: Species’ geographic range shifts towards higher latitudes and elevations
 are among the most frequently reported consequences of climate change.
 However, the role of species interactions in setting range margins remains
 poorly understood. We used cage experiments in ponds to test competing
 hypotheses about the role of abiotic and biotic mechanisms for structuring
 range boundaries of an up-slope range-shifting caddisfly Limnephilus
 picturatus. We found that competition with a ubiquitous species
 Limnephilus externus significantly decreased L. picturatus survival and
 emergence at subalpine elevations supporting the notion that species
 interactions play a critical role in determining up-slope range limits.
 However, without competitors, L. picturatus survival was greater at
 high-elevation than low-elevation sites. This was contrary to decreases in
 body mass (a proxy for fecundity) with elevation regardless of the
 presence of competitors. We ultimately show that species interactions can
 be important for setting up-slope range margins. Yet our results also
 highlight the complications in defining what may be abiotically stressful
 for this species and the importance of considering multiple demographic
 variables. Understanding how species ranges will respond in a changing
 climate will require quantifying species interactions and how they are
 influenced by the abiotic context in which they play out.
description: le = <em>Limnephilus externus</em>
 lp = <em>Limnephilus picturatus</em>
DOI: 10.15468/dl.8aggxp
title: Occurrence Download

description: A dataset containing 216 species occurrences available in GBIF matching the query:
{
 "and" : [
 "OccurrenceStatus is Present",
 "TaxonKey is Anaphalis javanica",
 "Year 1000-2005"
 ]
}

 The dataset includes 216 records from 26 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002608-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.gtht76hk0
title: Rise and fall of †Pycnodontiformes: Diversity, competition and extinction of a successful fish clade

description: Pycnodontiformes was a successful lineage of primarily marine fishes that
 broadly diversified during the Mesozoic. They possessed a wide variety of
 body shapes and were adapted to a broad range of food sources. Two other
 neopterygian clades possessing similar ecological adaptations in both body
 morphology (Dapediiformes) and dentition (Ginglymodi) also occurred in
 Mesozoic seas. Although these groups occupied the same marine ecosystems,
 the role that competitive exclusion and niche partitioning played in their
 ability to survive alongside each other remains unknown. Using geometric
 morphometrics on both the lower jaw (as constraint for feeding adaptation)
 and body shape (as constraint for habitat adaptation), we show that while
 dapediiforms and ginglymodians occupy similar lower jaw morphospace,
 pycnodontiforms are completely separate. Separation also occurs between
 the clades in body shape so that competition reduction between
 pycnodontiforms and the other two clades would have resulted in niche
 partitioning. Competition within pycnodontiforms seemingly was reduced
 further by evolving different feeding strategies as shown by disparate jaw
 shapes that also indicate high levels of plasticity. Acanthomorpha was a
 teleostean clade that evolved later in the Mesozoic and which has been
 regarded as implicated in driving the pycnodontiforms to extinction.
 Although they share similar body shapes, no coeval acanthomorphs had
 similar jaw shapes or dentitions for dealing with hard prey like
 pycnodontiforms do and so their success being a factor in pycnodontiform
 extinction is unlikely. Sea surface temperature and eustatic variations
 also had no impact on pycnodontiform diversity patterns according to our
 results. Conversely, the occurrence and number of available reefs and
 hardgrounds as habitats through time seems to be the main factor in
 pycnodontiform success. Decline in such habitats during the Late
 Cretaceous and Palaeogene might have had deleterious consequences for
 pycnodontiform diversity. Acanthomorphs occupied the niches of
 pycnodontiforms during the terminal phase of their existence.
DOI: 10.5061/dryad.h9w0vt4gc
title: Measure of leaf area removed by insects in plants growing on gaps with and without ant gardens

description: This databank compreend the instantaneous measure of leaf area removed by
 insects in 5 leaves of 1306 plants growing on gaps with and
 without ant gardens. The ant gardens (AGs) are associations of epyfites,
 planted and mantained by mutualistic ants whose defend this plants agaist
 herbivores. The ants are not restricted to the AGs, but instead, forage
 for food, particularly extrafloral nectar of plants growing along the gap
 area. Particularly on Amazon forest, the most frequently ants
 associated to AGs are Crematogaster levior (Myrmicinae) and Camponotus
 femoratus (Formicinae), living together in the AGS in a parabiotic
 association and present in all AGs studied. The idea of the study behind
 the collection of these data is to determine if the proptective role of
 the AG ants can be extrapolated to the plants growing on the gap. So, we
 determined the effect of there extremely agressive ants on the herbivory
 of treelets and shrubs growing on the gap area.  
description: The herbivory was taken between 27-Apr to 15-May-2015, in two
 forested sites of the Biodiversity Research Program (PPBio) in southern
 Amazonia. The distance botween the sites are about 15 km and both is
 located on the Continental farm, municipality of Cláudia, Mato Grosso,
 Brazil. The cordinates sites is: Site I (11°34’S, 55°17’W); Site II
 (11°35’S, 55°17'W).  Along 24 Km (12 KM in each site) of trails we
 found treefall gaps with (16) and without (17) ant gardens growing on the
 trees. In each of those gaps, 20 individuals of shrubs and treelets with
 extrafloral nectaries (EFN), and the same number of plants with
 approximately the same height, but without EFN were taken. In some gaps,
 however, the numbers of plants taken did not reach 20 individuals. For
 each plant, the proportion of leaf area removed by herbivores were
 measurred on five (5) apical leaves. 
description: The README file was uploaded in the second sheet on the same
 file. For any explanation and permits, please contact:
 izzothiago@gmail.com
DOI: 10.5061/dryad.dfn2z34zv
title: Global patterns of rainfall partitioning by invasive woody plants

description: Aim: Invasive species have the potential to alter hydrological processes
 by changing the local water balance. However, general patterns of how
 rainfall is partitioned into interception, throughfall and stemflow for
 invasive species worldwide have been seldom explored. We (a) describe the
 percentage of interception, throughfall and stemflow for the invasive
 woody plant species; (b) analyse the influence of morphological attributes
 (i.e., life-form, bark roughness, leaf type, leaf phenology and leaf area
 index) of invasive species on rainfall partitioning; and (c)
  compare the rainfall partitioning fluxes for co-occurring
 invasive and native species, testing whether these fluxes variation
 depends on water availability of the study location. Location: Global.
 Time period: Present. Major taxa studied: Plants. Methods: We compiled
 data of 100 studies that assessed rainfall partitioning by invasive
 species (N=67) and registered their morphological attributes. By means of
 a meta-analysis we compared the rainfall partitioning by native and
 invasive species (N=47 comparisons) and assessed how their fluxes were
 affected by water availability. Results: Interception, throughfall and
 stemflow ranged from 1.6 - 59.5%, 39.1 - 92.7% and 0.1 - 31.6% of total
 rainfall, respectively. The bark roughness and leaf type were the most
 important attributes driving rainfall partitioning fluxes. While
 rough-barked species constrain rainfall inputs by promoting higher losses
 due to interception, smooth-barked species with broadleaves enhance the
 amount of rainwater reaching the soil by maximizing stemflow. For
 pair-wise comparisons, invasive species have higher stemflow values than
 native species for both drylands and humid areas, and higher throughfall
 in drylands, but less in humid areas. Main conclusions: Our findings
 suggest that specific morphological attributes of invasive species
 determine higher localized water inputs, which may represent an
 ecohydrological advantage, particularly in water-limited ecosystems. These
 insights also suggest that the ecological role of stemflow, throughfall
 and interception should be considered in future plant invasions research.
description: Whitworth-Hulse_Global_Rainfall_Partitioning_Database<br>
 Database of rainfall partitioning and morphological characteristics for
 woody plant species, and water availability on species location. More
 details in the Metadata and Readme sheet in the file.