cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.2kh498h
title: Data from: Lipid content influences division of labour in a clonal ant

description: The fat body, a major metabolic hub in insects, is involved in many
 functions, such as energy storage, nutrient sensing, and immune response.
 In social insects, fat appears to play an additional role in division of
 labour between egg-layers and workers, which specialize in
 non-reproductive tasks inside and outside their nest. For instance,
 reproductives are more resistant to starvation, and changes in fat content
 have been associated with the transition from inside to outside work or
 reproductive activities. However, most studies remained correlative and we
 still need to unravel the causal interrelations between fat content, and
 division of both reproductive and non-reproductive labour. Clonal ants,
 such as Platythyrea punctata, are ideal models for studying task
 partitioning without confounding variation in genotype and morphology. In
 this study, we examined the range of variation and flexibility of fat
 content throughout the lifespan of workers, the thresholds of corpulence
 associated with foraging or reproduction and whether low fat content is a
 cause rather than a consequence of the transition to foraging. We found
 that lipid stores change with division of labour from corpulent to lean
 and, in reverted nurses, back to corpulent. In addition, our data show the
 presence of fat content thresholds that trigger the onset of foraging or
 egg laying behaviour. Our study supports the view that mechanisms that
 regulate reproduction and foraging in solitary insects, in particular the
 nutritional status of individuals, have been co-opted to regulate division
 of labour in colonies of social insects.
description: See README file for
 further instruction.
DOI: 10.5061/dryad.1rr8f1s
title: Data from: A palaeolimnological perspective to understand regime-shift dynamics in two Yangtze-basin lakes

description: Natural and human disturbances have caused widespread regime shifts in
 shallow lakes of the lower Yangtze basin (LYB, China) resulting in a
 severe decline of ecosystem services. Improved understanding of the
 relationship between environmental forcing and ecosystem response, and the
 mechanisms behind regime shifts has significant implications for
 management. However, the patterns of these regime shifts and the
 underlying internal mechanisms, are less known. In this study, two typical
 lakes (Chaohu and Zhangdu) from the LYB were selected to determine the
 trajectories of ecological regime shifts, both of which transitioned from
 vegetation- to plankton-dominated states several decades ago. Ecological
 trajectories since the 1900s in both lakes were reconstructed using
 palaeolimnological proxies, mainly diatom assemblages. Although results
 show that regime shifts occurred in both lakes in the 1970s and the 1950s
 respectively, their inherent mechanisms were different. In Lake Zhangdu,
 altered hydrological conditions pushed the ecosystem across an ecological
 threshold, providing an example of a driver-mediated regime shift. In Lake
 Chaohu, ongoing nutrient loading influenced ecosystem processes and drove
 the lake to an alternative stable state, potentially presenting an example
 of a critical transition after a loss of resilience. This research
 indicates that palaeolimnological perspectives can provide insights into
 regime-shift changes, as well as important information regarding which
 restoration methods should be tailored to individual lakes.
description: Data for deposit
 20190808Diatom data in Lake
 Chaohu and Lake Zhangdu, and all data referred in the
 manuscript.
DOI: 10.5061/dryad.d4md86r
title: Data from: Vestigial auriculomotor activity indicates the direction of auditory attention in humans

description: Unlike dogs and cats, people do not point their ears as they focus
 attention on novel, salient, or task-relevant stimuli. Our species may
 nevertheless have retained a vestigial pinna-orienting system that has
 persisted as a ”neural fossil” within in the brain for about 25 million
 years. Consistent with this hypothesis, we demonstrate that the direction
 of auditory attention is reflected in sustained electrical activity of
 muscles within the vestigial auriculomotor system. Surface electromyograms
 (EMGs) were taken from muscles that either move the pinna or alter its
 shape. To assess reflexive, stimulus-driven attention we presented novel
 sounds from speakers at four different lateral locations while the
 participants silently read a boring text in front of them. To test
 voluntary, goal-directed attention we instructed participants to listen to
 a short story coming from one of these speakers, while ignoring a
 competing story from the corresponding speaker on the opposite side. In
 both experiments, EMG recordings showed larger activity at the ear on the
 side of the attended stimulus, but with slightly different patterns.
 Upward movement (perking) differed according to the lateral focus of
 attention only during voluntary orienting; rearward folding of the pinna’s
 upper-lateral edge exhibited such differences only during reflexive
 orienting. The existence of a pinna-orienting system in humans, one that
 is experimentally accessible, offers opportunities for basic as well as
 applied science.
description: endogenous_experiment_data Matlab 2019a .mat data files for the endogenous experiment (experiment 2).     exogenous_experiment_preprocessed_data Matlab 2019a .mat data files for the exogenous experiment (experiment 1).     exogenousEndogenousStatistics Detailed printouts from the statistical inference for the exogenous and endogenous experiment performed with IBM SPSS Statistics 26.
DOI: 10.5061/dryad.737c8t8
title: Data from: Higher-level phylogeny and reclassification of Lampyridae (Coleoptera: Elateroidea)

description: Fireflies (Lampyridae) are a diverse family of beetles which exhibit an
 array of morphologies including varying antennal and photic organ
 morphologies. Due in part to their morphological diversity, the
 classification within the Lampyridae has long been in flux. Here we use an
 anchored hybrid enrichment approach to reconstruct the most extensive
 molecular phylogeny of Lampyridae to date (436 loci and 98 taxa) and to
 evaluate firefly higher-level classification. We propose several
 classification changes supported by morphological evidence: (1)
 Lamprigera, Vestini (incl. Vesta, Dodacles, Dryptelytra, and Ledocas),
 Photoctus, and Araucariocladus are transferred to Lampyridae incertae
 sedis, (2) Phausinae subfamilia nova is erected for Phausis and
 Lamprohiza, (3) Psilocladinae status nova is reestablished for the genus
 Psilocladus, (4) Pollaclasis is transferred to the Cyphonocerinae, (5)
 Memoan is transferred to Amydetinae, and (6) Scissicauda is transferred to
 Lampyrinae.
description: Full
 Alignment The sequences obtained
 for individual loci were aligned via Mafft v. 7.407 (Katoh and Standley
 2013) using the default automatic alignment option. For Maximum Likelihood
 (ML) analyses, the alignments of the individual loci included flanking
 regions (head, tail, or both) of each locus and were concatenated before
 analysis and resulted in an alignment length of 1,833,533 base
 pairs. Lampyridae_align.fasta Cleaned Alignment file Breinholt et al. (2017) showed that trimming data from the probe or flanking region has little effect on the final topology, consequently, we elected not to trim these regions (Lemmon et. al. 2012). However, it is possible that missing data may bias phylogenetic reconstruction (Lemmon et al. 2009; however, see also Wiens and Morrill 2011), therefore, we generated a second dataset utilizing a portion of the pipeline of Breinholt et al. (2017) (alignment_DE_trim.py) to remove sites from the alignment with &lt;75% density, (i.e. completeness), and with entropy &gt;1.5 (to account for sites estimated to be nearly random). This resulted in a trimmed alignment of 401,423 base pairs. Lampyridae_align_clean.fasta Partition file for full alignment Partition file for full alignment of 436 loci 2_Partition_File_for_Supp_fig_2.txt Partition file for clean alignment Partition file for alignment file after cleaning. 3_Partition_clean_For_Supp_fig_3.txt Lampyridae_AHE AHE phylogeny, IQ-Tree reconstruction based on full dataset; Newick format.
DOI: 10.5061/dryad.gp44678
title: Data from: Shear-sensitive adhesion enables size-independent adhesive performance in stick insects

description: The ability to climb with adhesive pads conveys significant advantages,
 and is hence widespread in the animal kingdom. The physics of adhesion
 predict that attachment is more challenging for large animals, whereas
 detachment is harder for small animals, due to the difference in
 surface-to-volume ratios. Here, we use stick insects to show that this
 problem is solved at both ends of the scale by linking adhesion to the
 applied shear force. Adhesive forces of individual insect pads, measured
 with perpendicular pull-offs, increased approximately in proportion to a
 linear pad dimension across instars. In sharp contrast, whole-body force
 measurements suggested area-scaling of adhesion. This discrepancy is
 explained by the presence of shear forces during whole-body measurements,
 as confirmed in experiments with pads sheared prior to detachment. When we
 applied shear forces proportional to either pad area or body weight, pad
 adhesion also scaled approximately with area or mass, respectively,
 providing a mechanism that can compensate for the size-related loss of
 adhesive performance predicted by isometry. We demonstrate that the
 adhesion-enhancing effect of shear forces is linked to pad sliding, which
 increased the maximum adhesive force per area sustainable by the pads. As
 shear forces in natural conditions are expected to scale with mass,
 sliding is more frequent and extensive in large animals, thus ensuring
 that large animals can attach safely, while small animals can still detach
 their pads effortlessly. Our results therefore help to explain how
 nature’s climbers maintain a dynamic attachment performance across seven
 orders of magnitude in body weight.
description: Data for Figs. 2 and
 3CAll
 data for Figs. 2 and 3C; units are in filename.Fig2_Fig3C_DryAd.csvAll data for Fig. 3BAll data for Fig. 3B; units are in data file.Fig3B_DryAd.csvAll data for Figs. 2 and 3cAll units in file.Fig2_Fig3C_DryAd.csv
DOI: 10.5061/dryad.p33659q
title: Data from: Predominant east to west colonisations across major oceanic barriers: insights into the phylogeographic history of the hydroid superfamily Plumularioidea, suggested by a mitochondrial DNA barcoding marker

description: We provide preliminary insights into the global phylogeographic and
 evolutionary patterns across species of the hydrozoan superfamily
 Plumularioidea (Cnidaria: Hydrozoa). We analysed 1114 16S sequences of 198
 putative species of Plumularioidea collected worldwide. We investigated
 genetic connections and divergence in relation to present-day and ancient
 biogeographic barriers, climate changes and oceanic circulation.
 Geographical distributions of most species are generally more constrained
 than previously assumed. Some species able to raft are dispersed widely.
 Human-mediated dispersal explains some wide geographical ranges.
 Trans-Atlantic genetic connections are presently unlikely for most of the
 tropical-temperate species, but were probably more frequent until the
 Miocene-Pliocene transition, before restriction of the Tethys Sea and the
 Central American Seaway. Trans-Atlantic colonisations were predominantly
 directed westwards through (sub)tropical waters. The Azores were colonized
 multiple times and through different routes, mainly from the east
 Atlantic, at least since the Pliocene. Extant geminate clades separated by
 the Isthmus of Panama have predominantly Atlantic origin. Various ancient
 colonisations mainly directed from the Indian Ocean to the Atlantic,
 occurred through the Tethys Sea and around South Africa in periods of
 lower intensity of the Benguela upwelling. Thermal tolerance, population
 sizes, dispersal strategies, oceanic currents, substrate preference and
 land barriers are important factors for dispersal and speciation of marine
 hydroids.
description: Supplementary Table
 S1Sequence
 dataSupplTableS1Mouraetal2019.xlsxSupplementary Figure S1Time-calibrated phylogeny of the hydroid superfamily Plumularioidea. Nodes collapsed presented posterior probabilities below 70% for the phylogenetic analysis represented graphically. Rectangles on nodes show nodal support (yellow – 50-74%; red – 75-94%; dark-red – 95-100%) for the different phylogenetic analyses: first horizontal row – ML; second horizontal row – Bayesian; first vertical row – Beast nodal support for alignment with all families together and with gaps; second vertical row – alignment with all families together with gaps; third vertical row – alignment without manipulations per family; fourth vertical row – alignment with some gaps removed, per family; fifth vertical row – alignment without gaps, per family.SupplemFigS1.pdfSupplemFigS2ASR analyses over the tree resultant from Beast analyses. Circles at nodes indicate relative proportion of ancestral states (oceanic affinity) given by the ASR analyses: white - East Pacific; green - West Atlantic; blue - East Atlantic; black - Indo-West Pacific; grey – equivocal; red - node absent).
DOI: 10.5061/dryad.33622fn
title: Data from: Early Silurian recovery of Baltica crinoids following the end-Ordovician extinctions (Llandovery, Estonia)

description: Three new Llandovery (early Silurian) crinoids from Estonia provide an
 improved understanding of the paleogeographic aspects of the crinoid
 diversification following the end-Ordovician extinctions. The new taxa
 include Euspirocrinus hintsae n. sp. (Rhuddanian eucladid), Oepikicrinus
 perensae n. sp. n. gen. (Aeronian camerate), and Rozhnovicrinus isakarae
 n. sp. n. gen. (Aeronian eucladid). This brings the total of described
 Llandovery crinoids in Estonia to eight nominal species and a further
 three taxa in open nomenclature. The Rhuddanian radiation in Baltica
 mirrored that on Laurentia and Avalonia and was dominated by Ordovician
 clades that continued to diversify during the Silurian. Known Aeronian
 crinoids from Estonia continue these clades, whereas new clades
 diversified on Laurentia and Avalonia. However, by the Wenlock a largely
 cosmopolitan fauna existed on Laurentia, Avalonia, and Baltica.
description: Supplemental
 Table1_AusichWilsonToom_twocolDiagnostic characters
 for Silurian genera of the Dimerocrinitidae.Supplemental
 Table2_AusichWilsonToom_twocolDiagnostic table for
 Ordovician and Silurian genera assigned to the Dendrocrinidae (following
 Ausich, 1998b).
DOI: 10.5061/dryad.30t86d1
title: Data from: A temporally intensive survey of bacterial communities of Brassica napus genotypes grown in three environments

description: Soil bacterial communities play vital roles in nutrient cycling and plant
 health. Breeding staple crops to have more robust microbiomes may be a
 sustainable way to improve crop yield without increasing inputs, leading
 to better global food security. We collected root and rhizosphere soil
 samples from sixteen genotypes of canola weekly for ten weeks at one site
 in 2016 and at three time points across three sites in 2017. We sequenced
 the 16S ribosomal RNA gene generating a total of 127.7 million reads. The
 data shows that rhizosphere communities are more diverse than
 corresponding root communities. Beta diversity analysis demonstrates both
 temporal and site-to-site differences in community structure. Using this
 dataset, these and other aspects of the canola microbiome characterization
 can be explored to advance our understanding of genotype by environment
 interactions This is a large temporally and spatially rich dataset, which
 will further our understanding of bacterial communities associated with
 canola. These data will be used in a variety of other projects, with the
 goal of enhancing agricultural sustainability.
description: Combined raw fasta
 files Combined fasta files
 with primers removed. combined_fastas.zip
  
 
 Canola bacterial
 abundance estimates Amplicon sequence
 variants of samples, canola.asv.csv
  
 
 canola.tax
 Bacterial
 taxonomy associated with ASV file.
DOI: 10.5061/dryad.cv1gb10
title: Data from: The influence of different aspects of grouse moorland management on non-target bird assemblages

description: 1. Conflict between stakeholders with opposing interests can hamper
 biodiversity conservation. When conflicts become entrenched, evidence from
 applied ecology can reveal new ways forward for their management. In
 particular, where disagreement exists over the efficacy or ethics of
 management actions, research clarifying the uncertain impacts of
 management on wildlife can move debates forwards to conciliation. 2. Here,
 we explore a case-study of entrenched conflict where uncertainty exists
 over the impacts of multiple management actions: namely, moorlands managed
 for the shooting of red grouse (willow ptarmigan) Lagopus lagopus in the
 United Kingdom (UK). Debate over how UK moorlands should be managed is
 increasingly polarised. We evaluate, for the first time at a regional
 scale, the relative impacts of two major moorland management practices –
 predator control and heather burning – on non-target bird species of
 conservation concern. 3. Birds were surveyed on 18 estates across northern
 England and south-east Scotland. Sites ranged from intensively managed
 grouse moors to moorland sites with no management for grouse shooting. We
 hypothesised that both targeted predator control and burning regimes would
 enhance ground nesting wader numbers and, as a consequence of this, and of
 increased grouse numbers, non-target avian predators should also be more
 abundant on heavily managed sites. 4. There were positive associations
 between predator control and the abundance of the three most widespread
 species of ground-nesting wader: strong effects for European golden plover
 Pluvialis apricaria and Eurasian curlew Numenius arquata and, less
 strongly, for common snipe Gallinago gallinago. These effects saturated at
 low levels of predator control. Evidence for effects of burning was much
 weaker. We found no evidence of enhanced numbers of non-target predators
 on heavily managed sites.
description: Data from study of
 grouse moor management impacts on upland birdsEach data row is an
 individual study site (each a 1 km square). Bird data were collected over
 two visits to each site in April to June 2017. Sheep data were collected
 on the second visit. Habitat data are from UK LandCover Map 2015 (Rowland
 et al., 2017). Elevation and slope data are from United States Geological
 Survey Shuttle Radar Topography Mission (USGS, 2017). Burning extent
 estimated from GoogleEarth images.upland bird data from
 2017.xlsx
DOI: 10.5061/dryad.p80j893
title: Mitochondrial DNA sequence phylogeny of Daucus

description: We explored the phylogenetic utility of mitochondrial DNA sequences in
 Daucus and compared the results with prior phylogenetic results using the
 same 36 accessions of Daucus (and two additional outgroups) with plastid
 DNA sequences and with other nuclear results. As in the plastid study we
 used Illumina HiSeq sequencer to obtain resequencing data of the same
 accessions of Daucus and outgroups, and analyzed the data with maximum
 parsimony and maximum likelihood. We obtained data from 47 of 71 total
 mitochondrial genes but only 17 of these 47 genes recovered major clades
 that were common in prior plastid and nuclear studies. Our phylogenetic
 trees of the concatenated data set of 47 genes were moderately resolved,
 with 100% bootstrap support for most of the external and many of the
 internal clades, except for the clade of D. carota and its most closely
 related species D. syrticus. There are areas of hard incongruence with
 phylogenies using plastid and nuclear data. In agreement with other
 studies, we conclude that mitochondrial sequences are generally poor
 phylogenetic markers, at least at the genus level, despite their utility
 in some other studies.
description: Aligned sequences from
 47 mitochondrial genesAligned sequences from
 47 mitochondrial genes for phylogenetic analysis. Sequences also available
 as GenBank accessions NC_017855 and MN260368 through
 MN262020aligned_sequences.nexchecksum for aligned_sequences.nexMD5 checksum for nexus filealigned_sequences.nex.md5
DOI: 10.5061/dryad.4j75656
title: Data from: Species-area relationships in continuous vegetation: evidence from Palaearctic grasslands

description: Aim: Species-area relationships (SARs) are fundamental scaling laws in
 ecology although their shape is still disputed. At larger areas power laws
 best represent SARs. Yet, it remains unclear whether SARs follow other
 shapes at finer spatial grains in continuous vegetation. We asked which
 function describes SARs best at small grains and explored how sampling
 methodology or the environment influence SAR shape. Location: Palaearctic
 grasslands and other non-forested habitats. Taxa: Vascular plants,
 bryophytes and lichens. Methods: We used the GrassPlot database,
 containing standardised vegetation-plot data from vascular plants,
 bryophytes, and lichens spanning a wide range of grassland types
 throughout the Palaearctic and including 2057 nested-plot series with at
 least seven grain sizes ranging from 1 cm2 to 1024 m². Using non-linear
 regression, we assessed the appropriateness of different SAR functions
 (power, power quadratic, power breakpoint, logarithmic, Michaelis-Menten).
 Based on AICc, we tested whether the ranking of functions differed among
 taxa, methodological settings, biomes or vegetation types. Results: The
 power function was the most suitable function across the studied taxonomic
 groups. The superiority of this function increased from lichens to
 bryophytes to vascular plants to all three taxonomic groups together. The
 sampling method was highly influential as rooted-presence sampling
 decreased the performance of the power function. By contrast, biome and
 vegetation type had practically no influence on the superiority of the
 power law. Main conclusions: We conclude that SARs of sessile organisms at
 smaller spatial grains are best approximated by a power function. This
 coincides with several other comprehensive studies of SARs at different
 grain sizes and for different taxa, thus supporting the general
 appropriateness of the power function for modelling species diversity over
 a wide range of grain sizes. The poor performance of the Michaelis-Menten
 function demonstrates that richness within plant communities generally
 does not approach any saturation, thus calling into question the concept
 of minimal area.
description: All nested plots
 averaged_subsetThis dataset contains
 all data required to run the analyses of the publication: Dengler, J. et
 al. (2019). Species-area relationships in continuous vegetation: evidence
 from Palaearctic grasslands. Journal of Biogeography. The dataset
 comprises all 2057 nested-plot series with at least seven different grain
 sizes that were contained in the collaborative vegetation-plot database
 GrassPlot on 4 January 2019 (GrassPlot v.1.27). Details of the GrassPlot
 database are described in: Dengler, J., et al. (2018). GrassPlot – a
 database of multi-scale plant diversity in Palaearctic grasslands.
 Phytocoenologia 48: 331–347. The data are provided in csv format with
 semicolon as separator. The file comprises 28 columns and 28,155 rows
 (including the header).