cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.jd23d
title: Data from: An early Cambrian chelicerate from the Emu Bay Shale, South Australia

description: The Emu Bay Shale Lagerstätte (Cambrian Series 2, Stage 4) occurs on the
 north coast of Kangaroo Island, South Australia. Over 50 species are known
 from here, including trilobites and non-biomineralized arthropods,
 palaeoscolecids, a lobopodian, a polychaete, vetulicolians, nectocaridids,
 hyoliths, brachiopods, sponges and chancelloriids. A new chelicerate,
 Wisangocaris barbarahardyae gen. et sp. nov., is described herein, based
 on a collection of some 270 specimens. It is up to 60 mm long, with the
 length of the cephalic shield comprising about 30% that of the
 exoskeleton. The cephalic margin has three pairs of
 bilaterally-symmetrical small triangular spines. A pair of small eyes is
 placed well forwards on the ventral margin of the cephalic shield. The
 trunk comprises 11 segments that increase in length while narrowing
 posteriorly, each possibly bearing a pair of biramous appendages; the most
 posterior segment is almost square whereas the others are transversely
 elongated. The spatulate telson is proportionately longer than in taxa
 such as Sanctacaris, Utahcaris and Leanchoilia. Up to eight (?four pairs)
 of 3 mm-long elements bearing alternating inward-curving short and long
 spines beneath the cephalic shield are interpreted as basipodal
 gnathobases, part of a complex feeding apparatus. A well-developed gut
 includes a stomach within the cephalic shield; it extends to the base of
 the telson. In a few specimens there are shell fragments within the gut,
 including those of the trilobite Estaingia bilobata (the most common
 species in the biota); these fragments have sharp margins and extend
 across the gut lumen. The species may have been a predator or a scavenger,
 ingesting material already broken up by a larger predator/scavenger. The
 morphology of this taxon shares many overall body features with
 Sanctacaris, and some with Sidneyia, particularly its gnathobasic complex.
 These chelicerate affinities are corroborated by phylogenetic analyses.
description: Wisangocaris matrix with
 PAUP batch & log, NEXUS formatCharacter matrix and
 PAUP log, in NEXUS format with Wisangocaris barbarahardyae gen. et sp.
 nov. coded in the 763-character matrix of LEGG, D. A. 2014. Sanctacaris
 uncata: the oldest chelicerate (Arthropoda). Naturwissenschaften, 101,
 1065–1073.Wisangocaris_REVISED.nexWisangocaris Strict Consensus TreeStrict consensus tree of 3000 equally most parsimonious trees, using equally weighted characters, produced with PAUP* (Swofford 2002).Wisangocaris_REVISED_MP_StrictCon.treeWisangocaris Majority-Rule Consensus TreeMajority-rule consensus tree of 3000 most parsimonious trees of 1935 steps (CI = 0.4106; RI = 0.8109), using equally weighted characters, produced with PAUP* (Swofford 2002).Wisangocaris_REVISED_MP_MajRule.treeCharacter coding for WisangocarisCharacter coding for Wisangocaris barbarahardyae gen. et sp. nov. in the Legg (2014) matrix, excluding inapplicables (-) and unknowns (?), which leaves a total of 131 characters.Character list for Wisangocaris barbarahardyae gen.doc
DOI: 10.5061/dryad.0bg04
title: Data from: A new plant virus discovered by immunocapture of double stranded RNA; assessment of a novel approach for viral metagenomics studies

description: Next-generation sequencing technologies enable the rapid identification of
 viral infection of diseased organisms. However, despite a consistent
 decrease in sequencing costs, it is difficult to justify their use in
 large-scale surveys without a virus sequence enrichment technique. As the
 majority of plant viruses have an RNA genome, a common approach is to
 extract the double-stranded RNA (dsRNA) replicative form, to enrich the
 replicating virus genetic material over the host background. The
 traditional dsRNA extraction is time-consuming and labour-intensive. We
 present an alternative method to enrich dsRNA from plant extracts using
 anti-dsRNA monoclonal antibodies in a pull-down assay. The extracted dsRNA
 can be amplified by reverse transcriptase–polymerase chain reaction and
 sequenced by next-generation sequencing. In our study, we have selected
 three distinct plant hosts: Māori potato (Solanum tuberosum), rengarenga
 (Arthropodium cirratum) and broadleaved dock (Rumex obtusifolius)
 representing a cultivated crop, a New Zealand-native ornamental plant and
 a weed, respectively. Of the sequence data obtained, 31–74% of the reads
 were of viral origin, and we identified five viruses including Potato
 virus Y and Potato virus S in potato; Turnip mosaic virus in rengarenga (a
 new host record); and in the dock sample Cherry leaf roll virus and a
 novel virus belonging to the genus Macluravirus. We believe that this new
 assay represents a significant opportunity to upscale virus ecology
 studies from environmental, primary industry and/or medical samples.
description: CLRV_R1CLRV-aligned reads R1CLRV_R2CLRV-aligned reads R2PVSA_R1PVSA-aligned reads R1PVSA_R2PVSA-aligned reads R2PVSO_R1PVSO-aligned reads R1PVSO_R2PVSO-aligned read R2PVY_R1PVY-aligned reads R1PVY_R2PVY-aligned reads R2Rumex_R1Rumex-aligned reads R1Rumex_R2Rumex-aligned reads R2TuMV_R1TuMV-aligned reads R1TuMV_R2TuMV-aligned reads R2
DOI: 10.5061/dryad.qm344
title: Data from: The western spring beauties, Claytonia lanceolata (Montiaceae): a review and revised taxonomy for California

description: The taxonomic history of Claytonia lanceolata is fraught with confusion.
 Poor preservation of diagnostic characteristics on museum specimens and
 incomplete original descriptionsmade from limited reference material have
 resulted in inadequate characterization of morphological features and
 geographic distributions, particularly for plants in more xeric areas of
 California. In this paper, we investigate populations previously thought
 to belong to C. lanceolata and provide an updated taxonomy for Californian
 taxa based largely on morphological observations and geographic records.
 These data are corroborated by evidence of genetic polymorphisms and
 ecological divergence. Claytonia obovata was synonymized with C.
 lanceolata in 1966 and remained unrecognized until now because previous
 treatments misinterpreted morphological variation in C. lanceolata s. s.
 Claytonia peirsonii is a new combination for a species comprising four
 subspecies endemic to the Desert Southwest, three of which are new to
 science. Two new species are described here: Claytonia panamintensis,
 known in California only from the Panamint Mountains but ranging
 morewidely across southern Nevada, and Claytonia serpenticola. The latter
 species shares a similar geographic rangewith C. obovata in the
 Klamath-Siskiyou region of northern California and southwestern Oregon,
 and these two occur in close sympatry through much of their respective
 distributions. We also provide molecular evidence to support retention of
 the name C. lanceolata for populations in California that do not fall into
 any of the aforementioned new species or combinations. Taxa accepted in
 this paper are best distinguished from each other by their habitat (many
 are apparently edaphic endemics), betalain pigmentation, inflorescence
 architecture, and morphology of cauline leaves, subterranean stems, and
 flowers.
description: Data, Figures,
 TablesData for analyses,
 figures, and tables (including supplemental)Dryad_Submitted.zip
DOI: 10.5061/dryad.2q3k2
title: Data from: Tips and nodes are complimentary not competing approaches to the calibration of molecular clocks

description: Molecular clock methodology provides the best means of establishing
 evolutionary timescales, the accuracy and precision of which remain
 reliant on calibration, traditionally based on fossil constraints on clade
 (node) ages. Tip calibration has been developed to obviate undesirable
 aspects of node calibration, including the need for maximum age
 constraints that are invariably very difficult to justify. Instead, tip
 calibration incorporates fossil species as dated tips alongside living
 relatives, potentially improving the accuracy and precision of divergence
 time estimates. We demonstrate that tip calibration yields node
 calibrations that violate fossil evidence, contributing to unjustifiably
 young and ancient age estimates, less precise and (presumably) accurate
 than conventional node calibration. However, we go on to show that node
 and tip calibrations are complementary, producing meaningful age
 estimates, with node minima enforcing realistic ages and fossil tips
 interacting with node calibrations to objectively define maximum age
 constraints on clade ages. Together, tip and node calibrations may yield
 evolutionary timescales that are better justified, more precise and
 accurate than either calibration strategy can achieve alone.
description: MrBayes_AnalysesNEXUS input file for analyses in MrBayes. Three approaches to calibration are included: Tip Calibration; Node Calibration; Tip and Node Combined Calibration.TED_Post_FullMajority-rule consensus tree obtained from a sample from the posterior distribution in the total-evidence, tip-calibrated, divergence time analysis.The position of all fossil taxa are presented in this topology.TipandNode_Post_FullMajority-rule consensus tree obtained from a posterior sample of trees in the combined tip and node calibration analysis. The position of all fossil taxa are presented in this topology.Supplementary_MethodsJustification for sampling the time-prior from a fixed consensus-tree topology and details of all divergence-time analyses performed.
DOI: 10.5061/dryad.hk82b
title: Data from: Macroevolutionary dynamics in the early diversification of Asteraceae

description: Spatial and temporal differences in ecological opportunity can result in
 disparity of net species diversification rates and consequently uneven
 distribution of taxon richness across the tree of life. The largest
 eudicotyledonous plant family Asteraceae has a global distribution and at
 least 460 times more species than its South American endemic sister family
 Calyceraceae. In this study, diversification rate dynamics across
 Asteraceae are examined in light of the several hypothesized causes for
 the family’s evolutionary success that could be responsible for rate
 change. The innovations of racemose capitulum and pappus, and a whole
 genome duplication event occurred near the origin of the family, yet we
 found the basal lineages of Asteraceae that evolved in South America share
 background diversification rates with Calyceraceae and their Australasian
 sister Goodeniaceae. Instead we found diversification rates increased
 gradually from the origin of Asteraceae approximately 69.5 Ma in the late
 Cretaceous through the Early Eocene Climatic Optimum at least. In contrast
 to earlier studies, significant rate shifts were not strongly correlated
 with intercontinental dispersals or polyploidization. The difference is
 due primarily to sampling more backbone nodes, as well as calibrations
 placed internally in Asteraceae that resulted in earlier divergence times
 than those found in most previous relaxed clock studies. Two clades
 identified as having transformed rate processes are the Vernonioid Clade
 and a clade within the Heliantheae alliance characterized by phytomelanic
 fruit (PF Clade) that represents an American radiation. In Africa,
 subfamilies Carduoideae, Pertyoideae, Gymnarrhenoideae, Cichorioideae,
 Corymbioideae, and Asteroideae diverged in a relatively short span of only
 6.5 million years during the Middle Eocene.
description: Panero & Crozier
 2016Nexus file used to
 generate phylogeny of AsteraceaePanero and Crozier 2016, Data
 Matrix
DOI: 10.5061/dryad.97k0m
title: Data from: The genus Vararia (Russulales, Basidiomycota) in China. Two new species and two new Chinese records

description: Two new species, Vararia bispora and V. montana collected from southern
 China, are described and illustrated based on morphological characters.
 Vararia bispora is characterized by cinnamon-buff to yellowish brown
 basidiocarps, clamped generative hyphae, ventricose gloeocystidia,
 2-sterigmata basidia, and large fusiform to cylindrical basidiospores that
 are negative in Melzer's reagent. Vararia montana is characterized by
 small pulvinate basidiocarps, clamped generative hyphae, rather strongly
 dextrinoid dichohyphae, and broadly ellipsoid basidiospores with a
 peculiar beak-like extension, and without reactions in Melzer's
 reagent. In addition, V. ambigua and V. amphithallica are reported from
 China for the first time, and descriptions and illustrations are also
 provided for these two species.
description: Vararia ambigua He2385
 IMG_0132Vararia amphithallica
 He3223 IMG_1208Vararia bispora
 He20120724-15 IMG_0138Vararia montana sp. nov.
 He2933 IMG_0128
DOI: 10.5061/dryad.j77h6
title: Data from: Hummingbirds control turning velocity using body orientation and turning radius using asymmetrical wingbeat kinematics

description: Turning in flight requires reorientation of force, which birds, bats and
 insects accomplish either by shifting body position and total force in
 concert or by using left–right asymmetries in wingbeat kinematics.
 Although both mechanisms have been observed in multiple species, it is
 currently unknown how each is used to control changes in trajectory. We
 addressed this problem by measuring body and wingbeat kinematics as
 hummingbirds tracked a revolving feeder, and estimating aerodynamic forces
 using a quasi-steady model. During arcing turns, hummingbirds
 symmetrically banked the stroke plane of both wings, and the body, into
 turns, supporting a body-dependent mechanism. However, several wingbeat
 asymmetries were present during turning, including a higher and flatter
 outer wingtip path and a lower more deviated inner wingtip path. A
 quasi-steady analysis of arcing turns performed with different
 trajectories revealed that changes in radius were associated with
 asymmetrical kinematics and forces, and changes in velocity were
 associated with symmetrical kinematics and forces. Collectively, our
 results indicate that both body-dependent and -independent force
 orientation mechanisms are available to hummingbirds, and that these
 kinematic strategies are used to meet the separate aerodynamic challenges
 posed by changes in velocity and turning radius.
description: Raw data and scripts for
 data processingThe Data directory
 contains raw xyz coordinate data and python scripts for processing data
 for analysis.Data.zipAnalysisR and python scripts for analyzing the processed raw data, includes mixed model ANOVAs and generation of figures.READMEThe README file contains descriptions of all files included in the Data and Analysis directories as well as instructions for reproducing analyses.
DOI: 10.5061/dryad.mf42f
title: Data from: A global experimental dataset for assessing grain legume production

description: Grain legume crops are a significant component of the human diet and
 animal feed and have an important role in the environment, but the global
 diversity of agricultural legume species is currently underexploited.
 Experimental assessments of grain legume performances are required, to
 identify potential species with high yields. Here, we introduce a dataset
 including results of field experiments published in 173 articles. The
 selected experiments were carried out over five continents on 39 grain
 legume species. The dataset includes measurements of grain yield, aerial
 biomass, crop nitrogen content, residual soil nitrogen content and water
 use. When available, yields for cereals and oilseeds grown after grain
 legumes in the crop sequence are also included. The dataset is arranged
 into a relational database with nine structured tables and 198
 standardized attributes. Tillage, fertilization, pest and irrigation
 management are systematically recorded for each of the 8,581 crop*field
 site*growing season*treatment combinations. The dataset is freely reusable
 and easy to update. We anticipate that it will provide valuable
 information for assessing grain legume production worldwide.
description: DatabaseExamples_SQL_QueriesLiterature_SearchArticleSiteCrop_Sequence_TrtCropTillageFertilizationWeed_Insect_FungiIrrigation
DOI: 10.15468/f655fb
title: Mycobiota of Myotis myotis in the Western Sudetes near Wojcieszów, Poland

description: This study reports the fungal diversity on wing and tail membranes of Myotis myotis, focusing on age, sex, forearm length, and weight. Overall, we isolated 39 different fungal species, with higher diversity on wing membranes.
DOI: 10.5061/dryad.kf2v0
title: Data from: No effect of blood sampling or phytohaemagglutinin injection on post-fledging survival in a wild songbird

description: The injection of phytohaemagglutinin (PHA) and sampling of blood are
 widely used in studies of wild vertebrates to assess components of immune
 and endocrine function and health state and to obtain genetic material.
 Despite the pervasive use of these techniques in the life sciences, their
 potential effects on survival are rarely considered. For example, whether
 injection of the immunogen PHA into body parts critical for locomotion
 (e.g., the prepatagium, or wing web, in birds) affects survival has not
 been tested. Here, we test whether injection of PHA into the wing web and
 blood sampling from nestling house wrens affects their subsequent
 recruitment and survival as breeding adults. Capture-mark-recapture
 analysis on a large sample of young (N = 20,152 fledglings from 3959
 broods) treated over 10 years revealed that neither PHA injection nor
 blood sampling affected individual survival and detection probability.
 Recruitment as a breeder varied among years, but this variation was not
 attributable to sampling effort, or the percent of all adults identified
 at the nest during a given year. Variation in the percent of adults
 identified was primarily attributable to the effect of nest depredation on
 our ability to capture nesting pairs. Our results indicating lack of an
 effect of blood sampling and immune stimulation on survival are
 encouraging, but we recommend further work to assess the potential
 negative effects of all commonly used techniques on the survival of study
 subjects in the wild, including the potential costs associated with
 mounting various immunological responses.
description: Capture_historiesYoung
DOI: 10.5061/dryad.mj0k3
title: Data from: The pupillary orienting response predicts adaptive behavioral adjustment after errors

description: Reaction time (RT) is commonly observed to slow down after an error. This
 post-error slowing (PES) has been thought to arise from the strategic
 adoption of a more cautious response mode following deployment of
 cognitive control. Recently, an alternative account has suggested that PES
 results from interference due to an error-evoked orienting response. We
 investigated whether error-related orienting may in fact be a pre-cursor
 to adaptive post-error behavioral adjustment when the orienting response
 resolves before subsequent trial onset. We measured pupil dilation, a
 prototypical measure of autonomic orienting, during performance of a
 choice RT task with long inter-stimulus intervals, and found that the
 trial-by-trial magnitude of the error-evoked pupil response positively
 predicted both PES magnitude and the likelihood that the following
 response would be correct. These combined findings suggest that the
 magnitude of the error-related orienting response predicts an adaptive
 change of response strategy following errors, and thereby promote a
 reconciliation of the orienting and adaptive control accounts of PES.
description: Data_for_repository
DOI: 10.5061/dryad.3rf1k
title: Data from: Exploiting Poisson additivity to predict fire frequency from maps of fire weather and land cover in boreal forests of Québec, Canada

description: Predictive models of fire frequency conditional on weather and land cover
 are essential to assess how future cover-type distributions and weather
 conditions may influence fire regimes. We modelled the effects of
 bottom-up variables (e.g. land cover) and top-down variables (e.g. fire
 weather) simultaneously with data aggregated or interpolated to spatial
 and temporal units of 100 km2 and 1yr in the boreal forest of Québec,
 Canada. For models of human-caused fires, we used road density as a
 surrogate for human access and behaviour. We exploited the additive
 property of Poisson distributions to estimate cover-type specific fire
 count rates, which would normally not be possible with data of this
 spatial resolution. We used piecewise linear functions to model nonlinear
 relations between fire weather and fire frequency for each cover-type
 simultaneously. The estimated conditional rates may be considered as
 expected mean counts per unit area and time. It follows that these rates
 can be rescaled to arbitrary spatial and temporal extents. Our results
 showed fire frequency increased nonlinearly as aridity increased and more
 quickly in disturbed areas than other types. Road density exerted the
 strongest influence on the frequency of human-caused fires, which were
 positively correlated with road density. The estimates may be used to
 parameterize the fire ignition component of spatial simulation models,
 which often have a resolution different from that at which the data were
 collected. This is an essential step in incorporating biotic and abiotic
 feedbacks, land-cover dynamics, and climate projections into ecological
 forecasting. The insight into the power of Poisson additivity to reveal
 high-resolution ecological processes from low-resolution data could have
 applications in other areas of ecology.
description: Fire, land-cover,
 weather dataR data file containing
 data about fire counts, land cover and weather. Spatial resolution of the
 data: 10 km. Data span from 2000 to 2010 and over 200,000
 km2.DATA_agg.RData
DOI: 10.15468/dl.u3bsqb
title: Occurrence Download

description: A dataset containing 902 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Continent is Europe",
 "DatasetKey is International Barcode of Life project (iBOL)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Gammarus roeselii"
 ]
}

 The dataset includes 902 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001452-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.5p0n3
title: Data from: The Nearctic Nedubini: the most basal lineage of katydids is resolved among the paraphyletic “Tettigoniinae” (Orthoptera: Tettigoniidae)

description: This study investigated the systematics of the Nearctic shield-back
 katydids (“Tettigoniinae”), a paraphyletic group thought to include genera
 from a distinctive Gondwanan tribe, the Nedubini, among an otherwise
 Holarctic fauna. From exemplars of five genera of Nedubini and the
 majority of other genera of Nearctic “Tettigoniinae,” five gene regions
 were sequenced, aligned with publicly available sequence data that
 represent diverse subfamilies of Tettigoniidae, and subjected to
 phylogenetic analysis under Bayesian and likelihood criteria. Our results
 render the worldwide Nedubini polyphyletic, strongly support the Nearctic
 Nedubini as a basal clade that is sister to the remaining Tettigoniidae,
 and group the remaining Nearctic shield-back katydid genera into a
 Holarctic clade. Having shared a common ancestor with the remaining
 katydids 175 ± 24 million years ago, the Nearctic Nedubini joins a
 considerable assemblage of relict groups that are found in California and
 the Pacific Northwest of North America. The symmetrical development and
 ambidextrous overlap of the tegmina of male Nearctic nedubines is
 re-evaluated as a plesiomorphic character.
description: Project33rdBEAST_wfossils copyBayesian chronogram estimation resultsProject33rdGarli copyMaximum likelihood analysis resultsProject33rdMrB copyBayesian analysis results