cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.438h3
title: Data from: Genetic diversity and connectivity within Mytilus spp. in the subarctic and Arctic

description: Climate changes in the Arctic are predicted to alter distributions of
 marine species. However, such changes are difficult to quantify because
 information on present species distribution and the genetic variation
 within species is lacking or poorly examined. Blue mussels, Mytilus spp.
 are ecosystem engineers in the coastal zone globally. In order to improve
 knowledge of distribution and genetic structure of the Mytilus edulis
 complex in the Arctic, we analyzed 81 SNPs in 534 Mytilus spp. individuals
 sampled at 13 sites to provide baseline data for distribution and genetic
 variation of Mytilus mussels in the European Arctic. Mytilus edulis was
 the most abundant species found with a clear genetic split between
 populations in Greenland and the Eastern Atlantic. Surprisingly, analyses
 revealed the presence of M. trossulus in high Arctic NW Greenland (77°N)
 and M. galloprovincialis or their hybrids in SW Greenland, Svalbard and
 the Pechora Sea. Furthermore, a high degree of hybridization and
 introgression between species was observed. Our study highlights the
 importance of distinguishing between congener species, which can display
 local adaptation and suggests that information on dispersal routes and
 barriers are essential for accurate predictions of regional susceptibility
 to range expansions or invasions of boreal species in the Arctic.
description: Description of the SNP
 platesInformation sheet
 containing the description of which individuals were included in plates
 2-7Fluidigm
 plates.xlsxPlate no
 2Raw
 data from SNP plate no 2Plate_02.csvPlate no 3Raw data from SNP plate no 3Plate_03.csvPlate no 4Raw data from SNP plate no 4Plate_04.csvPlate no 5Raw data from SNP plate no 5Plate_05.csvPlate no 6Raw data from SNP plate no 6Plate_06.csvPlate no 7Raw data from SNP plate no 7Plate_07.csv
DOI: 10.5061/dryad.f4h2h
title: Data from: A new generic system for the pantropical Caesalpinia group (Leguminosae)

description: The Caesalpinia group is a large pantropical clade of ca. 205 species in
 subfamily Caesalpinioideae (Leguminosae) in which generic delimitation has
 been in a state of considerable flux. Here we present new phylogenetic
 analyses based on five plastid and one nuclear ribosomal marker, with
 dense taxon sampling including 172 (84%) of the species and
 representatives of all previously described genera in the Caesalpinia
 group. These analyses show that the current classification of the
 Caesalpinia group into 21 genera needs to be revised. Several genera
 (Poincianella, Erythrostemon, Cenostigma and Caesalpinia sensu Lewis,
 2005) are non-monophyletic and several previously unclassified Asian
 species segregate into clades that merit recognition at generic rank. In
 addition, the near-completeness of our taxon sampling identifies three
 species that do not belong in any of the main clades and these are
 recognised as new monospecific genera. A new generic classification of the
 Caesalpinia group is presented including a key for the identification of
 genera, full generic descriptions, illustrations (drawings and photo
 plates of all genera), and (for most genera) the nomenclatural transfer of
 species to their correct genus. We recognise 26 genera, with reinstatement
 of two previously described genera (Biancaea Tod., Denisophytum R. Vig.),
 re-delimitation and expansion of several others (Moullava, Cenostigma,
 Libidibia and Erythrostemon), contraction of Caesalpinia s.s. and
 description of four new ones (Gelrebia, Paubrasilia, Hererolandia and
 Hultholia), and make 75 new nomenclatural combinations in this new generic
 system.
description: DNA_matrix_trees_CaesalpiniaThis zip files contains the DNA alignments used to study the phylogeny of the Caesalpinia group. It also contains the files used in the Bayesian, Parsimony and Maximum likelihood phylogenetic analyses, along with the main results.
DOI: 10.5061/dryad.js3ph
title: Data from: Phylogeny and morphologic evolution of the Ordovician Camerata (Class Crinoidea, Phylum Echinodermata)

description: The subclass Camerata (Crinoidea, Echinodermata) is a major group of
 Paleozoic crinoids that represents an early divergence in the evolutionary
 history and morphologic diversification of class Crinoidea, yet
 phylogenetic relationships among early camerates remain unresolved. This
 study conducted a series of quantitative phylogenetic analyses using
 parsimony methods to infer relationships of all well-preserved Ordovician
 camerate genera (52 taxa), establish the branching sequence of early
 camerates, and test the monophyly of traditionally recognized higher taxa,
 including orders Monobathrida and Diplobathrida. The first phylogenetic
 analysis identified a suitable outroup for rooting the Ordovician camerate
 tree and assessed affinities of the atypical dicyclic family
 Reteocrinidae. The second analysis inferred the phylogeny of all
 well-preserved Ordovician camerate genera. Inferred phylogenies confirm:
 (1) the Tremadocian genera Cnemecrinus and Eknomocrinus are sister to the
 Camerata; (2) as historically defined, orders Monobathrida and
 Diplobathrida do not represent monophyletic groups; (3) with minimal
 revision, Monobathrida and Diplobathrida can be re-diagnosed to represent
 monophyletic clades; (4) family Reteocrinidae is more closely related to
 camerates than to other crinoid groups currently recognized at the
 subclass level; and (5) several genera in subclass Camerata represent stem
 taxa that cannot be classified as either true monobathrids or true
 diplobathrids. The clade containing Monobathrida and Diplobathrida, as
 recognized herein, is termed Eucamerata to distinguish its constituent
 taxa from more basally positioned taxa, termed stem eucamerates. The
 results of this study provide a phylogenetic framework for revising
 camerate classification, elucidating patterns of morphologic evolution,
 and informing outgroup selection for future phylogenetic analyses of
 post-Ordovician camerates.
description: Supplemental Data 1:
 Character Matrix for Preliminary Camerate Phylogenetic
 AnalysisPhylogenetic character
 matrix for the 26 crinoid and blastozoan taxa included in the preliminary
 analysis.Cole_SupplementalData1.xlsxSupplemental Data 2: Character Matrix for Comprehensive Camerate Phylogenetic AnalysisPhylogenetic character matrix for the 52 camerate taxa included in the comprehensive analysis.Cole_SupplementalData2.xlsxSupplemental Data 3: Strict Consensus Tree from Unweighted Comprehensive AnalysisStrict consensus of 801 trees from the unweighted comprehensive parsimony analysis.Cole_SupplementalData3.tifSupplemental Data 4: Tree from Reweighted Comprehensive Analysis, Rooted with CnemecrinusSingle most parsimonious tree recovered from the reweighted comprehensive parsimony analysis, rooted using Cnemecrinus.Cole_SupplementalData4.tif
DOI: 10.5061/dryad.7k1gf
title: Data from: Primary production calculations for sea ice from bio-optical observations in the Baltic Sea

description: Bio-optics is a powerful approach for estimating photosynthesis rates, but
 has seldom been applied to sea ice, where measuring photosynthesis is a
 challenge. We measured absorption coefficients of chromophoric dissolved
 organic matter (CDOM), algae, and non-algal particles along with solar
 radiation, albedo and transmittance at four sea-ice stations in the Gulf
 of Finland, Baltic Sea. This unique compilation of optical and biological
 data for Baltic Sea ice was used to build a radiative transfer model
 describing the light field and the light absorption by algae in 1-cm
 increments. The maximum quantum yields and photoadaptation of
 photosynthesis were determined from 14C-incorporation in
 photosynthetic-irradiance experiments using melted ice. The quantum yields
 were applied to the radiative transfer model estimating the rate of
 photosynthesis based on incident solar irradiance measured at 1-min
 intervals. The calculated depth-integrated mean primary production was 5
 mg C m–2 d–1 for the surface layer (0–20 cm ice depth) at Station 3 (fast
 ice) and 0.5 mg C m–2 d–1 for the bottom layer (20–57 cm ice depth).
 Additional calculations were performed for typical sea ice in the area in
 March using all ice types and a typical light spectrum, resulting in
 depth-integrated mean primary production rates of 34 and 5.6 mg C m–2 d–1
 in surface ice and bottom ice, respectively. These calculated rates were
 compared to rates determined from 14C incorporation experiments with
 melted ice incubated in situ. The rate of the calculated photosynthesis
 and the rates measured in situ at Station 3 were lower than those
 calculated by the bio-optical algorithm for typical conditions in March in
 the Gulf of Finland by the bio-optical algorithm. Nevertheless, our study
 shows the applicability of bio-optics for estimating the photosynthesis of
 sea-ice algae.
description: Müller et al.
 2016The data file provides
 the background data used for the calculation of primary production in sea
 ice. There are different sheets, giving general information about the ice
 and the weather conditions, absorption data for CDOM and particles,
 biogeochemical properties such as salinity, pH or Chlorophyll a. The light
 conditions are described by the data in this file in the PAR sheet giving
 the measured PAR values for one of the stations (St.3) and the typical
 conditions in mean March in the Gulf of Finland, as further explained in
 the publication. For these two cases, also the calculated surface light
 spectrum is given. The PI sheet provides the results of the incubation
 experiment, giving the 14C that was taken up by each treatment and the
 corresponding irradiance (see publication for details). For further data,
 such as the model results (for certain ice layers f.ex.) or the model
 code, please contact the first author.
DOI: 10.5061/dryad.cf6n0
title: Data from: Metabolic recovery from drowning by insect pupae

description: Many terrestrial insects live in environments that flood intermittently,
 and some life stages may spend days underwater without access to oxygen.
 We tested the hypothesis that terrestrial insects with underground pupae
 show respiratory adaptations for surviving anoxia and subsequently
 reestablishing normal patterns of respiration. Pupae of Manduca sexta were
 experimentally immersed in water for between 0 and 13 days. All pupae
 survived up to 5 days of immersion regardless of whether the water was
 aerated or anoxic. By contrast, fifth-instar larvae survived a maximum of
 4 h of immersion. There were no effects of immersion during the pupal
 period on adult size and morphology. After immersion, pupae initially
 emitted large pulses of CO2. After a subsequent trough in CO2 emission,
 spiracular activity resumed and average levels of CO2 emission were then
 elevated for approximately 1 day in the group immersed for 1 day and for
 at least 2 days in the 3- and 5-day immersion treatments. Although
 patterns of CO2 emission were diverse, most pupae went through a period
 during which they emitted CO2 in a cyclic pattern with periods of
 0.78–2.2 min. These high-frequency cycles are not predicted by the recent
 models of Förster and Hetz (2010) and Grieshaber and Terblanche (2015),
 and we suggest several potential ways to reconcile the models with our
 observations. During immersion, pupae accumulated lactate, which then
 declined to low levels over 12–48 h. Pupae in the 3- and 5-day immersion
 groups still had elevated rates of CO2 emission after 48 h, suggesting
 that they continued to spend energy on reestablishing homeostasis even
 after lactate had returned to low levels. Despite their status as
 terrestrial insects, pupae of M. sexta can withstand long periods of
 immersion and anoxia and can reestablish homeostasis subsequently.
description: CO2 traces for pupae 1 -
 24Zip
 file contains 24 individual files, one for each pupa in Figure 2 (pupal
 IDs 1 - 24). Data are parts per million CO2 in air, with flow rate 300 ml
 per minute (STP) and measurements made at room temperature (21 - 23
 degrees C). Although original data were sampled at 1 Hz, here they are
 uploaded at 0.5 Hz so that we produce files of reasonable size. Recording
 durations were 24 or 48 hours.PupalCO2.zipLactate concentrations in post-immersion pupaeData used to construct Figure 5. An Excel file.lact_results.xlsx
DOI: 10.5061/dryad.7j2t2
title: Data from: Collective strategy for obstacle navigation during cooperative transport by ants

description: Group cohesion and consensus have primarily been studied in the context of
 discrete decisions, but some group tasks require making serial decisions
 that build on one another. We examine such collective problem solving by
 studying obstacle navigation during cooperative transport in ants. In
 cooperative transport, ants work together to move a large object back to
 their nest. We blocked cooperative transport groups of Paratrechina
 longicornis with obstacles of varying complexity, analyzing groups'
 trajectories to infer what kind of strategy the ants employed. Simple
 strategies require little information, but more challenging, robust
 strategies succeed with a wider range of obstacles. We found that
 transport groups use a stochastic strategy that leads to efficient
 navigation around simple obstacles, and still succeeds at difficult
 obstacles. While groups navigating obstacles preferentially move directly
 toward the nest, they change their behavior over time; the longer the ants
 are obstructed, the more likely they are to move away from the nest. This
 increases the chance of finding a path around the obstacle. Groups rapidly
 changed directions and rarely stalled during navigation, indicating that
 these ants maintain consensus even when the nest direction is blocked.
 Although some decisions were aided by the arrival of new ants, at many key
 points, direction changes were initiated within the group, with no
 apparent external cause. This ant species is highly effective at
 navigating complex environments, and implements a flexible strategy that
 works for both simple and more complex obstacles.
description: Trajectories of groups
 navigating obstacles, and associated filesThis zip file contains a
 file explaining the types of data (1.readMe), a metadata file with
 information about each trial (2.metaData), and three folders for each of
 the other types of data: 3. pngs of group trajectories, 4. text files
 containing the x and y coordinates of the group through time, and 5. text
 files indicating the locations of the obstacles in each trial. These
 folders each contain a file associated with every
 trial.forDryad.zip
DOI: 10.57826/agimo/eqxq1i
title: MATSim Lausitz Base Model Output v2.0

description: See Metadata→Related Publication
DOI: 10.5061/dryad.734v9
title: Data from: Ephemeral ecological speciation and the latitudinal biodiversity gradient

description: The richness of biodiversity in the tropics compared to high latitude
 parts of the world forms one of the most globally conspicuous patterns in
 biology, and yet few hypotheses aim to explain this phenomenon in terms of
 explicit micro-evolutionary mechanisms of speciation and extinction. We
 link population genetic processes of selection and adaptation to
 speciation and extinction by way of their interaction with environmental
 factors to drive global scale macro-ecological patterns. High latitude
 regions are both cradle and grave with respect to species diversification.
 In particular, we point to a conceptual equivalence of ‘environmental
 harshness’ and ‘hard selection’ as eco-evolutionary drivers of local
 adaptation and ecological speciation. By describing how ecological
 speciation likely occurs more readily at high latitudes, with such nascent
 species especially prone to extinction by fusion, we derive the ephemeral
 ecological speciation hypothesis as an integrative mechanistic explanation
 for latitudinal gradients in species turnover and the net accumulation of
 biodiversity.
description: Cutter-Gray_PBD_simulation_outputThis data matrix includes mean species richness values from 50 replicate runs of the R speciation simulation package protractedbirthdeath::summaryrepsim(). Each of the five input parameters were varied at 0.1 increments from 0.1 to 0.9.
DOI: 10.5061/dryad.60js5
title: Data from: Do macrophylogenies yield stable macroevolutionary inferences? An example from squamate reptiles

description: Advances in the generation, retrieval, and analysis of phylogenetic data
 have enabled researchers to create phylogenies that contain many thousands
 of taxa. These “macrophylogenies”—large trees that typically derive from
 megaphylogeny, supermatrix, or supertree approaches—provide researchers
 with an unprecedented ability to conduct evolutionary analyses across
 broad phylogenetic scales. Many studies have now used these phylogenies to
 explore the dynamics of speciation, extinction, and phenotypic evolution
 across large swaths of the tree of life. These trees are characterized by
 substantial phylogenetic uncertainty on multiple levels, and the stability
 of macroevolutionary inferences from these data sets has not been
 rigorously explored. As a case study, we tested whether five recently
 published phylogenies for squamate reptiles—each consisting of more than
 4000 species—yield congruent inferences about the processes that underlie
 variation in species richness across replicate evolutionary radiations of
 Australian snakes and lizards. We find discordance across the five focal
 phylogenies with respect to clade age and several diversification rate
 metrics, and in the effects of clade age on species richness. We also find
 that crown clade ages reported in the literature on these Australian
 groups are in conflict with all of the large phylogenies examined.
 Macrophylogenies offer an unprecedented opportunity to address
 evolutionary and ecological questions at broad phylogenetic scales, but
 accurately representing the uncertainty that is inherent to such analyses
 remains a critical challenge to our field.
description: TitleRabosky_Macrophylogenies_suppltables and figuresspeciesSpecificDivRateR script for calculating the per-species diversification rate from Jetz et al. (2012)richness_cladeAge_powerAnalysisR script for replicating the statistical power analysis shown in Figure 3 of main text.phylogenic treesMacrophylogenies that were included in analyses.phylogenies.zipBAMM_filescontrol files and trees for BAMM analyses
DOI: 10.34810/data1281
title: Partitura i enregistrament de "Vocem meam" (Anònim del segle XVIII)

description: Sota el marc del projecte Estudi i Recuperació de Patrimoni Musical, aquest dataset conté dos arxius: 
&lt;br&gt; Transcripció del manuscrit original de Vocem meam
&lt;br&gt; Enregistrament de la peça interpretada per: 
&lt;br&gt;- Eva del Campo, orgue positiu. Orgue positiu construït per Gerrit Klop el
2022.
&lt;br&gt;- Ricart Renart, violí I. Violí construït per Joseph Massaguer el 1753.
&lt;br&gt;- Marta Guillen, violí II. Violí construït per Giuseppe Tenneriello el 2009.
&lt;br&gt;- Guillermo Turina, violoncel. Violoncel construït per Marchal a finals del
segle XVIII.
&lt;br&gt;- Martí Doñate (tenor)
DOI: 10.5061/dryad.089cr
title: Data from: Muscle–spring dynamics in time-limited, elastic movements

description: Muscle contractions that load in-series springs with slow speed over a
 long duration do maximal work and store the most elastic energy. However,
 time constraints, such as those experienced during escape and predation
 behaviours, may prevent animals from achieving maximal force capacity from
 their muscles during spring-loading. Here, we ask whether animals that
 have limited time for elastic energy storage operate with springs that are
 tuned to submaximal force production. To answer this question, we used a
 dynamic model of a muscle–spring system undergoing a fixed-end
 contraction, with parameters from a time-limited spring-loader (bullfrog:
 Lithobates catesbeiana) and a non-time-limited spring-loader (grasshopper:
 Schistocerca gregaria). We found that when muscles have less time to
 contract, stored elastic energy is maximized with lower spring stiffness
 (quantified as spring constant). The spring stiffness measured in bullfrog
 tendons permitted less elastic energy storage than was predicted by a
 modelled, maximal muscle contraction. However, when muscle contractions
 were modelled using biologically relevant loading times for bullfrog jumps
 (50 ms), tendon stiffness actually maximized elastic energy storage. In
 contrast, grasshoppers, which are not time limited, exhibited spring
 stiffness that maximized elastic energy storage when modelled with a
 maximal muscle contraction. These findings demonstrate the significance of
 evolutionary variation in tendon and apodeme properties to realistic
 jumping contexts as well as the importance of considering the effect of
 muscle dynamics and behavioural constraints on energy storage in
 muscle–spring systems.
description: grasshopperDataSimulation results from the grasshopper simulations.bullfrogDataSimulation results from the bullfrog simulations.
DOI: 10.5061/dryad.22dt8
title: Data from: Local context drives infection of grasses by vector-borne generalist viruses

description: Host characteristics commonly determine infection risk, but infection can
 also be mediated by regional- or local-scale variation in the biotic and
 abiotic environment. Experiments can clarify the relative importance of
 these factors. We quantified drivers of infection by barley and cereal
 yellow dwarf viruses (B/CYDV), a group of generalist, vector-borne grass
 pathogens, at hierarchically nested spatial scales (105–1 m) by planting
 individuals of six common grass species into five Pacific Coast grassland
 sites spanning 7° of latitude (&gt; 5000 total hosts) and applying a
 factorial combination of nitrogen and phosphorus fertilizer. Infection
 differed most among experimental blocks (102–103 m scale), suggesting that
 local factors control infection risk; infection increased with cover of
 long-lived hosts and phosphorus, but not nitrogen, fertilization. For
 B/CYDV, local context more strongly predicts infection risk than host
 species traits or regional context; such spatially nested experiments can
 clarify the factors underlying variation in infection risk.
description: BigFert-Infection-Coordinates-WeightBigFert-BiomassBigFert-CoverBigFert-Plant-SurvivalBigFert-SoilsBigFert-Data-DescriptionsDescription of remaining data files. Additional publication associated with these data : Seabloom, Eric W., et al. "Richness and composition of niche-assembled viral pathogen communities." PLoS One 8.2 (2013): e55675.