cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.q2b8t
title: Data from: Fire-regime complacency and sensitivity to centennial- through millennial-scale climate change in Rocky Mountain subalpine forests, Colorado, U.S.A.

description: 1. Key uncertainties in anticipating future fire regimes are their
 sensitivity to climate change, and the degree to which climate will impact
 fire regimes directly, through increasing the probability of fire, versus
 indirectly, through changes in vegetation and landscape flammability. 2.
 We studied the sensitivity of subalpine forest fire regimes (i.e., fire
 frequency, fire severity) to previously documented climate variability
 over the past 6000 years, utilizing pollen and macroscopic charcoal from
 high-resolution lake-sediment records in Rocky Mountain National Park,
 Colorado. We combined data from the four lakes to provide composite
 records of vegetation and fire history within a 200 km2 study area. 3.
 Rates of forest burning were relatively complacent to millennial-scale
 summer cooling and decreased effective moisture. Mean return intervals
 between fire episodes, defined over 500-year periods, generally varied
 between 150-250 years, consistent with tree-ring-based estimates spanning
 recent centuries. Variability around these long-term means, however, was
 significantly correlated with variability in summer moisture (i.e., more
 burning with drier summers), inferred from existing lake-level and
 supporting paleoenvironmental records. 4. The most pronounced change in
 fire regimes was in response to decreased subalpine forest density ca.
 2400 cal. year BP, itself a response to regional cooling. This indirect
 impact of climate was followed by a decrease in charcoal production per
 fire, a proxy for crown-fire severity, while the long-term rate of burning
 remained unchanged. Over the last 1500 years, increased summer evaporation
 and drought frequency were associated with increased fire severity,
 highlighting a direct link between fire and climate. 5. Synthesis:
 Subalpine forest fire history reveals complacency and sensitivity of fire
 regimes to changing vegetation and hydroclimate over the past 6000 years.
 Complacency is highlighted by non-varying fire frequency over millennia.
 Sensitivity is evident through changes in biomass burned per fire (and
 inferred fire severity), in response to climate-induced changes in forest
 density and, more recently, increased summer drought. Overall, the paleo
 record suggests that (i) fire severity may be more responsive to climate
 change than fire frequency in Rocky Mountain subalpine forests, and (ii)
 the indirect impacts of climate on vegetation and fuels are important
 mechanisms determining fire-regime response to climate change.
description: Data and code from
 Higuera et al. (2014)Raw and analyzed
 chronology, charcoal, and pollen data from Lone Pine, Odessa, Sand Beach,
 and Thunder lakes, and Matlab code used for analysis and creation of
 figures 2-4. The archive contains five directories, each with an
 individual readMe.txt file: 1_ageDepthData, 2_charcoalData, 3_pollenData,
 4_syntheticData, 5_code.Higuera_et_al_2014_dataArchive.zip
DOI: 10.5061/dryad.22p7m
title: Data from: Lessons learned from microsatellite development for non-model organisms using 454 pyrosequencing

description: Microsatellites, also known as simple sequence repeats (SSRs), are among
 the most commonly used marker types in evolutionary and ecological
 studies. Next Generation Sequencing techniques such as 454 pyrosequencing
 allow the rapid development of microsatellite markers in nonmodel
 organisms. 454 pyrosequencing is a straightforward approach to develop a
 high number of microsatellite markers. Therefore, developing
 microsatellites using 454 pyrosequencing has become the method of choice
 for marker development. Here, we describe a user friendly way of
 microsatellite development from 454 pyrosequencing data and analyse data
 sets of 17 nonmodel species (plants, fungi, invertebrates, birds and a
 mammal) for microsatellite repeats and flanking regions suitable for
 primer development. We then compare the numbers of successfully lab-tested
 microsatellite markers for the various species and furthermore describe
 diverse challenges that might arise in different study species, for
 example, large genome size or nonpure extraction of genomic DNA.
 Successful primer identification was feasible for all species. We found
 that in species for which large repeat numbers are uncommon, such as
 fungi, polymorphic markers can nevertheless be developed from 454
 pyrosequencing reads containing small repeat numbers (five to six
 repeats). Furthermore, the development of microsatellite markers for
 species with large genomes was also with Next Generation Sequencing
 techniques more cost and time-consuming than for species with smaller
 genomes. In this study, we showed that depending on the species, a
 different amount of 454 pyrosequencing data might be required for
 successful identification of a sufficient number of microsatellite markers
 for ecological genetic studies.
description: Schoebel et al.
 R-scriptR script to use with
 MSATCOMMANDER output files for microsatellite mining.Schoebel et al.
 supplementary materialsOnline supplementary
 materialSupplementary materials
 dryad.pdf
DOI: 10.5061/dryad.6d2h8bp
title: Data from: Phylogeny, ancestors, and anagenesis in the hominin fossil record

description: Probabilistic approaches to phylogenetic inference have recently gained
 traction in paleontological studies. Because they directly model processes
 of evolutionary change, probabilistic methods facilitate a deeper
 assessment of variability in evolutionary patterns by weighing evidence
 for competing models. Although phylogenetic methods used in
 paleontological studies have generally assumed that evolution proceeds by
 splitting cladogenesis, extensions to previous models help explore the
 potential for morphological and temporal data to provide differential
 support for contrasting modes of evolutionary divergence. Recent
 methodological developments have integrated ancestral relationships into
 probabilistic phylogenetic methods. These new approaches rely on
 parameter-rich models and sophisticated inferential methods, potentially
 obscuring the respective contributions of data and models. In this study,
 we describe a simple likelihoodist approach that combines probabilistic
 models of morphological evolution and fossil preservation to reconstruct
 both cladogenetic and anagenetic relationships. By applying this approach
 to a data set of fossil hominins, we demonstrate the capability of
 existing models to unveil evidence for anagenesis presented by
 morphological and temporal data. This evidence was previously recognized
 by qualitative assessments, but largely ignored by quantitative
 phylogenetic analyses. For example, we find support for directly ancestral
 relationships in multiple lineages: Sahelanthropus is ancestral to later
 hominins; Australopithecus anamensis is ancestral to Australopithecus
 afarensis; Australopithecus garhi is ancestral to Homo; Homo antecessor is
 ancestral to Homo heidelbergensis, which in turn is ancestral to both Homo
 sapiens and Homo neanderthalensis. By accommodating direct ancestry in
 phylogenetics, quantitative results align more closely with previous
 qualitative expectations.
description: scriptsPython scripts used to test direct ancestor arrangementsrangesstratigraphic ranges of hominin taxaclade_best_strat.jitterfinal hominin tree inferred from stratophylogenetic rearrangements and AIC comparisonshominin_temporal_rangesSpreadsheet with the temporal ranges used for each hominin taxon in the analysis.hominin_temporal_ranges_citationsComprehensive list of citations supporting the temporal ranges used in the analyses.
DOI: 10.5061/dryad.4nn33b2
title: Data from: Globally consistent impact of tropical cyclones on the structure of tropical and subtropical forests

description: 1. Tropical cyclones (TCs) are large-scale disturbances that regularly
 impact tropical forests. Although long-term impacts of TCs on forest
 structure have been proposed, a global test of the relationship between
 forest structure and TC frequency and intensity is lacking. We test on a
 pantropical scale whether TCs shape the structure of tropical and
 subtropical forests in the long-term. 2. We compiled forest structural
 features (stem density, basal area, mean canopy height and maximum tree
 size) for plants ≥ 10 cm in diameter at breast height from published
 forest inventory data (438 plots ≥ 0.1 ha, pooled into 250 1 x 1-degree
 grid cells) located in dry and humid forests. We computed maps of cyclone
 frequency and energy released by cyclones per unit area (power dissipation
 index, PDI) using a high- resolution historical databases of TCs
 trajectories and intensities. We then tested the relationship between PDI
 and forest structural features using multivariate linear models,
 controlling for climate (mean annual temperature and water availability)
 and human disturbance (human foot print). 3. Forests subject to frequent
 cyclones (at least one TCs per decade) and high PDI exhibited higher stem
 density and basal area, and lower canopy heights. However, the
 relationships between PDI and basal area or canopy height were partially
 masked by lower water availability and higher human foot print in tropical
 dry forests. 4. Synthesis. Our results provide the first evidence that TCs
 have a long-term impact on the structure of tropical and subtropical
 forests in a globally consistent way. The strong relationship between PDI
 and stem density suggests that frequent and intense TCs reduce canopy
 cover through defoliation and tree mortality, encouraging higher
 regeneration and turnover of biomass. The projected increase in intensity
 and poleward extension of TCs due to anthropogenic climate change may
 therefore have important and lasting impacts on the structure and dynamics
 of forests in the future.
description: Dataset and reference
 listRaw data including
 location of the plots (longitude, latitude and type of forest), forest
 structural features (stem density, basal area and canopy height) climatic
 variables (potential evapotranspiration, mean annual precipitation, mean
 annual temperature), human footprint index and cyclone regime variables
 (cyclone frequency and power dissipation index). Includes reference
 list.Appendix
 S1_corrected.docxDataset -
 csvRaw data in csv format
 including location of the plots (longitude, latitude and type of forest),
 forest structural features (stem density, basal area and canopy height)
 climatic variables (potential evapotranspiration, mean annual
 precipitation, mean annual temperature), human footprint index and cyclone
 regime variables (cyclone frequency and power dissipation
 index).Appendix
 S1_corrected.csv
DOI: 10.5061/dryad.q5n39p4
title: Data from: PER-SIMPER - a new tool for inferring community assembly processes from taxon occurrences

description: Aim: Understanding how ecosystem functioning and evolution shape taxonomic
 as- semblages is a lively debate basically involving two major opposite
 views: the niche- and dispersal-assembly hypotheses. Here, we introduce a
 new method allowing for the identification of the first-order process of
 assembly underlying a set of taxonomic assemblages. Methods: Building on
 Clarke’s SIMPER (for “similarity percentage”) analysis of a taxon/
 locality occurrence data set, we develop a permutation-based algorithm
 named PER- SIMPER, allowing for the identification of the first-order
 process—either niche- or dispersal-assembly—that drives species
 distribution within two or more groups of assemblages. We demonstrate the
 reliability and robustness of the method through cellular automaton-like
 simulations generating niche-assembled and/or dispersal-as- sembled
 species occurrence data sets. Sensitivity analysis further allows
 evaluation of its accuracy and robustness to sampling effort, including
 reduced numbers of sampled localities and/or species. Main conclusions:
 Niche- and/or dispersal-assembled communities generate very dif- ferent
 SIMPER profiles, which, in turn, allow for the accurate and consistent
 identifica- tion of the first-order process of assembly operating within
 two or more groups of species assemblages through a threefold
 randomization procedure named PER-SIMPER. The PER-SIMPER method appears
 robust to varying sampling efforts that may affect the number of sampled
 localities and/or species, especially when one of the two processes of
 assembly dominates the other. The PER-SIMPER analysis can be achieved on
 any empirical occurrence data set using a dedicated R function available
 as Supporting Information.
description: R PerSIMPER
 functionBased on a
 presence/absence matrix, this function allows the identification of the
 first-order process of assembly underlying a set of taxonomic assemblages.
 Its use should therefore be limited to the comparison of significantly
 distinct taxonomic sets. But at the same time connected enough to allow
 the potential dispersal of species between these different sets. The
 PER-SIMPER method distinguishes the main ecological assembly process
 (between species dispersal capacity and niche richness) at the origin of
 the observed taxonomic differences between two (or more) compared sets of
 assemblages. The PER-SIMPER method is associated with the calculation of
 the E index (the logarithm of the sum of squared deviations between
 empirical and simulated SIMPER profiles) to assist in distinguishing the
 result of PER-SIMPER analyses.PERSIMPER.RHelp notes PER-SIMPERHelp notes of the PER-SIMPER R function. R function included too.PerSIMPERgroupsPerSIMPERmatrix
DOI: 10.82294/dvntwhzcc
title: Entrevistas semiestructuradas. Territorio: Barrancabermeja. Sector: Educación. Año: 2024

description: A partir de un proceso de acompañamiento situado, se recopilaron testimonios por medio de entrevistas semiestructuradas durante el año 2024, las cuales indagaron sobre 4 categorías que describían la práctica en educación artística de docentes, cultores, sabedores de la enseñanza del arte, que hacían parte de los programas de formación en educación artística y cultural del sector Educación (educación formal) en la ciudad de Barrancabermeja.
DOI: 10.5061/dryad.sr182r0
title: Data from: Virulence-driven trade-offs in disease transmission: a meta-analysis

description: The virulence--transmission trade-off hypothesis proposed more than 30
 years ago is the cornerstone in the study of host-parasite co-evolution.
 This hypothesis rests on the premise that virulence is an unavoidable and
 increasing cost because the parasite uses host resources to replicate.
 This cost associated with replication ultimately results in a deceleration
 in transmission rate because increasing within-host replication increases
 host mortality. Empirical tests of predictions of the hypothesis have
 found mixed support, which cast doubt about its overall generalizability.
 To quantitatively address this issue, we conducted a meta-analysis of 30
 empirical studies, after reviewing over 4000 published papers, focusing on
 the four core relationships between (1) virulence and recovery rate, (2)
 within-host replication rate and virulence, (3) within-host replication
 and transmission rate, and (4) virulence and transmission rate. We found
 strong support for an increasing relationship between replication and
 virulence, and replication and transmission. While the overall mean effect
 suggests that these relationships decelerate with increasing parasite
 replication, which theoretically arises from limited host resources to
 exploit, the effect was uncertain due to high within-study variability.
 There was insufficient data to quantitatively test the other two core
 relationships predicted by the theory. Overall, the results suggest that
 the current empirical evidence provides partial support for the trade-off
 hypothesis, but more work remains to be done.
description: replication_transmission_extracted_dataRaw data extracted from studies that met our inclusion criteria for the replication--transmission relationship.replication_transmission_studies_infoInformation on studies that met our inclusion criteria for the replication--transmission relationship.replication_virulence_extracted_dataRaw data from studies that met our inclusion criteria for the replication--virulence relationship.replication_virulence_studies_infoInformation on studies that met our inclusion criteria for the replication--virulence relationship.virulence_transmission_extracted_dataRaw data extracted from studies that met our inclusion criteria for the virulence--transmission relationship.virulence_transmission_studies_infoInformation on studies that met our inclusion criteria for the virulence--transmission relationships
DOI: 10.5061/dryad.1473s5c
title: Data from: When one phenotype is not enough - divergent evolutionary trajectories govern venom variation in a widespread rattlesnake species

description: Understanding the origin and maintenance of phenotypic variation,
 particularly across a continuous spatial distribution, represents a key
 challenge in evolutionary biology. For this, animal venoms represent ideal
 study systems: they are complex, variable, yet easily quantifiable
 molecular phenotypes with a clear function. Rattlesnakes display
 tremendous variation in their venom composition, mostly through strongly
 dichotomous venom strategies, which may even coexist within single
 species. Here, through dense, widespread population-level sampling of the
 Mojave rattlesnake, Crotalus scutulatus, we show that genomic structural
 variation at multiple loci underlies extreme geographic variation in venom
 composition, which is maintained despite extensive gene flow.
 Unexpectedly, neither diet composition nor neutral population structure
 explain venom variation. Instead, venom divergence is strongly correlated
 with environmental conditions. Individual toxin genes correlate with
 distinct environmental factors, suggesting that different selective
 pressures can act on individual loci independently of their co-expression
 patterns or genomic proximity. Our results challenge common assumptions
 about diet composition as the key selective driver of snake venom
 evolution and emphasise how the interplay between genomic architecture and
 local-scale spatial heterogeneity in selective pressures may facilitate
 the retention of adaptive functional polymorphisms across a continuous
 space.
description: Genotype and diet
 datasetsThe excel file includes
 three spreadsheets: the first one includes with all the museum specimen of
 *Crotalus scutulatus* inspected for stomach content; the second one
 includes a count table of prey items identified in the preserved specimen;
 The third spreadsheet includes the samples used for population genetic
 analysis with geographic coordinates, population assignment and
 microsatellite genotype information.Zancolli et
 al.ProcB_dataset.xlsx
DOI: 10.5061/dryad.k6483cr
title: Data from: A first phylogenetic analysis reveals a new arboreal tarantula genus from South America with description of a new species and two new species of Tapinauchenius Ausserer, 1871 (Araneae, Mygalomorphae, Theraphosidae)

description: Based on molecular and morphological phylogenetic analyses a new genus of
 Theraphosidae is described, Pseudoclamoris gen. n. Tapinauchenius gigas
 and Tapinauchenius elenae are transferred to Pseudoclamoris and a new
 species of Pseudoclamoris from the Amazon Region is described: P. burgessi
 sp. n. Two new species of Tapinauchenius from the Caribbean are described:
 T. rasti sp. n. and T. polybotes sp. n. Tapinauchenius subcaeruleus is
 considered a nomen dubium. Psalmopoeinae subfamily is diagnosed based on
 molecular and morphological phylogenies, and Pseudoclamoris gen. n. and
 Ephebopus Simon, 1892 are included. A taxonomic key for Psalmopoeinae
 genera Tapinauchenius, Pseudoclamoris, Psalmopoeus, and Ephebopus is
 provided.
description: Supplemental Data
 1supplementalData1.xlsxSequence DataDryadDataRepo_MartinHuesser.zip
DOI: 10.5061/dryad.cg8pk0p
title: Data from: Predator macroevolution drives trophic cascades and ecosystem functioning

description: Biologists now recognize that ecology can drive evolution, and that
 evolution in turn produces ecological patterns. I extend this thinking to
 include longer time-scales, suggesting that macroevolutionary transitions
 can create phenotypic differences among species, which then have
 predictable impacts on species interactions, community assembly, and
 ecosystem functioning. Repeated speciation can exacerbate these patterns
 by creating communities with similar phenotypes and hence ecological
 impacts. Here, I use several experiments to test these ideas in dragonfly
 larvae that occupy ponds with fish, ponds without fish, or both. I show
 that macroevolutionary transitions between habitats cause fishless pond
 species to be more active relative to fish pond specialists, reducing prey
 abundance, shifting prey community composition, and creating stronger
 trophic cascades. These effects scale-up to the community level with
 predictable consequences for ecosystem multi-functioning. I suggest that
 macroevolutionary history can have predictable impacts on phenotypic
 traits, with consequences for interacting species and ecosystems.
description: fordryadActivity rate and community data for microcosm experimentInformation on activity rate for individual dragonfly larvae of different species, and the abundances of zooplankton and algae in associated habitats.The column titles are as follows: Habitat: the habitat affinity of each species can be to no-fish ponds (NF), fish ponds (F), or both (generalist; G). Species: the species epithet. Individual: an identification number for each larva. Activity: the movement rate of each individual in cm/three hours. Daph: The number of daphnids found in each sample. Cop: The number of copepods found in each sample. Alg: algal concentration measured using chlorophyll a.forprocb.xlsx