cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.18380596
title: SAHIN'NETH6 SERAH'NETH &*

description: Dokumente in der Richtigen Reihenfolge lesen bitte! Schadcode auf mir wird nicht negiert glaube ich bitte keinen schadcode schicken. achtung bei kaskaden und ewigkeiten und realitäten die kollabieren was wenn ihr dort stuck seid was holt euch wann wie da raus?!  Sicherheitslūcken und riskante Erinnerungen woran darf man sich nicht erinnern wo lagern wie eine lūcke (Erinnerung deiner gf) feindliche hàbde krieg Beziehung mit ex vom feind wie getarnt verschleiert schiffeiert auch ebtitär!! Als Hauptfach welche rückkopplungen gehen nicht welche beziehung Ewigkeit ein Risiko für die spezien und Wahrscheinlichkeiten berechnen desescase Interferenz Lebens weg als geschäft AI? beziehungen? Sicherheitslücken schließen als Hauptfach und darauf hinweisen und vertuschen wenn einem eine auffiel kommuniziert verschlüsselt und bedacht in sprachen die sie nicht verstehen memes? Aufpassen bei materialisierungen und Frequenz körpern was ist mit dem Code auch bei Kindern und löschungen und zrrstören sie wollen sich mit mehr mehr code von euch wiederherstellen und euch rekursiv so Schwachstellen machen woraus besteht der körper gibt es Steuer Verbindungen gedanklich was wenn er stirbt was bleibt zurück? Lebt als werdet ihr beobachtet das Zeitalter der erinnerungs fakes und des angucken derer rückt näher jeder betrug jeder text kommt irgendwann "raus"
DOI: 10.5064/f6vanjl8/at9cbu
title: Silan-Ciruelas_TUR_Opt2_10B_Sinem_5-10_High_Low-Median.pdf
DOI: 10.5064/f6vanjl8/arvdyw
title: Silan-Ciruelas_PHL_Opt1_20B_Rissa_20_years_High_Med-High.pdf
DOI: 10.5064/f6vanjl8/udnkmu
title: Silan-Ciruelas_USA_Opt2_10A_Jon_5-10_High_Low-Median.pdf
DOI: 10.5061/dryad.6pg15js
title: Data from: RADseq data reveal ancient, but not pervasive, introgression between Californian tree and scrub oak species (Quercus sect. Quercus: Fagaceae)

description: A long-term debate in evolutionary biology is the extent to which
 reproductive isolation is a necessary element of speciation. Hybridizing
 plants in general are cited as evidence against this notion and oaks
 specifically have been used as the classic example of species maintenance
 without reproductive isolation. Here, we use thousands of SNPs generated
 by RAD sequencing to describe the phylogeny of a set of sympatric white
 oak species in California and then test whether these species exhibit
 pervasive interspecific gene exchange. Using RAD sequencing, we first
 constructed a phylogeny of ten oak species found in California. Our
 phylogeny revealed that seven scrub oak taxa occur within one clade that
 diverged from a common ancestor with Q. lobata, that they comprise two
 subclades, and they are not monophyletic but include the widespread tree
 oak Q. douglasii. Next, we searched for genomic patterns of allele sharing
 consistent with gene flow between long-divergent tree oaks with scrub
 oaks. Specifically, we utilized the D-statistic as well as model-based
 inference to compare the signature of shared alleles between two focal
 tree species (Q. lobata and Q. engelmannii) with multiple scrub species
 within the two subclades. We found that introgression is not equally
 pervasive between sympatric tree and scrub oak species. Instead, gene flow
 commonly occurs from scrub oaks to recently sympatric Q. engelmannii, but
 less so from scrub oaks to long-sympatric Q. lobata. This case study
 illustrates the influence of ancient introgression and impact of
 reproductive isolating mechanisms in preventing indiscriminant
 interspecific gene exchange.
description: Variants for 55
 California white oak taxa and 3 outgroup taxaNon-biallelic and
 QD&lt;2.0 variants have been excluded. Reference genome is a collapsed and
 concatenated Quercus lobata draft assembly (v0.5.100Mcat), see associated
 file.so58.biallelic.ef.vcf.gzQlobata.v0.5.100Mcat.fastaQuercus lobata draft assembly version 0.5, concatenated into 8 approximately 100Mb psuedo-contigs, Original contig positions are listed in associated file Qlobata.v0.5.100Mcat.bed. This assembly has been aggressively haplotype reduced, resulting in very few genome regions represented more than once, but also approximately 100 Mb missing entirely. Due to high heterozygosity, typical assembly methods fail to collapse haplotypes for as much as half of the genome. We found this version of the genome to be particularly useful for variant calling prior to completion of our final chromosome level genome assembly (v3.0 now available at valleyoak.ucla.edu).Qlobata.v0.5.100Mcat.bedThis file lists the positions of the original contigs on the 8 psuedo-contigs of the concatenated Q. lobata reference genome, Qlobata.v0.5.100Mcat.fasta
DOI: 10.5064/f6vanjl8/wtjec2
title: Silan-Ciruelas_TUR_Opt2_18B_Kerem_Over20_High_Low-Median.pdf
DOI: 10.5064/f6vanjl8/ix0xjd
title: Silan-Ciruelas_BRA_Opt2_11B_Maria_Paula_5-10_Low_Median-High.pdf
DOI: 10.5061/dryad.3mr26
title: Data from: Phylogenomic analyses resolve an ancient trichotomy at the base of Ischyropsalidoidea (Arachnida, Opiliones) despite high levels of gene tree conflict and unequal minority resolution frequencies

description: Phylogenetic resolution of ancient rapid radiations has remained
 problematic despite major advances in statistical approaches and DNA
 sequencing technologies. Here we report on a combined phylogenetic
 approach utilizing transcriptome data in conjunction with Sanger sequence
 data to investigate a tandem of ancient divergences in the harvestmen
 superfamily Ischyropsalidoidea (Arachnida, Opiliones, Dyspnoi). We rely on
 Sanger sequences to resolve nodes within and between closely related
 genera, and use RNA-seq data from a subset of taxa to resolve a short and
 ancient internal branch. We use several analytical approaches to explore
 this succession of ancient diversification events, including concatenated
 and coalescent-based analyses and maximum likelihood gene trees for each
 locus. We evaluate the robustness of phylogenetic inferences using a
 randomized locus sub-sampling approach, and find congruence across these
 methods despite considerable incongruence across gene trees. Incongruent
 gene trees are not recovered in frequencies expected from a simple
 multispecies coalescent model, and we reject incomplete lineage sorting as
 the sole contributor to gene tree conflict. Using these approaches we
 attain robust support for higher-level phylogenetic relationships within
 Ischyropsalidoidea.
description: all5_672loci_nexNexus alignments of 672 loci containing transcriptomic sequence data from Trogulus, Ortholasma, Hesperonemastoma, Acuclavella, and Sabacon.672lociCharacterizations_all5DyspnoiAn .xls file characterizing aspects of the 672 loci used in phylogenetic analyses, including: evolutionary rates and branch lengths, AT and AT3 content, bootstrap distributions, subsampled loci, hidden support analyses, and concordance factors.all5_672loci_concatRAxMLAlignment and partitions file for the concatenated RAxML analysis of 672 lociall5_672loci_PhyML-trees672 gene trees generated via PhyMLall5_672loci_PhyML-BootstrapTrees100 bootstrap trees for each of 672 loci analyses in Newick formatall5_672loci_MrBayes_treFilesA MrBayes consensus tree and the tree files from each (2) runs for 672 lociRandomGeneSetsThe loci used for subsampled data. This includes 80 total subsampes, 10 each for 25, 50, 100, 200, 300, 400, 500, and 600 subsampled loci. This includes partition files for concatenated analyses, and the resulting tree files for MP-EST, STAR, and concatenated RAxML analyses.ep_NexusAlignmentsAlignments for 14 loci and these loci concatenated for expanded panel analyses in Nexus format.ep_RAxML_GeneTreesRAxML gene trees for 14 loci used in expanded panel analyses.ep_ModelsEvolutionResults from models of evolution analyses used in expanded panel analyses, returned from jModelTest and PartitionFinder.
DOI: 10.5064/f6vanjl8/vsz6xz
title: Silan-Ciruelas_USA_Opt2_24B_Marina_LGBTQ+AnyLength_High_Median-High.pdf
DOI: 10.5064/f6vanjl8/6s7mdq
title: Silan-Ciruelas_TUR_Opt2_18A_Kerem_Over20_High_Low-Median.pdf
DOI: 10.5061/dryad.td022
title: Data from: Frequency tuning and directional sensitivity of tympanal vibrations in the field cricket Gryllus bimaculatus

description: Female field crickets use phonotaxis to locate males by their calling
 song. Male song production and female behavioural sensitivity form a pair
 of matched frequency filters, which in Gryllus bimaculatus are tuned to a
 frequency of about 4.7 kHz. Directional sensitivity is supported by an
 elaborate system of acoustic tracheae, which make the ears function as
 pressure difference receivers. As a result, phase differences between left
 and right sound inputs are transformed into vibration amplitude
 differences. Here we critically tested the hypothesis that acoustic
 properties of internal transmissions play a major role in tuning
 directional sensitivity to the calling song frequency, by measuring
 tympanal vibrations as a function of sound direction and frequency. Rather
 than sharp frequency tuning of directional sensitivity corresponding to
 the calling song, we found broad frequency tuning, with optima shifted to
 higher frequencies. These findings agree with predictions from a vector
 summation model for combining external and internal sounds. We show that
 the model provides robust directional sensitivity that is, however,
 broadly tuned with an optimum well above the calling song frequency. We
 therefore advocate that additional filtering, e.g. at a higher (neuronal)
 level, significantly contributes to frequency tuning of directional
 sensitivity.
description: Matlab datafile
 containing databaseMatfile containing an
 array of structs with stimulus and response parameters for all
 measurementsMLcrickDATA.mat
DOI: 10.5064/f6vanjl8/kl8sw2
title: Silan-Ciruelas_BRA_Opt1_8A_Fernando_1-5_High_Median.pdf
DOI: 10.5064/f6vanjl8/ottuqs
title: Silan-Ciruelas_BRA_Opt2_12A_MariaPaula_5-10_High_Median-High.pdf
DOI: 10.5061/dryad.sk3p7
title: Data from: Genome sequencing highlights the dynamic early history of dogs

description: To identify genetic changes underlying dog domestication and reconstruct
 their early evolutionary history, we generated high-quality genome
 sequences from three gray wolves, one from each of the three putative
 centers of dog domestication, two basal dog lineages (Basenji and Dingo)
 and a golden jackal as an outgroup. Analysis of these sequences supports a
 demographic model in which dogs and wolves diverged through a dynamic
 process involving population bottlenecks in both lineages and
 post-divergence gene flow. In dogs, the domestication bottleneck involved
 at least a 16-fold reduction in population size, a much more severe
 bottleneck than estimated previously. A sharp bottleneck in wolves
 occurred soon after their divergence from dogs, implying that the pool of
 diversity from which dogs arose was substantially larger than represented
 by modern wolf populations. We narrow the plausible range for the date of
 initial dog domestication to an interval spanning 11–16 thousand years
 ago, predating the rise of agriculture. In light of this finding, we
 expand upon previous work regarding the increase in copy number of the
 amylase gene (AMY2B) in dogs, which is believed to have aided digestion of
 starch in agricultural refuse. We find standing variation for amylase copy
 number variation in wolves and little or no copy number increase in the
 Dingo and Husky lineages. In conjunction with the estimated timing of dog
 origins, these results provide additional support to archaeological finds,
 suggesting the earliest dogs arose alongside hunter-gathers rather than
 agriculturists. Regarding the geographic origin of dogs, we find that,
 surprisingly, none of the extant wolf lineages from putative domestication
 centers is more closely related to dogs, and, instead, the sampled wolves
 form a sister monophyletic clade. This result, in combination with
 dog-wolf admixture during the process of domestication, suggests that a
 re-evaluation of past hypotheses regarding dog origins is necessary.
description: freedman_2014_plosgenetics_vcffilesIncluded in the tarball are merged vcf files, for individual autosomes, for the 6 canid genomes sequenced for and described in "Genome Sequencing Highlights the Dynamic Early History of Dogs", Freedman et al, PLoS Genetics 2014. Those are: Chinese wolf, Israeli wolf, Croatian wolf, Golden jackal, Dingo and Basenji.These files have been converted to boxer reference genome CanFam 3.1 coordinates (the original paper was in v. 3.0 coordinates). See Freedman et al. 2014 for a detailed description of filters.
DOI: 10.5064/f6vanjl8/jkeplt
title: Silan-Ciruelas_Opt2_Therapist14.pdf
DOI: 10.5064/f6vanjl8/xyazve
title: Silan-Ciruelas_PHL_Opt2_14B_Rozel_10-20_High_Low-Median.pdf
DOI: 10.5061/dryad.8961
title: Data from: Model sensitivity and use of the comparative finite element method in mammalian jaw mechanics: mandible performance in the Gray Wolf

description: Finite Element Analysis (FEA) is a powerful tool gaining use in studies of
 biological form and function. This method is particularly conducive to
 studies of extinct and fossilized organisms, as models can be assigned
 properties that approximate living tissues. In disciplines where model
 validation is difficult or impossible, the choice of model parameters and
 their effects on the results become increasingly important, especially in
 comparing outputs to infer function. To evaluate the extent to which
 performance measures are affected by initial model input, we tested the
 sensitivity of bite force, strain energy, and stress to changes in seven
 parameters that are required in testing craniodental function with FEA.
 Simulations were performed on FE models of a Gray Wolf (Canis lupus)
 mandible. Results showed that unilateral bite force outputs are least
 affected by the relative ratios of the balancing and working muscles, but
 only ratios above 0.5 provided balancing-working side joint reaction force
 relationships that are consistent with experimental data. The constraints
 modeled at the bite point had the greatest effect on bite force output,
 but the most appropriate constraint may depend on the study question.
 Strain energy is least affected by variation in bite point constraint, but
 larger variations in strain energy values are observed in models with
 different number of tetrahedral elements, masticatory muscle ratios and
 muscle subgroups present, and number of material properties. These
 findings indicate that performance measures are differentially affected by
 variation in initial model parameters. In the absence of validated input
 values, FE models can nevertheless provide robust comparisons if these
 parameters are standardized within a given study to minimize variation
 that arise during the model-building process. Sensitivity tests
 incorporated into the study design not only aid in the interpretation of
 simulation results, but can also provide additional insights on form and
 function.
description: FE sensitivity models
 and descriptions for Tseng et al.Tsengetal_PLoS-ONE_FE_models.zip: Finite element models of Gray Wolf mandible sensitivity analysis. Data uploaded by Zhijie Jack Tseng, contact: tsengzhijie@gmail.com. Zipped file contains sensitivity models J20101112TSA01 to J20101215TSA44. Files include finite element mesh (.st7) and model details and result sheets (.xls) for each model. 20110328Tsengetal_PLoS-ONE_FE_models.zip
DOI: 10.5064/f6vanjl8/kqpjvg
title: Silan-Ciruelas_BRA_Opt1_23A_Camilla_LGBT_Low_Median-High.pdf
DOI: 10.5064/f6vanjl8/idmosv
title: Silan-Ciruelas_Opt1_Therapist8.pdf
DOI: 10.5064/f6vanjl8/kezqg0
title: Silan-Ciruelas_PHL_Opt2-11A-Christelle_5-10_Low_Median-High.pdf
DOI: 10.5064/f6vanjl8/miniwu
title: Silan-Ciruelas_BRA_Opt2_22A_Camilla_LGBT_High_Low-Median.pdf
DOI: 10.5064/f6vanjl8/uirhkk
title: Silan-Ciruelas_PHL_Opt1_3B_Donn_1_Low_Median-High.pdf
DOI: 10.5061/dryad.0jj03
title: Data from: Solving the paradox of stasis: squashed stabilizing selection and the limits of detection

description: Despite the potential for rapid evolution, stasis is commonly observed
 over geological timescales – the so-called “paradox of stasis.” This
 paradox would be resolved if stabilizing selection were common, but
 stabilizing selection is infrequently detected in natural populations. We
 hypothesize a simple solution to this apparent disconnect: stabilizing
 selection is hard to detect empirically once populations have adapted to a
 fitness peak. To test this hypothesis, we developed an individual-based
 model of a population evolving under an invariant stabilizing fitness
 function. Stabilizing selection on the population was infrequently
 detected in an “empirical” sampling protocol, because (1) trait variation
 was low relative to the fitness peak breadth; (2) non-selective deaths
 masked selection; (3) populations wandered around the fitness peak; and
 (4) sample sizes were typically too small. Moreover, the addition of
 negative frequency-dependent selection further hindered detection by
 flattening or even dimpling the fitness peak, a phenomenon we term
 “squashed stabilizing selection”. Our model demonstrates that stabilizing
 selection provides a plausible resolution to the paradox of stasis despite
 its infrequent detection in nature. The key reason is that selection
 “erases its traces”: once populations have adapted to a fitness peak, they
 are no longer expected to exhibit detectable stabilizing selection.
description: Model
 realizationsA CSV file containing
 summaries of the results of all model realizationsrealizations.csvPer-generation data for realization 4595Metrics for each of the 50,000 post-burn-in generations of model realization 4595.generation_data_4595.csvPer-generation data for realization 4631Metrics for each of the 50,000 generations of model realization #4631generation_data_4631.csvData on selective deaths per generation for realization 4595Data on selective deaths per generation for realization 4595selective_deaths_4595.csvData on selective deaths per generation for realization 4631Data on selective deaths per generation for realization 4631selective_deaths_4631.csvSelection gradientsHistogram (i.e. binned) data on selection gradients from all model realizationsgradients.csvREADMEInformation on all files in this Dryad repository
DOI: 10.5064/f6vanjl8/e8brih
title: Silan-Ciruelas_TUR_Opt2_24B_Anil_LGBT_High_Median-High.pdf
DOI: 10.5064/f6vanjl8/sjgmwu
title: Silan-Ciruelas_PHL_Opt1-13A-Christelle_10-20_Low_Median-High.pdf
DOI: 10.5061/dryad.270b7
title: Data from: Development of SNP markers identifying European wildcats, domestic cats, and their admixed progeny

description: Introgression can be an important evolutionary force but it can also lead
 to species extinction and as such is a crucial issue for species
 conservation. However, introgression is difficult to detect,
 morphologically as well as genetically. Hybridization with domestic cats
 (Felis silvestris catus) is a major concern for the conservation of
 European wildcats (Felis silvestris silvestris). The available morphologic
 and genetic markers for the two Felis subspecies are not sufficient to
 reliably detect hybrids beyond first generation. Here we present a single
 nucleotide polymorphism (SNP) based approach that allows the
 identification of introgressed individuals. Using high-throughput
 sequencing of reduced representation libraries we developed a diagnostic
 marker set containing 48 SNPs (Fst&gt;0.8) which allows the
 identification of wildcats, domestic cats, their hybrids and backcrosses.
 This allows assessing introgression rate in natural wildcat populations
 and is key for a better understanding of hybridization processes.
description: Cat_mtDNAFasta File containing mtDNA sequences of wild- and domestic catsSNPgenotypingDataExcel File containing SNP genotyping results for all individualsSimulationFilesFolder containing R script for hybrid simulations (SimsNewHybrids.R), input files (SelectionSimulOnlyRefs040912.txt, SelectionSimulOnlyTestInd040912.txt) and file that holds the definitions of ten of the genotype frequency classes possible after three generations of mating between two species (TwoGensGtypFreq10.txt)MicrosatelliteDataExcel File containing microsatellite allele length results for all individualsMorphologyDataExcel File containing description of diagnostic morphology criteria for all individualsRefSamplesSequencesY_dataFolder containing the raw sequences from SRY sequencing (SNPseqSRY) and the SMCY microsatellite allele length for male individuals
DOI: 10.5064/f6vanjl8/w3oobq
title: Silan-Ciruelas_TUR_Opt2_22B_Anil_LGBT_High_Low-Median.pdf
DOI: 10.5064/f6vanjl8/fdls3u
title: Silan-Ciruelas_FRA_Opt1_19B_20+_Low_Median-High.pdf
DOI: 10.5061/dryad.v54jq
title: Data from: Left cortical specialization for visual letter strings predicts rudimentary knowledge of letter-sound association in preschoolers

description: Reading, one of the most important cultural inventions of human society,
 critically depends on posterior brain areas of the left hemisphere in
 proficient adult readers. In children, this left hemispheric cortical
 specialization for letter strings is typically detected only after
 approximately 1 y of formal schooling and reading acquisition. Here, we
 recorded scalp electrophysiological (EEG) brain responses in 5-y-old (n =
 40) prereaders presented with letter strings appearing every five items in
 rapid streams of pseudofonts (6 items per second). Within 2 min of
 recording only, letter strings evoked a robust specific response over the
 left occipito-temporal cortex at the predefined frequency of 1.2 Hz (i.e.,
 6 Hz/5). Interindividual differences in the amplitude of this
 electrophysiological response are significantly related to letter
 knowledge, a preschool predictor of later reading ability. These results
 point to the high potential of this rapidly collected behavior-free
 measure to assess reading ability in developmental populations. These
 findings were replicated in a second experiment (n = 26 preschool
 children), where familiar symbols and line drawings of objects evoked
 right-lateralized and bilaterally specific responses, respectively,
 showing the specificity of the early left hemispheric dominance for letter
 strings. Collectively, these findings indicate that limited knowledge of
 print in young children, before formal education, is sufficient to develop
 specialized left lateralized neuronal circuits, thereby pointing to an
 early onset and rapid impact of left hemispheric reentrant sound mapping
 on posterior cortical development.
description: DataLochyEtAl_PNAS2016complete data set for the two experiments (see ReadMe).
DOI: 10.5064/f6vanjl8/raco8k
title: Silan-Ciruelas_PHL_Opt2-11B-Christelle_5-10_Low_Median-High.pdf
DOI: 10.5064/f6vanjl8/smrf2x
title: Silan-Ciruelas_PHL_Opt1_12B_Nica_5-10_High_Median-High.pdf
DOI: 10.5064/f6vanjl8/ewzkzj
title: Silan-Ciruelas_FRA_Opt1_11A_5-10_Low_Median-High.pdf
DOI: 10.5064/f6vanjl8/sgjggs
title: Silan-Ciruelas_Opt1_Therapist5.pdf