cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.44pp0
title: Data from: Roads elicit negative movement and habitat-selection responses by wolverines (Gulo gulo luscus)

description: Wildlife behavior when crossing roads is likely to mirror natural
 responses to predation risk including not responding, pausing, avoiding,
 or increasing speed during crossing. We generated coarse-scale behavioral
 predictions based on these expectations that could be assessed with GPS
 radiotelemetry. We evaluated our predictions using an integrated
 step-selection analysis of wolverine (Gulo gulo luscus) space use in
 relation to spatially and temporally dynamic vehicle traffic on industrial
 roads in northern Alberta. We compared support for alternative models of
 road avoidance, increased speed near roads, and road avoidance and
 increased speed near roads. We predicted that wolverines would avoid roads
 and increase their speed near roads and that these behaviors would
 increase with traffic volume. We found that vehicle traffic was relatively
 low (0 – 30 vehicles/12 hours) but important for explaining wolverine
 space use. Top winter and summer models indicated that wolverines avoided
 and increased speed near roads. Wolverine movement but not avoidance
 increased with traffic volume. We suggest that movement is a fine-scaled
 response that is more responsive to vehicle traffic than habitat
 selection. We show that roads, regardless of traffic volume, reduce the
 quality of wolverine habitats and act as barriers to movement and that
 higher-traffic roads might be most deleterious. We suggest that wildlife
 behavior near roads should be viewed as a continuum and that accurate
 modeling of behavior when near roads requires quantification of both
 movement and habitat selection. Mitigating the effects of roads on
 wolverines would require clustering roads, road closures, or access
 management.
description: Wolverine traffic and
 GPS dataSteps from wolverine GPS
 data in northern Alberta. Steps are lines connecting sequential GPS
 relocations. “Start” refers to the start point of the step and “End”
 refers to the end point of the step. For example, “traffic_end” is the
 traffic volume on the road closest to the end point of the step. The
 distances to roads are indicated by “road_start” and “road_end”.
 “Twilight” is the time until civil twilight. “Used” refers to real steps
 (coded 1) versus available steps (coded 0). "Cluster" is a group
 of available data points associated with a used data point (this is needed
 for conditional logistic regression). "SL_m" is the distance (m)
 from the start to end point of a step. NOTE: Sensitive GPS locations were
 removed from this version of the file in accordance with the agreement
 under which the data were acquired.GPS_traffic_data_wolverine_revised.xlsx
DOI: 10.5061/dryad.pb0dn
title: Data from: Comparison of population-genetic structuring in congeneric kelp- versus rock-associated snails: a test of a dispersal-by-rafting hypothesis

description: Phylogeographic studies indicate that many marine invertebrates lacking
 autonomous dispersal ability are able to achieve trans-oceanic
 colonization by rafting on buoyant macroalgae. However, less is known
 about the impact of rafting on on-going population-genetic connectivity of
 intertidal species associated with buoyant macroalgae. We hypothesize that
 such species will have higher levels of population-genetic connectivity
 than those exploiting nonbuoyant substrates such as rock. We tested this
 hypothesis by comparing nuclear multilocus population-genetic structuring
 in two sister topshell species, which both have a planktonic larval phase
 but are fairly well segregated by their habitat preference of low-tidal
 bull-kelp holdfasts versus mid-to-low tidal bare rock. We analyzed
 population samples from four sympatric sites spanning 372 km of the east
 coast of southern New Zealand. The sampled region encompasses a 180 km
 wide habitat discontinuity and is influenced by a stable, northward
 coastal current. The level of connectivity was high in both species, and
 neither of them showed significant correlation between genetic and
 geographic distances. However, a significant negative partial correlation
 between genetic distance and habitat discontinuity was found in the
 rock-associated species, and estimates of migrant movement between sites
 were somewhat different between the two species, with the kelp-associated
 species more often yielding higher estimates across the habitat
 discontinuity, whereas the rock-associated species more often exhibited
 higher estimates between sites interspersed by rock habitats. We conclude
 that for species with substantial means of autonomous dispersal, the most
 conspicuous consequence of kelp dwelling may be enhanced long-distance
 dispersal across habitat discontinuities rather than a general increase of
 gene flow.
description: NikulaSpencerWaters2011_msatdata_updated31072012
DOI: 10.5061/dryad.gr43t
title: Data from: Analysis of inbreeding depression in mixed-mating plants provides evidence for selective interference and stable mixed mating

description: Hermaphroditic individuals can produce both selfed and outcrossed progeny,
 termed mixed mating. General theory predicts that mixed-mating populations
 should evolve quickly toward high rates of selfing, driven by rapid
 purging of genetic load and loss of inbreeding depression (ID), but the
 substantial number of mixed-mating species observed in nature calls this
 prediction into question. Greater average ID reported for selfing than for
 outcrossing populations is consistent with purging and suggests that
 mixed-mating taxa in evolutionary transition will have intermediate ID. We
 compared the magnitude of ID from published estimates for highly selfing
 (r &gt; 0.8), mixed-mating (0.2 &lt; r &gt; 0.8), and highly
 outcrossing (r &lt; 0.2) plant populations across 58 species. We found
 that mixed-mating and outcrossing taxa have equally high average lifetime
 ID (d = 0.58 and 0.54, respectively) and similar ID at each of four
 life-cycle stages. These results are not consistent with evolution toward
 selfing in most mixed-mating taxa. We suggest that prevention of purging
 by selective interference could explain stable mixed mating in many
 natural populations. We identify critical gaps in the empirical data on
 inbreeding depression and outline key approaches to filling them.
description: weakmoderatestrongInbreedingDepressionInPlantsData were collected as part of the NESCent working group, “The Paradox of mixed mating in flowering plants”. The group searched for inbreeding depression data for populations of species for which outcrossing rates were available (see Goodwillie et al 2005, Ann. Rev. Ecol. Evol. Syst 36: 47-79). The spreadsheet includes some data that were not used for the analyses reported in the paper. For example, if not enough life stages were measured by the original authors for us to calculate 3- or 4-stage inbreeding depression, we could not use the data for our analyses. Our decision rules and a table that includes all data used in our analyses are included in our publication (Table 2) For further information, please see the ReadMe file.
DOI: 10.5061/dryad.ts058
title: Data from: Genomic and morphological evidence converge to resolve the enigma of Strepsiptera

description: The phylogeny of insects, one of the most spectacular radiations of life
 on earth, has received considerable attention. However, the evolutionary
 roots of one intriguing group of insects, the twisted-wing parasites
 (Strepsiptera), remain unclear despite centuries of study and debate.
 Strepsiptera exhibit exceptional larval developmental features, consistent
 with a predicted step from direct (hemimetabolous) larval development to
 complete metamorphosis that could have set the stage for the spectacular
 radiation of metamorphic (holometabolous) insects. Here we report the
 sequencing of a Strepsiptera genome and show that the analysis of
 sequence-based genomic data (comprising more than 18 million nucleotides
 from nearly 4,500 genes obtained from a total of 13 insect genomes), along
 with genomic metacharacters, clarifies the phylogenetic origin of
 Strepsiptera and sheds light on the evolution of holometabolous insect
 development. Our results provide overwhelming support for Strepsiptera as
 the closest living relatives of beetles (Coleoptera). They demonstrate
 that the larval developmental features of Strepsiptera, reminiscent of
 those of hemimetabolous insects, are the result of convergence. Our
 analyses solve the long-standing enigma of the evolutionary roots of
 Strepsiptera and reveal that the holometabolous mode of insect development
 is more malleable than previously thought.
description: Niehuis2012_supplementary_data.tarThis data package was amended with corrected files on 2013-09-19. The corrected files are Niehuis2012_supplementary_data_corrected.tar.gz and README_corrected.txt. These files should be used instead of Niehuis2012_supplementary_data.tar.gz and README.txtNiehuis2012_supplementary_data_corrected.tar.gzNiehuis2012_supplementary_data_corrected.tar
DOI: 10.5061/dryad.846nj
title: Data from: Recombination in the threespine stickleback genome – patterns and consequences

description: Heterogeneity in recombination rate may strongly influence genome
 evolution and entail methodological challenges in genomic investigations.
 Nevertheless, a solid understanding of these issues awaits detailed
 information across a broad range of taxa. Based on 282 F2 individuals and
 1,872 single nucleotide polymorphisms, we characterize recombination in
 the threespine stickleback fish genome. We find an average genome-wide
 recombination rate of 3.11 cM/Mb. Crossover frequencies are dramatically
 elevated in the chromosome peripheries as compared to the centers, and are
 consistent with one obligate crossover per chromosome (but not chromosome
 arm). Along the sex chromosome, we show that recombination is restricted
 to a small pseudoautosomal domain of c. 2 Mb, spanning only 10% of that
 chromosome. Comparing female versus male RAD sequence coverage allows us
 to identify two discrete levels of degeneration on the Y chromosome, one
 of these ‘evolutionary strata’ coinciding with a previously inferred
 inverted region. Using polymorphism data from two young (&lt; 10,000
 years) ecologically diverged lake-stream population pairs, we demonstrate
 that recombination rate correlates with both the magnitude of allele
 frequency shifts between populations and levels of genetic diversity
 within populations. These associations reflect genome-wide heterogeneity
 in the influence of selection on linked sites. We further find a strong
 relationship between recombination rate and GC content, possibly driven by
 GC-biased gene conversion. Overall, we highlight that heterogeneity in
 recombination rate has profound consequences on genome evolution and
 deserves wider recognition in marker-based genomic analyses.
description: G.ac_2006_corrected_v2Version 3. See also: Corrigendum, Molecular Ecology 22(20): 5270. doi:10.1111/mec.12532
DOI: 10.5061/dryad.bc4sf
title: Data from: Kin-bias, breeding site selection, and female fitness in a cannibalistic Neotropical frog

description: Resource availability influences sexual selection within populations and
 determines whether behaviours such as territoriality or resource sharing
 are adaptive. In Thoropa taophora, a frog endemic to the Atlantic Coastal
 Rainforest of Brazil, males compete for and defend limited breeding sites
 while females often share breeding sites with other females; however,
 sharing breeding sites may involve costs due to cannibalism by conspecific
 tadpoles. We studied a breeding population of T. taophora to determine (i)
 whether this species exhibits polygynous mating involving female choice
 for territorial males and limited breeding resources; (ii) whether limited
 breeding resources create the potential for male–male cooperation in
 defence of neighbouring territories; and (iii) whether females sharing
 breeding sites exhibit kin-biased breeding site choice, possibly driven by
 fitness losses due to cannibalism among offspring of females sharing
 sites. We used microsatellites to reconstruct parentage and quantify
 relatedness at eight breeding sites in our focal population, where these
 sites are scarce, and in a second population, where sites are abundant. We
 found that at localities where the appropriate sites for reproduction are
 spatially limited, the mating system for this species is polygynous, with
 typically two females sharing a breeding site with a male. We also found
 that females exhibit negative kin-bias in their choice of breeding sites,
 potentially to maximize their inclusive fitness by avoiding tadpole
 cannibalism of highly related kin. Our results indicate that male
 territorial defence and female site sharing are likely important
 components of this mating system, and we propose that kinship-dependent
 avoidance in mating strategies may be more general than previously
 realized.
description: Thoropa taophora
 Genotypes, Body Size, & Gosner Stages
DOI: 10.5061/dryad.k1m1g
title: Data from: Population genetic structure and approximate Bayesian computation analyses reveal the southern origin and northward dispersal of the oriental fruit moth Grapholita molesta (Lepidoptera: Tortricidae) in its native range

description: The oriental fruit moth (OFM) Grapholita molesta is one of the most
 destructive orchard pests. Assumed to be native to China, the moth is now
 distributed throughout the world. However, the evolutionary history of
 this moth in its native range remains unknown. In this study, we explored
 the population genetic structure, dispersal routes and demographic history
 of the OFM in China and South Korea based on mitochondrial genes and
 microsatellite loci. The Mantel test indicated a significant correlation
 between genetic distance and geographical distance in the populations.
 Bayesian analysis of population genetic structure (baps) identified four
 nested clusters, while the geneland analysis inferred five genetic groups
 with spatial discontinuities. Based on the approximate Bayesian
 computation approach, we found that the OFM was originated from southern
 China near the Shilin area of Yunnan Province. The early divergence and
 dispersal of this moth was dated to the Penultimate glaciation of
 Pleistocene. Further dispersal from southern to northern region of China
 occurred before the last glacial maximum, while the expansion of
 population size in the derived populations in northern region of China
 occurred after the last glacial maximum. Our results indicated that the
 current distribution and structure of the OFM were complicatedly
 influenced by climatic and geological events and human activities of
 cultivation and wide dissemination of peach in ancient China. We provide
 an example on revealing the origin and dispersal history of an
 agricultural pest insect in its native range as well as the underlying
 factors.
description: Microsatellite_Grapholita_molesta_8loci_14popsEight microsatellite loci from the 14 Grapholita molesta populationsAppendix_S17_Microsatellite_Grapholita_molesta_8loci_14pops.txtSequences of mitochondrial genes from each individual of the Grapholita molestaThe sequences of the mitochondrial genes cox1, cox2, atp8, atp6, nad5, nad1 and lrna and the combination of the seven genes from the 754 individuals of Grapholita molesta.Mitochondrial_genes_from_each_individual_of_Grapholita_molesta.rarHaplotype sequences of the mitochondrial genes from the Grapholita molestaHaplotype sequences of the mitochondrial genes cox1, cox2, atp8, atp6, nad5, nad1, and lrna and the combination of the seven genes from the Grapholita molesta.Mitochondrial_haplotypes_of_Grapholita_molesta.rarEight microsatellite loci from 14 populations of the Grapholita molestaGenotypes of eight microsatellite loci from 14 populations of the Grapholita molestaMicrosatellite_Grapholita_molesta_8loci_14pops.txtInput files of BAPS, BEAST, BSP, DIYABC, GENELAND and Mantel test analysesInput files of BAPS, BEAST, BSP, DIYABC, GENELAND and Mantel test analysesinput_files.zip
DOI: 10.5061/dryad.d5h1n
title: Data from: Chloroplast phylogenomic analyses resolve deep-level relationships of an intractable bamboo tribe Arundinarieae (Poaceae)

description: The temperate woody bamboos constitute a distinct tribe Arundinarieae
 (Poaceae: Bambusoideae) with high species diversity. Estimating
 phylogenetic relationships among the 11 major lineages of Arundinarieae
 has been particularly difficult, owing to a possible rapid radiation and
 the extremely low rate of sequence divergence. Here we explore the use of
 chloroplast genome sequencing for phylogenetic inference. We sampled 25
 species (22 temperate bamboos and 3 outgroups) for the complete genome
 representing 8 major lineages of Arundinarieae in an attempt to resolve
 backbone relationships. Phylogenetic analyses of coding versus noncoding
 sequences, and of different regions of the genome (large and small
 single-copy, and inverted repeats regions) yielded no well-supported
 contradicting topologies but potential incongruence was found between the
 coding and noncoding sequences. The use of various data partitioning
 schemes in analysis of the complete sequences resulted in nearly identical
 topologies and node support values, although the partitioning schemes were
 decisively different from each other as to the fit to the data. Our full
 genomic data set substantially increased resolution along the backbone and
 provided strong support for most relationships despite the very short
 internodes and long branches in the tree. The inferred relationships were
 also robust to potential confounding factors (e.g., long-branch
 attraction) and received support from independent indels in the genome. We
 then added taxa from the three Arundinarieae lineages that were not
 included in the full-genome data set; each of these were sampled for
 &gt;50% genome sequences. The resulting trees not only corroborated
 the reconstructed deep-level relationships but also largely resolved the
 phylogenetic placements of these three additional lineages. Furthermore,
 adding 129 additional taxa sampled for only 8 chloroplast loci to the
 combined data set yielded almost identical relationships, albeit with low
 support values. We believe that the inferred phylogeny is robust to taxon
 sampling. Having resolved the deep-level relationships of Arundinarieae,
 we illuminate how chloroplast phylogenomics can be used for elucidating
 difficult phylogeny at low taxonomic levels in intractable plant groups.
description: This file contains 8
 supplemental tables and 14 supplemental figures.Supplemental_Tables_Figures.zipSequence AlignmentThis file contains 3 alignments of chloroplast genome sequences assembled in the study. These alignments are in the FASTA format.Data matricesThis file contains 8 data matrices used in the study for phylogenetic analyses. The names of the data sets correspond to those in the main text.
DOI: 10.82294/dvntjbxmn
title: Entrevistas semiestructuradas. Territorio: Cali. Sector: Cultura. 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 Cultura (educación informal) en la ciudad de Cali.
DOI: 10.5061/dryad.3ks4h
title: Data from: Hypoxia-inducible factor-1 mediates adaptive developmental plasticity of hypoxia tolerance in zebrafish, Danio rerio

description: In recent years, natural and anthropogenic factors have increased aquatic
 hypoxia the world over. In most organisms, the cellular response to
 hypoxia is mediated by the master regulator hypoxia-inducible factor-1
 (HIF-1). HIF-1 also plays a critical role in the normal development of the
 cardiovascular system of vertebrates. We tested the hypothesis that
 hypoxia exposures which resulted in HIF-1 induction during embryogenesis
 would be associated with enhanced hypoxia tolerance in subsequent
 developmental stages. We exposed zebrafish (Danio rerio) embryos to just 4
 h of severe hypoxia or total anoxia at 18, 24 and 36 h post-fertilization
 (hpf). Of these, exposure to hypoxia at 24 and 36 hpf as well as anoxia at
 36 hpf activated the HIF-1 cellular pathway. Zebrafish embryos that
 acutely upregulated the HIF-1 pathway had an increased hypoxia tolerance
 as larvae. The critical window for hypoxia sensitivity and HIF-1
 signalling was 24 hpf. Adult male fish had a lower critical oxygen tension
 (Pcrit) compared with females. Early induction of HIF-1 correlated
 directly with an increased proportion of males in the population. We
 conclude that mounting a HIF-1 response during embryogenesis is associated
 with long-term impacts on the phenotype of later stages which could
 influence both individual hypoxia tolerance and population dynamics.
description: Robertson et al. 2014
 Complete Dataset for Dryad - revised complete versionData from: HIF-1
 mediates adaptive developmental plasticity of hypoxia tolerance in
 zebrafish, Danio rerio, Robertson, Cayleih, Wright, Patricia, Köblitz,
 Louise, Bernier, Nicholas
DOI: 10.5281/zenodo.18218903
title: Experimental observation of dynamical blockade between transmon qubits via ZZ interaction engineering

description: The repository contains the experimental data and fitted values reported in the figures of the linked publication.
DOI: 10.5281/zenodo.18218904
title: Experimental observation of dynamical blockade between transmon qubits via ZZ interaction engineering

description: The repository contains the experimental data and fitted values reported in the figures of the linked publication.