cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.h8fp2
title: Data from: Comparative spatial genetics and epigenetics of plant populations: heuristic value and a proof of concept

description: Despite the recent upsurge of interest on natural epigenetic variation of
 nonmodel organisms, factors conditioning the spatial structure of
 epigenetic diversity in wild plant populations remain virtually
 unexplored. We propose that information on processes shaping natural
 epigenetic variation can be gained using the spatial structure of genetic
 diversity as null model. Departures of epigenetic isolation-by-distance
 (IBD) patterns from genetic IBD patterns for the same sample, particularly
 differences in slope of similarity-distance regressions, will reflect the
 action of factors that operate specifically on epigenetic variation,
 including imperfect transgenerational inheritance and responsiveness to
 environmental factors of epigenetic marks. As a proof of concept, we
 provide a comparative analysis of spatial genetic and epigenetic structure
 of 200 mapped individuals of the perennial herb Helleborus foetidus.
 Plants were fingerprinted using nuclear microsatellites, amplified
 fragment length polymorphisms (AFLP) and methylation-sensitive AFLP
 markers. Expectations from individual-level IBD patterns were tested by
 means of kinship-distance regressions. Both genetic and epigenetic
 similarity between H. foetidus individuals conformed to theoretical
 expectations under individual-level IBD models. Irrespective of marker
 type, there were significant negative linear relationships between the
 kinship coefficient for plant pairs and their spatial separation.
 Regression slopes were significantly steeper for epigenetic markers.
 Epigenetic similarity between individuals was much greater than genetic
 similarity at shortest distances, such epigenetic ‘kinship excess’ tending
 to decrease as plant separation increased. Results suggest that
 moderate-to-high heritability and responsiveness to local environments are
 major drivers of epigenetic spatial structure in H. foetidus, and
 illustrate the heuristic value of comparing genetic and epigenetic spatial
 structure for formulating and testing hypotheses on forces shaping
 epigenetic diversity in wild plant populations.
description: Microsatellite
 genotypesGenotype information
 from 11 microsatellite loci (Hefo1, Hefo4, Hefo10, Hefo2, Hefo11, Hefo13,
 Hefo9, Hefo8, Hefo7, Hefo3, Hefo5) for individual Helleborus foetidus
 plants sampledMicrosatellite.genotypes.txtGeographical coordinates of individual Helleborus foetidus plants sampledGeographical.coordinates.xls
DOI: 10.5061/dryad.m280g
title: Data from: Lifespan behavioral and neural resilience in a social insect

description: Analyses of senescence in social species are important to understanding
 how group living influences the evolution of ageing in society members.
 Social insects exhibit remarkable lifespan polyphenisms and division of
 labour, presenting excellent opportunities to test hypotheses concerning
 ageing and behaviour. Senescence patterns in other taxa suggest that
 behavioural performance in ageing workers would decrease in association
 with declining brain functions. Using the ant Pheidole dentata as a model,
 we found that 120-day-old minor workers, having completed 86% of their
 laboratory lifespan, showed no decrease in sensorimotor functions
 underscoring complex tasks such as alloparenting and foraging.
 Collaterally, we found no age-associated increases in apoptosis in
 functionally specialized brain compartments or decreases in synaptic
 densities in the mushroom bodies, regions associated with integrative
 processing. Furthermore, brain titres of serotonin and
 dopamine—neuromodulators that could negatively impact behaviour through
 age-related declines—increased in old workers. Unimpaired task performance
 appears to be based on the maintenance of brain functions supporting
 olfaction and motor coordination independent of age. Our study is the
 first to comprehensively assess lifespan task performance and its
 neurobiological correlates and identify constancy in behavioural
 performance and the absence of significant age-related neural declines.
description: Brood care
 actsBrood care
 timeTrail
 followingAnnulus half width
 indicates the half width of the area around the pheromone trail where ants
 were tracked.PredationPredation was classified into 4 categories: 1= no aggression, 2= mandible flaring, 3= latent attack (delayed or not sustained for the duration the assay), 4= attack.ApoptosisMB= mushroom bodies, AL= antennal lobes, OL = optic lobes, CC= central complex, SEZ= subesophageal zone RCB= remainder of the central brain. Brain region cells reflects the number of cells per brain region based on a subset of sampled brains (see methods for details). Proportion X (followed by brain region) reflects the amount of that brain region available for counting. Brain region prop indicates the proportion of apoptotic cells of each region scaled by the number of cells per region and the proportion of that region sampled. Brain region prop + 0.001 adds a constant for non-zero values. Log brain region prop are the log transformed values of brain region prop +0.001.MicroglomeruliLateral and medial refer to lateral and medial calyces. Distal and proximal refer to circles used for sampling. Details are provided in methods.AminesDA and 5HT are raw values for the 20 ul sampled of homogenate sampled. Corr 5HT and Corr DA are whole brain titers.PhototaxisActivity
DOI: 10.5061/dryad.7sf3g
title: Data from: Complex dynamics underlie the evolution of imperfect wing pattern convergence in butterflies

description: Adaptive radiation is characterized by rapid diversification that is
 strongly associated with ecological specialization. However, understanding
 the evolutionary mechanisms fueling adaptive diversification requires a
 detailed knowledge of how natural selection acts at multiple life-history
 stages. Butterflies within the genus Adelpha represent one of the largest
 and most diverse butterfly lineages in the Neotropics. Although Adelpha
 species feed on an extraordinary diversity of larval hosts, convergent
 evolution is widespread in this group suggesting that selection for
 mimicry may contribute to adaptive divergence among species. To
 investigate this hypothesis, we conducted predation studies in Costa Rica
 using artificial butterfly facsimiles. Specifically, we predicted that
 non-toxic, palatable Adelpha species that do not feed on host plants in
 the family Rubiaceae would benefit from sharing a locally convergent wing
 pattern with the presumably toxic Rubiaceae-feeding species via reduced
 predation. Contrary to expectations, we found that the presumed mimic was
 attacked significantly more than its locally convergent model, at a
 frequency paralleling attack rates on both novel and palatable prey.
 Although these data reveal the first evidence for protection from avian
 predators by the supposed toxic, Rubiaceae-feeding Adelpha species, we
 conclude that imprecise mimetic patterns have high costs for Batesian
 mimics in the tropics.
description: Field predation
 dataRecorded predator
 attacks on artificial butterfliesAdelpha Project Predation Data
 2015-2016.xlsx
DOI: 10.5281/zenodo.18382096
title: Replication Package for Universal Early Childhood Education and Adolescent Risky Behavior

description: This replication package accompanies the article Ando, Michihito, Hiroaki Mori, and Shintaro Yamaguchi, “Universal Early Childhood Education and Adolescent Risky Behavior,” Journal of Public Economics, Volume 245, May 2025, Article 105353.

The package includes the data and software code required to reproduce tables and figures reported in the article and its online appendix.
DOI: 10.5281/zenodo.18382097
title: Replication Package for Universal Early Childhood Education and Adolescent Risky Behavior

description: This replication package accompanies the article Ando, Michihito, Hiroaki Mori, and Shintaro Yamaguchi, “Universal Early Childhood Education and Adolescent Risky Behavior,” Journal of Public Economics, Volume 245, May 2025, Article 105353.

The package includes the data and software code required to reproduce tables and figures reported in the article and its online appendix.
DOI: 10.5061/dryad.f1b56
title: Data from: Interrelationships of basal synapsids: cranial and postcranial morphological partitions suggest different topologies

description: Basal synapsids (‘pelycosaurs’) form the basalmost portion of the
 mammalian stem lineage and document the transition from primitive
 ‘reptile-like’ basal amniotes to derived, mammal-like therapsids. They
 dominated terrestrial ecosystems of the latest Carboniferous and Early
 Permian (∼300–271 million years ago), producing large-bodied terrestrial
 animals (3–6.5 metres long), high-fibre herbivores, and macropredators for
 the first time in vertebrate history, alongside an array of smaller-bodied
 forms. Despite numerous recent discoveries and reassessments of fossils
 collected over the past 250 years, and despite their importance for
 understanding the early diversification of terrestrial vertebrates, a
 comprehensive assessment of global relationships among basal synapsids has
 not been undertaken. A new phylogenetic dataset comprising 45 taxa (plus
 four outgroups and four therapsids) and 239 characters (147 cranial; 92
 postcranial) reveals considerable uncertainty in the relationships of
 higher clades of basal synapsids. Although cranial data support the
 current consensus that Caseasauria is the most basal clade, postcranial
 data and the full dataset suggest that a clade of Ophiacodontidae +
 Varanopidae occupies this position. Although relationships within higher
 clades are well supported, relationships among those clades are poorly
 supported. The likely source of this uncertainty lies in the exceptionally
 poor early record of the group, which renders determinations of the
 plesiomorphic condition of higher clades speculative, although cranial
 data are generally represented by shorter ghost lineages and should
 perhaps be favoured. The new dataset suggests well-supported phylogenetic
 placements for several taxa of historically uncertain affinities:
 Trichasaurus is a caseid; Lupeosaurus is an edaphosaurid; and Basicranodon
 and Ruthiromia are varanopids.
description: Benson 2012 pelycosaur
 dataA
 ZIP file containing three files: "Benson 2012 pelycosaurs.dat"
 is a morphological data matrix in nexus format; "Benson 2012 taxon
 list.txt" is a tab-delimited text file of the taxon list and data
 sources included in the data matrix; "Benson 2012 character
 list.txt" is an annotated character list that accompanies the data
 matrix. Full reference list and museum abbreviations can be found in the
 published article.
DOI: 10.5061/dryad.52c2k52
title: Data from: Local and landscape-scale heterogeneity shape spotted wing drosophila (Drosophila suzukii) activity and natural enemy abundance: implications for trophic interactions

description: Like natural enemies, invasive polyphagous pests may respond positively to
 local and landscape-scale diversity, making them more serious challenges
 to sustainable management than specialists. Yet the current view of
 landscape effects on pests rarely considers perennial systems or
 polyphagous pests. We investigated Drosophila suzukii (SWD) and natural
 enemy distributions and trophic interactions in blueberry systems of the
 southeast US in relation to local management and landscape structure.
 Fields were nested in 1-km landscapes along gradients of crop and forest
 heterogeneity (landscape compositional diversity) and field border and
 crop border lengths (landscape configurational diversity). Yeast-sugar
 bait traps were used to collect SWD and canopy suction sampling for
 natural enemies. Management practices at the local scale did not influence
 SWD abundance, but natural enemy abundance was higher in organic systems
 and fields with vegetation present between rows. Landscape configurational
 diversity and greater proportion of non-cropping habitat promoted higher
 SWD populations. Natural enemy communities were composed of highly
 generalized species, and contrary to our predictions, we observed lower
 abundances in landscapes with higher proportion of non-cropping area. Few
 predators were detected to have fed on SWD, and communities were dominated
 by predators with low specialization on prey in blueberry. Our results
 indicate that local and landscape features in blueberry landscapes have
 differential effects on a polyphagous pest and generalist natural enemies.
 Our initial analysis of predator diets, using a metabarcoding approach,
 suggests spatial structure in specialization on prey with high diversity
 of prey in predators collected in forested margins.
description: schmidtetalAEE_dyradWeek=week sampled; Gdate=sampling date; fieldcd=site identifier numerical; Field ID=site identifier categorical; Treatment=management at field site; Transect=sampling location at site; veg=vegetation presence between blueberry rows; PropNoncrop=proportion of noncrop habitat in 1km buffer; PropBBtot=proportion of blueberry production in 1km buffer; FRAGEdge=edge density -landscape configuration metric; FRAGSHDI=landscape composition metric; chgNP=change in non-cropping habitat 2016-2017; chgF=change in forest area 2016-2017; SWD=trap counts for Drosophila suzukii; other columns are counts for predator taxa observed in suction samples
DOI: 10.5061/dryad.41b5b06
title: Data from: Ecosystem function in predator-prey food webs - confronting dynamic models with empirical data

description: 1. Most ecosystem functions and related services involve species
 interactions across trophic levels, e.g. pollination and biological pest
 control. Despite this, our understanding of ecosystem function in
 multi-trophic communities is poor, and research has been limited to either
 manipulations in small communities or statistical descriptions in larger
 ones. 2. Recent advances in food web ecology may allow us to overcome the
 trade-off between mechanistic insight and ecological realism. Molecular
 tools now simplify the detection of feeding interactions, and trait-based
 approaches allow the application of dynamic food web models to real
 ecosystems. We performed the first test of an allometric food web model’s
 ability to replicate temporally non-aggregated abundance data from the
 field, and to provide mechanistic insight into the function of predation.
 3. We aimed to reproduce and explore the drivers of the population
 dynamics of the aphid herbivore Rhopalosiphum padi observed in ten Swedish
 barley fields. We used a dynamic food web model, taking observed
 interactions and abundances of predators and alternative prey as input
 data, allowing us to examine the role of predation in aphid population
 control. The inverse problem methods were used for simultaneous model fit
 optimization and model parameterization. 4. The model captured &gt;70%
 of the variation in aphid abundance in five of ten fields, supporting the
 model-embodied hypothesis that body-size can be an important determinant
 of predation in the arthropod community. We further demonstrate how
 in-depth model analysis can disentangle the likely drivers of function,
 such as the community’s abundance and trait composition. Analyzing the
 variability in model performance revealed knowledge gaps, such as the
 source of episodic aphid mortality, and general method development needs
 that, if addressed, would further increase model success and enable
 stronger inference about ecosystem function. 5. The results demonstrate
 that confronting dynamic food web models with abundance data from the
 field is a viable approach to evaluate ecological theory and to aid our
 understanding of function in real ecosystems. However, to realize the full
 potential of food web models, in ecosystem function research and beyond,
 trait-based parameterization must be refined and extended to include more
 traits than body size.
description: Curtsdotter_et_al_2018_JAE_CodeAndDataThe .zip includes the MATLAB code and associated 15-node arthropod food web structure, body mass, and abundance data used to run and solve the inverse problem, as described in the paper: Curtsdotter et al. 2018 Ecosystem function in predator-prey food webs - confronting dynamic models with empirical data Journal of Animal Ecology.
DOI: 10.5061/dryad.3gc7rj6
title: Data from: Ecological and evolutionary implications of allometric growth in stomach size of brachyuran crabs

description: Individual characteristics often scale allometrically with organismal body
 size and the form of this scaling can be influenced by ecological and
 evolutionary factors. Examining the specific form of this scaling can
 therefore yield important insights into organismal ecology and evolution
 and the ability of organisms to respond to future environmental changes.
 We examine the allometric scaling of stomach volume with body mass for 17
 species of brachyuran crabs. We also examine how this scaling is
 influenced by dietary strategy, maximum body size, and activity level, all
 while controlling for phylogenetic relationships between the species. We
 show that the slope and intercept of the allometric scaling relationships
 vary across species and are influenced by all three ecological factors
 examined here, as well as by evolutionary relationships. These results
 highlight potential divergent strategies in stomach growth taken by
 different groups of crabs and highlight potential limitations that may be
 imposed on the ability of this group of organisms to respond to warming
 trends expected with climate change.
description: Carapace size vs gut
 width for several species of crabData on stomach size and
 crab size for several species of crabArchive
 data.xlsx
DOI: 10.5061/dryad.gq2756n
title: Data from: Selective differentiation during the colonization and establishment of a newly invasive species

description: The potential for rapid evolution in invasive species makes them useful
 for studying adaptive responses of populations to novel environments.
 However, phenotypic divergence during invasion is not necessarily due to
 selection, but may be a product of neutral processes resulting from
 population bottlenecks during colonization and range expansion. We
 investigated phenotypic adaptation during the establishment and range
 expansion of the invasive bunchgrass, slender false brome (Brachypodium
 sylvaticum; Poaceae). Utilizing a novel approach, we made robust
 comparisons of functional traits using genetic similarity based on unique
 alleles to determine the genetic probability of contribution from native
 source regions, and integrated these probabilities into our QST‐FST
 comparisons for twelve physiological and anatomical traits associated with
 drought stress in the introduced range. Our results indicate phenotypic
 divergence greater than neutral expectations in five traits between native
 and invasive populations, indicating selective divergence occurred during
 invasive species establishment. Results indicate that the majority of
 divergence in B. sylvaticum occurred after introduction to the novel
 environment, but prior to invasive range expansion. This study provides
 evidence for adaptive genetic differentiation during the establishment of
 an invasive species, while also describing a robust method for detection
 of selective processes after species introduction to a novel environment.
description: Marchini et al 2018
 Measured TraitsSpreadsheet of
 phenotypic trait data. Column definitions included on sheet
 2.
DOI: 10.5061/dryad.7fs45
title: Data from: Rehabilitative skilled forelimb training enhances axonal remodeling in the corticospinal pathway but not the brainstem-spinal pathways after photothrombotic stroke in the primary motor cortex

description: Task-specific rehabilitative training is commonly used for chronic stroke
 patients. Axonal remodeling is believed to be one mechanism underlying
 rehabilitation-induced functional recovery, and significant roles of the
 corticospinal pathway have previously been demonstrated. Brainstem-spinal
 pathways, as well as the corticospinal tract, have been suggested to
 contribute to skilled motor function and functional recovery after brain
 injury. However, whether axonal remodeling in the brainstem-spinal
 pathways is a critical component for rehabilitation-induced functional
 recovery is not known. In this study, rats were subjected to
 photothrombotic stroke in the caudal forelimb area of the primary motor
 cortex and received rehabilitative training with a skilled forelimb
 reaching task for 4 weeks. After completion of the rehabilitative
 training, the retrograde tracer Fast blue was injected into the
 contralesional lower cervical spinal cord. Fast blue-positive cells were
 counted in 32 brain areas located in the cerebral cortex, hypothalamus,
 midbrain, pons, and medulla oblongata. Rehabilitative training improved
 motor performance in the skilled forelimb reaching task but not in the
 cylinder test, ladder walk test, or staircase test, indicating that
 rehabilitative skilled forelimb training induced task-specific recovery.
 In the histological analysis, rehabilitative training significantly
 increased the number of Fast blue-positive neurons in the ipsilesional
 rostral forelimb area and secondary sensory cortex. However,
 rehabilitative training did not alter the number of Fast blue-positive
 neurons in any areas of the brainstem. These results indicate that
 rehabilitative skilled forelimb training enhances axonal remodeling
 selectively in the corticospinal pathway, which suggests a critical role
 of cortical plasticity, rather than brainstem plasticity, in task-specific
 recovery after subtotal motor cortex destruction.
description: Data