cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.v69f3mq
title: Data from: Kin recognition and co-operative foraging in Drosophila melanogaster larvae

description: A long-standing goal for biologists and social scientists is to understand
 the factors that lead to the evolution and maintenance of co-operative
 behaviour between conspecifics. To that end, the fruit fly, Drosophila
 melanogaster, is becoming an increasingly popular model species to study
 sociality, however, most of the research to date has focused on adult
 behaviours. In this study, we set out to examine group feeding behaviour
 by larvae and to determine whether the degree of relatedness between
 individuals mediates the expression co-operation. In a series of assays,
 we manipulated the average degree of relatedness in groups of third instar
 larvae that were faced with resource scarcity, and measured the size,
 frequency and composition of feeding clusters, as well as the fitness
 benefits associated with co-operation. Our results suggest that larval D.
 melanogaster are capable of kin recognition (something that has not been
 previously described in this species), as clusters were more numerous,
 larger and involved more larvae, when more closely related kin were
 present in the social environment. These findings are discussed in the
 context of the correlated fitness-associated benefits of co-operation, the
 potential mechanisms by which individuals may recognize kin, and how that
 kinship may play an important role in facilitating the manifestation of
 this co-operative behaviour.
description: ASSAY_1Data from Experiment 1: Characterization of feeding clusters. This dataset contains measurements made on the number, size and membership of feeding clusters in vials of D. melanogaster where the degree of relatedness had been experimentally manipulated.ASSAY_2_SURVIVORSHIPData from Experiment 2: Assessing consequences of larval co-operative behaviour on survivorship and development. This dataset contains measurements made of the egg-to-adult survivorship of D. melanogaster where the degree of relatedness had been experimentally manipulated.ASSAY_2_WEIGHTSData from Experiment 2: Assessing consequences of larval co-operative behaviour on survivorship and development. This dataset contains measurements made of the weight of male and female of D. melanogaster that developed in vials where the degree of relatedness had been experimentally manipulated.ASSAY_3Data from Experiment 3: Measuring feeding cluster membership as it relates to kinship. This dataset contains the number of target (wild-type) and competitor (bw-eyed) adults eclosing from a sampled feeding cluster that was collected from a vial where the degree of relatedness between target larvae had been experimentally manipulated.
DOI: 10.5061/dryad.jn07s0s
title: Data from: Current climate, isolation and history drive global patterns of tree phylogenetic endemism

description: Aim: We mapped global patterns of tree phylogenetic endemism (PE) to
 identify hotspots and test hypotheses about possible drivers.
 Specifically, we tested hypotheses related to current climate,
 geographical characteristics and historical conditions, and assessed their
 relative importance in shaping PE patterns. Location: Global. Time period:
 We used the present distribution of trees, and predictors covering
 conditions from the mid-Miocene to present. Major taxa studied: All
 seed-bearing trees. Methods: We compiled distributions for 58,542 tree
 species across 463 regions worldwide, matched these to a recent phylogeny
 of seed plants, and calculated PE for each region. We used a suite of
 predictor variables describing current climate (e.g. mean annual
 temperature), geographical characteristics (e.g. isolation) and historical
 conditions (e.g. tree cover at the last glacial maximum) in a spatial
 regression model to explain variation in PE. Results: Tree PE was highest
 on islands, and was higher closer to the equator. All three groups of
 predictor variables contributed substantially to the PE pattern. Isolation
 and topographic heterogeneity promoted high PE, as did high current tree
 cover. Among mainland regions, temperature seasonality was strongly
 negatively related to PE, while mean annual temperature was positively
 related to PE on islands. Some relationships differed among the major
 floristic regions. For example, tree cover at the last glacial maximum was
 a positive predictor of PE in the Paleotropics, while tree cover at the
 Miocene was a negative predictor of PE in the Neotropics. Main
 conclusions: Globally, PE can be explained by a combination of geographic,
 historical, and current factors. Some geographic variables appear to be
 key predictors of PE. However, the impact of historic and current climate
 variables differs considerably among the major floristic regions,
 reflecting their unique histories. Hence, the current distribution of
 trees is the result of globally relevant geographic drivers and regional
 climatic histories.
description: Tree PE, PD, richness
 and predictorsAn ESRI shapefile
 containing all predictor and response variables per region. Response
 variables include phylogenetic endemism (PE), species richness,
 phylogenetic diveristy (PD) and range size rarity (RSR), among others.
 Predictor variables include a range of descriptions of geographic,
 historical and climate variables describing (among other things)
 connectivity, dynamics of tree cover through time and current temperature
 and precipitation.Tree_PE.zip
DOI: 10.5281/zenodo.18392762
title: Lattice kinetic Monte Carlo model to simulate RNA polymerase II clusters during stem cell differentiation

description: This data set includes Python scripts (numerical simulation and analysis) and already generated simulation data for RNA polymerase II clusters during stem cell differentiation. It includes the whole data to recreate panels. Updated Version 2026.
DOI: 10.5281/zenodo.7966556
title: Lattice kinetic Monte Carlo model to simulate RNA polymerase II clusters during stem cell differentiation

description: This data set includes Python scripts (numerical simulation and analysis) and already generated simulation data for RNA polymerase II clusters during stem cell differentiation. It includes the whole data to recreate panels. Updated Version 2026.
DOI: 10.5061/dryad.tq20c08
title: Data from: A test of a corollary of Allen’s rule suggests a role for population density

description: A body of research by Russell Greenberg, Glenn Tattersall, and their
 colleagues has proposed a corollary of Allen's Rule: that in
 freshwater‐limited environments, bill surface area increases with
 temperature. Increases in both population density and sexual dimorphism,
 however, could also explain increases in bill surface area. After
 controlling for the effects of a hybrid zone, we tested whether
 temperature or population density in the Saltmarsh Sparrow (Ammospiza
 caudacuta), a sexually monomorphic estuarine specialist, explained greater
 variance in bill surface area. This allowed us to examine multiple
 potential selective mechanisms underlying the Greenberg‐Tattersall
 Corollary. We found that Saltmarsh Sparrows follow the general pattern of
 the Corollary (larger bills in warmer summer climates) but only after
 controlling for population density. The relationship between bill surface
 area and temperature varied inversely with population density. We discuss
 the relative abilities of sexual selection and ecological competition to
 explain these results.
description: Olsen et al 2019_JAB -
 bill dataThis file includes body
 measurements and relevant ecological setting (i.e., whether the site was
 within a hybrid zone, an index of species density within a tenth of a
 degree of latitude) for bill measurements of two sparrow
 species.
DOI: 10.5061/dryad.31pg487
title: Data from: A general model for seed and seedling respiratory metabolism

description: The ontogeny of seed plants usually involves a dormant dehydrated state
 and the breaking of dormancy and germination, which distinguishes it from
 that of most organisms. Seed germination and seedling establishment are
 critical ontogenetic stages in the plant life cycle and both are fueled by
 respiratory metabolism. However, the scaling of metabolic rate with
 respect to individual traits remains poorly understood. Here, we tested
 metabolic scaling theory during seed germination and early establishment
 growth using a recently developed model and empirical data collected from
 41 species. The results show that (i) the mass-specific respiration rate
 (Rm) is weakly correlated with body mass, mass-specific N, and C content,
 (ii) Rm conformed to a single Michaelis-Menten curve as a function of
 tissue water content, and (iii) the central parameters in the model were
 highly correlated with DNA content and critical enzyme activities. The
 model offers new insights and a more integrative scaling theory that
 quantifies the combined effects of tissue water content and body mass on
 respiratory metabolism during early plant ontogeny.
description: Seedling respiration
 dataThe data includes
 measurements of mass-specific respiration, tissue water content, carbon
 and nitrogen content of seeds and seedlings during germination and early
 development.
DOI: 10.5061/dryad.84gr477
title: Data from: Alpha and beta diversity of connected benthic–subsurface invertebrate communities respond to drying in dynamic river ecosystems

description: Drying disturbances are the primary determinant of aquatic community
 biodiversity in dynamic river ecosystems. Research exploring how
 communities respond to disturbance has focused on benthic invertebrates in
 surface sediments, inadequately representing a connected community that
 extends into the subsurface. We compared subsurface and benthic
 invertebrate responses to drying, to identify common and context-dependent
 spatial patterns. We characterized community composition, alpha diversity
 and beta diversity across a gradient of drying duration. Subsurface
 communities responded to drying, but these responses were typically less
 pronounced than those of benthic communities. Despite compositional
 changes and in contrast to reductions in benthic alpha diversity, the
 alpha diversity of subsurface communities remained stable except at long
 drying durations. Some primarily benthic taxa were among those whose
 subsurface frequency and abundance responded positively to drying.
 Collectively, changing composition, stable richness and taxon-specific
 increases in occurrence provide evidence that subsurface sediments can
 support persistence of invertebrate communities during drying
 disturbances. Beta-diversity patterns varied and no consistent patterns
 distinguished the total diversity, turnover or nestedness of subsurface
 compared to benthic communities. In response to increasing drying
 duration, beta diversity increased or remained stable for benthic
 communities, but remained stable or decreased for subsurface communities,
 likely reflecting contrasts in the influence of mass effects, priority
 effects and environmental filtering. Dissimilarity between subsurface and
 benthic communities remained stable or increased with drying duration,
 suggesting that subsurface communities maintain distinct biodiversity
 value while also supporting temporary influxes of benthic taxa during
 drying events. As temporary rivers increase in extent due to global
 change, we highlight that recognizing the connected communities that
 extend into the subsurface sediments can enable holistic understanding of
 ecological responses to drying, the key determinant of biodiversity in
 these dynamic ecosystems.
description: Stubbington_et_al._invertebrate_community_raw_dataThe file includes taxon-by-sample matrices for aquatic invertebrate communities sampled from the benthic (B) and hyporheic (H) zones of each of five study rivers. The % flow intermittence (FI) is also provided.
DOI: 10.5061/dryad.7pd654v
title: Data from: Ocean acidification affects acid-base physiology and behaviour in a model invertebrate, the California sea hare (Aplysia californica)

description: Behavioural impairment following exposure to ocean acidification-relevant
 CO2 levels has been noted in a broad array of taxa. The underlying cause
 of these disruptions is thought to stem from alterations of ion gradients
 (HCO3Cl) across neuronal cell membranes that occur as a consequence of
 maintaining pH homeostasis via the accumulation of HCO3Cl. While
 behavioural impacts are widely documented, few studies have measured
 acid-base parameters in species showing behavioural disruptions. In
 addition, current studies examining mechanisms lack resolution in
 targeting specific neural pathways corresponding to a given behaviour.
 With these considerations in mind, acid-base parameters and behaviour were
 measured in a model organism utilized for decades as a research model to
 study learning, the California sea hare (Aplysia californica). Aplysia
 exposed to CO2 elevated hemolymph HCO3Cl, achieving full and partial pH
 compensation at 1200 and 3000 μatm CO2, respectively. Increased CO2 did
 not affect self-righting behaviour. In contrast, both levels of elevated
 CO2 reduced the time of the tail-withdrawal reflex, suggesting a reduction
 in antipredator response. Overall, these results confirm that Aplysia are
 promising models to examine mechanisms underlying CO2-induced behavioural
 disruptions since they regulate HCO3-Cl- and have behaviours linked to
 neural networks amenable to electrophysiological testing.
description: Zlatkin and Heuer 2019
 Aplysia data Royal Society Open ScienceThis file contains raw
 data including individual replicates for behavioral trials and acid-base
 measurements, in addition to biometric data for each animal (mass). For
 the tail-withdrawal reflex, this includes the amount of time for the
 reflex in addition to the percent of the body withdrawn. For the righting
 reflex, the time to complete the reflex is reported. Acid-base measurement
 data includes extracellular pH (pHe), bicarbonate, and pCO2
 levels.
DOI: 10.5061/dryad.2k54f0d
title: Data from: Surviving drought: a framework for understanding animal responses to small rain events in the arid-zone

description: Large rain events drive dramatic resource pulses and the complex
 pulse-reserve dynamics of arid ecosystem changes between high-rain years
 and drought. However, arid-zone animal responses to short-term changes in
 climate are unknown, particularly smaller rain events that briefly
 interrupt longer-term drought. Using arthropods as model animals, we
 determined the effects of a small rain event on arthropod abundance in
 western NSW, Australia during a longer-term shift towards drought.
 Arthropod abundance decreased over two years, but captures of ten out of
 fifteen ordinal groups increased dramatically after the small rain event
 (&lt;40mm). The magnitude of increases ranged from 10.4 million%
 (collembolans) to 81% (spiders). After three months, most groups returned
 to pre-rain abundance. However, small soil-dwelling beetles, mites,
 spiders, and collembolans retained high abundances despite the onset of
 winter temperatures and lack of subsequent rain. As predicted by
 pulse-reserve models, most arid-zone arthropod populations declined during
 drought. However, small rain events may play a role in buffering some
 groups from declines during longer-term drought or other xenobiotic
 influences. We outline the framework for a new model of animal responses
 to environmental conditions in the arid zone, as some species clearly
 benefit from rain inputs that do not dramatically influence primary
 productivity.
description: ECY19-0487_R1_ArthropodRawDataExcel file containing capture totals for all arrays, sites and seasons used in analysis for the manuscript "Surviving drought: a framework for understanding animal responses to small rain events in the arid-zone"
DOI: 10.5061/dryad.4c44hq3
title: Data from: Spatio-temporal effects of logging and fire on tall, wet temperate eucalypt forest birds

description: Forests globally are subject to multiple disturbances such as logging and
 fire that create complex temporal variation in spatial patterns of forest
 cover and stand age. However, investigations that quantify temporal
 changes in biodiversity in response to multiple forms of disturbance in
 space and time are relatively uncommon. Over a 10-year period, we
 investigated the response of bird species to spatio-temporal changes in
 cover associated with logging and wildfire in the Mountain Ash (Eucalyptus
 regnans) forests of south-eastern Australia. Specifically, we examined how
 bird occurrence changed with shifts in the proportion of area burnt or
 logged in a 4.5km radius surrounding each of 87 field survey sites.
 Overall species richness was greatest in older forest patches. Bird
 species richness declined as the amount of fire around each site
 increased. At the individual species level, most species were more likely
 to be found in old growth than younger forest. Twenty-five of 36 bird
 species we modeled, exhibited a negative response to the amount of fire in
 the surrounding landscape (while two species responded positively to
 fire). Only nine species exhibited signs of post-fire recovery. Ten
 species were more likely to be recorded as the proportion of logged forest
 surrounding a site increased, suggesting a possible “concentration effect”
 with displaced birds moving into unlogged areas following harvesting of
 adjacent areas. In contrast to predictions from the disturbance-congruence
 hypothesis, no bird species exhibited similar responses to fire and
 logging in the landscape surrounding our sites. Similarly, no bird life
 history traits were associated with burned or logged forest, although
 insectivorous birds were more likely to be found in old growth forests and
 increased over time. Birds in Mountain Ash forests are strongly associated
 with old growth stands and exhibit complex, time-dependent and
 species-specific responses to landscape disturbance. Despite logging and
 fire both being high-severity perturbations, species responses to one kind
 of landscape-scale disturbance are not readily predictable based on an
 understanding of the responses to another kind of (albeit superficially
 similar) disturbance.
description: DryadMetaDataMetadataDryadDataLindenmayerEtal2019Number of detections (out of 6) of each bird species and covariatesDryadDataSpeciesTraitsLindenmayerEtal2019Bird species traits
DOI: 10.5061/dryad.3g5f4m0
title: Data from: Genetic drift during the spread phase of a biological invasion

description: Recent theoretical and experimental models have evidenced the role played
 by evolution during species spread, and particularly question the
 influence of genetic drift at range edges. By investigating the spread of
 an aquatic invader in patchy habitats, we quantified genetic drift and
 explored its consequences on genetic diversity and fitness. We examined
 the interplay of gene flow and genetic drift in 36 populations of the red
 swamp crayfish, Procambarus clarkii, in a relatively recently invaded
 wetland area (30 years, Brière, northwestern France). Despite the small
 spatial scale of our study (15 km²), populations were highly structured
 according to the strong barrier of land surfaces and revealed a clear
 pattern of colonisation through watercourses. Isolated populations
 exhibited small effective sizes and low dispersal rates that depended on
 water connectivity, suggesting that genetic drift dominated in the
 evolution of allele frequencies in these populations. We also observed a
 significant decrease in the genetic diversity of isolated populations over
 only a two-year period, but failed to demonstrate an associated fitness
 cost using fluctuating asymmetry. This study documents the possible strong
 influence of genetic drift during the spread of a species, and such
 findings provide critical insights in the current context of profound
 rearrangements in species distributions due to global change.
description: Crayfish genotypes
 2014This file contains the
 genotypes of crayfish sampled in 2014 in a Genepop
 format.Genotypes2014.datCoordinates crayfish populations 2014This file contains the names and geographic coordinates of crayfish populations sampled in 2014.CoordPop2014.coordCrayfish genotypes 2016This file contains the genotypes of crayfish sampled in 2016, in Genepop format.Genotypes2016.datCoordinates crayfish populations 2016This file contains the names, geographic coordinates and category of crayfish populations sampled in 2016.CoordPop2016.coordLandscape mapThis file is a map of the study area in raster format, with NA = terrestrial habitat; 1 = ponds; 2 = marsh; 3 = watercourse.landscape.tifFluctuating asymmetryThis file contains the morphological data used to detect fluctuating asymmetry in crayfish populations. Columns 1 to 3 describe the individual label, population and category. Columns 4 to 11 are morphological measurements of each segment (antennae, merus 1, merus 3, merus 4), for each side (L = left and R = right). Columns 12 to 15 are the difference between left and right measurements for each trait. Columns 16 to 19 are this difference corrected for size-dependence. Columns 20 to 37 are the genotypes of each individual. Column 38 is multilocus heterozygosity.MLH_final.txt
DOI: 10.5061/dryad.b74v55s
title: Data from: Rain downpours affect survival and development of insect herbivores: the specter of climate change?

description: Changes in the frequency, duration, and intensity of rainfall events are
 among the abiotic effects predicted under anthropogenic global warming.
 Heavy downpours may profoundly affect the development and survival of
 small organisms such as insects. Here, we examined direct (physically on
 the insects) and indirect (plant‐mediated) effects of simulated downpours
 on the performance of caterpillars of two lepidopteran herbivores
 (Plutella xylostella and Pieris brassicae) feeding on black mustard
 (Brassica nigra) plants. Host plants were exposed to different rainfall
 regimes both before and while caterpillars were feeding on the plants in
 an attempt to separate direct and indirect (plant‐mediated) effects of
 rainfall on insect survival and development. In two independent
 experiments, downpours were simulated as a single long (20 min) or as
 three short (5 min) daily events. Downpours had a strong negative direct
 effect on the survival of P. xylostella, but not on that of P. brassicae.
 Direct effects of downpours consistently increased development time of
 both herbivore species, whereas effects on body mass depended on herbivore
 species and downpour frequency. Caterpillar disturbance by rain and
 recorded microclimatic cooling by 5°C may explain extended immature
 development. Indirect, plant‐mediated effects of downpours on the
 herbivores were generally small, despite the fact that sugar
 concentrations were reduced and herbivore induction of secondary
 metabolites (glucosinolates) was enhanced in plants exposed to rain.
 Changes in the frequency of precipitation events due to climate change may
 impact the survival and development of insect herbivores differentially.
 Broader effects of downpours on insects and other arthropods up the food
 chain could seriously impair and disrupt trophic interactions, ultimately
 destabilizing communities.
description: chemistry &
 microclimatethis excel file contain
 data related to the analysis of chemistry and
 microclimatePieristhis excel file contain
 data related to the developmental analysis of Pieris
 brassicaePlutellathis excel file contain data related to the developmental analysis of Plutella xylostella