cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.r2250
title: Data from: Exploring the universal ecological responses to climate change in a univoltine butterfly

description: 1. Animals with distinct life stages are often exposed to different
 temperatures during each stage. Thus, how temperature affects these life
 stages should be considered for broadly understanding the ecological
 consequences of climate warming on such species. For example, temperature
 variation during particular life stages may affect respective change in
 body size, phenology and geographic range, which have been identified as
 the “universal” ecological responses to climate change. While each of
 these responses has been separately documented across a number of species,
 it is not known whether each response occurs together within a species.
 The influence of temperature during particular life stages may help
 explain each of these ecological responses to climate change. 2. Our goal
 was to determine if monthly temperature variation during particular life
 stages of a butterfly species can predict respective changes in body size
 and phenology. We also refer to the literature to assess if temperature
 variability during the adult stage influences range change over time. 3.
 Using historical museum collections paired with monthly temperature
 records, we show that changes in body size and phenology of the univoltine
 butterfly, Hesperia comma, are partly dependent upon temporal variation in
 summer temperatures during key stages of their life cycle. June
 temperatures, which are likely to affect growth rate of the final larval
 instar, are important for predicting adult body size (for males only;
 showing a positive relationship with temperature). July temperatures,
 which are likely to influence the pupal stage, are important for
 predicting the timing of adult emergence (showing a negative relationship
 with temperature). Previous studies show that August temperatures, which
 act on the adult stage, are linked to range change. 4. Our study
 highlights the importance of considering temperature variation during each
 life stage over historic time-scales for understanding intraspecific
 response to climate change. Range edge studies of ectothermic species that
 have annual life cycles, long time-series occurrence data, and associated
 temperature records (ideally at monthly resolutions) could be useful model
 systems for intraspecific tests of the universal ecological responses to
 climate change and for exploring interactive effects.
description: Fenberg_et_al.Sheet1: Male and Female wing length measurements and physical variables: mean, minimum, maximum temperature data and rainfall for March-September for the years of collection. Sheet2: 10th percentile and median collection dates and physical variables: mean, minimum, maximum temperature data and rainfall for March-September for the years of collection.
DOI: 10.5061/dryad.1vm8k
title: Data from: Effects of inbreeding on a gregarious parasitoid wasp with complementary sex determination

description: Inbreeding and inbreeding depression are processes in small populations of
 particular interest for a range of human activities such as animal
 breeding, species conservation or pest management. In particular,
 biological control programs should benefit from a thorough understanding
 of the causes and consequences of inbreeding because natural enemies
 experience repetitive bottlenecks during importation, laboratory rearing,
 and introduction. Predicting the effect of inbreeding in Hymenopteran
 parasitoid wasps, frequently used in biological control programs, is
 nonetheless a difficult endeavor. In haplodiploid parasitoids, the purge
 of deleterious alleles via haploid males should reduce genetic load, but
 if these species also have complementary sex determination (CSD) abnormal
 diploid males will be produced, which may jeopardize the success of
 biological control introductions. Mastrus ridens is such a parasitoid wasp
 with CSD, introduced to control the codling moth, Cydia pomonella (L.). We
 studied its life history traits in the laboratory under two conditions:
 inbred (full sib) and outbred (non-sib) crosses, across five generations,
 in order to examine the consequences of inbreeding in this species. We
 found that in inbred lines non reproducing females live less, the number
 of daughters produced was lower, and that sex ratio (proportion of males)
 and proportion of diploid males were higher. Diploid males were able to
 produce fertile daughters, but fewer than haploid males. Lineage survival
 was similar for inbred and outbred lines across the five generations. The
 most significant decrease in fitness was thus a consequence of the
 production of diploid males, but this effect was not as extreme as in most
 other species with CSD, due to the fertility of diploid males. This study
 highlights the importance of determining the type of sex determination in
 parasitoid wasps used for biological control, and the importance of
 maintaining genetic diversity in species with CSD when importation or
 augmentation is the goal.
description: Data paper mastrus
 inbreeding compiled v2File contains 5 sheets.
 Sheet 1 has data of offspring according to male crossing treatment, ploidy
 and generation. Sheet 2 is the data of ploidy of males, according to
 treatment and generation where the male originated (0 haploid; 1 diploid).
 Sheet 3 is the longevity of reproducing females according to crossing
 treatment, line and generation. Sheet 4 is the longevity of
 non-reproducing females according to crossing treatment, line and
 generation. Sheet 5 is data of offspring of selected females according to
 crossing treatment, line and generation.
DOI: 10.5061/dryad.tv492
title: Data from: Demographic history of a recent invasion of house mice on the isolated Island of Gough

description: Island populations provide natural laboratories for studying key
 contributors to evolutionary change, including natural selection,
 population size, and the colonization of new environments. The demographic
 histories of island populations can be reconstructed from patterns of
 genetic diversity. House mice (Mus musculus) inhabit islands throughout
 the globe, making them an attractive system for studying island
 colonization from a genetic perspective. Gough Island, in the central
 South Atlantic Ocean, is one of the remotest islands in the world. House
 mice were introduced to Gough Island by sealers during the 19th century,
 and display unusual phenotypes, including exceptionally large body size
 and carnivorous feeding behavior. We describe genetic variation in Gough
 Island mice using mitochondrial sequences, nuclear sequences, and
 microsatellites. Phylogenetic analysis of mitochondrial sequences
 suggested that Gough Island mice belong to Mus musculus domesticus, with
 the maternal lineage possibly originating in England or France. Cluster
 analyses of microsatellites revealed genetic membership for Gough Island
 mice in multiple coastal populations in Western Europe, suggesting admixed
 ancestry. Gough Island mice showed substantial reductions in mitochondrial
 and nuclear sequence variation and weak reductions in microsatellite
 diversity compared with Western European populations, consistent with a
 population bottleneck. Approximate Bayesian Computation (ABC) estimated
 that mice recently colonized Gough Island (~100 years ago) and experienced
 a 98% reduction in population size followed by a rapid expansion. Our
 results indicate that the unusual phenotypes of Gough Island mice evolved
 rapidly, positioning these mice as useful models for understanding rapid
 phenotypic evolution.
description: MMGray_GoughIslandMouseDemographicHistory_Microsatellite_GenAlEx_FormatRaw microsatellite genotypes in GenAlEx format.MainModelABC toolbox model files (ms was the coalescent simulatior, MarkSim was used to generate mutations, arlsumstat was the summary statistic calculator) See ABC toolbox manual for more details.ModelVariation1ABC toolbox model files (ms was the coalescent simulatior, MarkSim was used to generate mutations, arlsumstat was the summary statistic calculator) See ABC toolbox manual for more details.ModelVariation2ABC toolbox model files (ms was the coalescent simulatior, MarkSim was used to generate mutations, arlsumstat was the summary statistic calculator) See ABC toolbox manual for more details.SeqSampleInformationSample information, accessions, and raw sequences
DOI: 10.5061/dryad.8nk86
title: Data from: Dynamic changes in display architecture and function across environments revealed by a systems approach to animal communication

description: Animal communication is often structurally complex and dynamic, with
 signaler and receiver behavior varying in response to multiple
 environmental factors. To date, studies assessing signal dynamics have
 mostly focused on the relationships between select signaling traits and
 receiver responses in a single environment. We use the wolf spider
 Schizocosa floridana to explore the relationships between courtship
 display form and function across two social contexts (female presence vs.
 absence) and two light environments (light vs. dark). We use traditional
 analytical methods to determine predictors of copulation success (i.e.,
 signal function) and examine these predictors in a structural context by
 overlaying them on signal phenotype networks (Wilkins et al., 2015). This
 allows us to explore system design principles (degeneracy, redundancy,
 pluripotentiality), providing insight into hypotheses regarding complex
 signal evolution. We found that both social context and light environment
 affect courtship structure, although the predictors of mating success
 remain similar across light environments, suggesting system degeneracy.
 Contrastingly, the same display traits may serve different functions
 across social environments, suggesting pluripotentiality. Ultimately, our
 network approach uncovers a complexity in display structure and function
 that is missed by functional analyses alone, highlighting the importance
 of systems-based methodologies for understanding the dynamic nature of
 complex signals.
description: Floridana_2018_datasetMale S. floridana courtship data, collected from mating trials run in the lab. Data created in Microsoft Excel
DOI: 10.5061/dryad.dk6v5
title: Data from: The changing contribution of top-down and bottom-up limitation of mesopredators during 220 years of land use and climate change

description: Apex predators may buffer bottom-up driven ecosystem change, as top-down
 suppression may dampen herbivore and mesopredator responses to increased
 resource availability. However, theory suggests that for this buffering
 capacity to be realized, the equilibrium abundance of apex predators must
 increase. This raises the question: will apex predators maintain
 herbivore/mesopredator limitation, if bottom-up change relaxes resource
 constraints? Here, we explore changes in mesopredator (red fox Vulpes
 vulpes) abundance over 220 years in response to eradication and recovery
 of an apex predator (Eurasian lynx Lynx lynx), and changes in land use and
 climate which are linked to resource availability. A three-step approach
 was used. First, recent data from Finland and Sweden were modelled to
 estimate linear effects of lynx density, land use and winter temperature
 on fox density. Second, lynx density, land use and winter temperature was
 estimated in a 22 650 km2 focal area in boreal and boreo-nemoral Sweden in
 the years 1830, 1920, 2010 and 2050. Third, the models and estimates were
 used to project historic and future fox densities in the focal area.
 Projected fox density was lowest in 1830 when lynx density was high,
 winters cold and the proportion of cropland low. Fox density peaked in
 1920 due to lynx eradication, a mesopredator release boosted by favourable
 bottom-up changes - milder winters and cropland expansion. By 2010, lynx
 recolonization had reduced fox density, but it remained higher than in
 1830, partly due to the bottom-up changes. Comparing 1830 to 2010, the
 contribution of top-down limitation decreased, while environment
 enrichment relaxed bottom-up limitation. Future scenarios indicated that
 by 2050, lynx density would have to increase by 79% to compensate for a
 projected climate driven increase in fox density. We highlight that
 although top-down limitation in theory can buffer bottom-up change, this
 requires compensatory changes in apex predator abundance. Hence apex
 predator recolonization/recovery to historical levels would not be
 sufficient to compensate for widespread changes in climate and land use,
 which have relaxed the resource constraints for many herbivores and
 mesopredators. Variation in bottom-up conditions may also contribute to
 context dependence in apex predator effects.
description: Species, land use and
 temperature dataThe file includes data
 from different sources including reports (see file for detailed
 references) and estimations based on these sources.Pasanen_Mortensen_etal.xlsx
DOI: 10.5061/dryad.jk82v
title: Data from: No evidence for behavioural adaptations to nematode parasitism by the fly Drosophila putrida

description: Behavioural adaptations of hosts to their parasites form an important
 component of the evolutionary dynamics of host–parasite interactions. As
 mushroom-feeding Drosophila can tolerate deadly mycotoxins, but their
 Howardula nematode parasites cannot, we asked how consuming the potent
 mycotoxin α-amanitin has affected this host–parasite interaction. We used
 the fly D. putrida and its parasite H. aoronymphium, which is both highly
 virulent and at high prevalence in some populations, and investigated
 whether adult flies utilize food with toxin to prevent infection in the
 next generation or consume the toxin to reduce the virulence of an already
 established infection. First, we found that uninfected females did not
 prefer to eat or lay their eggs on toxic food, indicating that selection
 has not acted on the flies to alter their behaviour towards α-amanitin to
 prevent their offspring from becoming infected by Howardula. However, we
 cannot rule out that flies use an alternate cue that is associated with
 toxin presence in the wild. Second, we found that infected females did not
 prefer to eat food with α-amanitin and that consuming α-amanitin did not
 cure or reduce the virulence of the parasite in adults that were already
 infected. In sum, our results indicate there are no direct effects of
 eating α-amanitin on this host–parasite interaction, and we suggest that
 toxin tolerance is more likely maintained by selection due to competition
 for resources than as a mechanism to avoid parasite infection or to reduce
 the virulence of infection.
description: Curing effect of toxin
 on infection by nematodesEffect of toxin on
 infection status of flies. File is text format. Each row is a
 fly.curing.txtSurvival of adult fliesSurvival of adult flies from two different populations, exposed or not to toxin. Each line is an individual fly.survival.txtTest for toxin consumption by uninfected fliesCompare flies from Athens GA and Rochester NY. For preference column, 1=ate only toxin, 0.5 = ate both toxin and non-toxin, 0=did not eat toxin.toxin_avoidance.txtTest for toxin consumption by infected fliesTest whether infection by nematodes alters preference for toxin in D. putrida. For color column, TR= toxin in red food, TB= toxin in blue food. for preference, 1=ate only toxic food, 0.5=ate both toxic and nontoxic food, and 0= ate only nontoxic food.infection_pref.txt
DOI: 10.5061/dryad.n5095
title: Data from: Deep phylogenomics of a tandem-repeat galectin regulating appendicular skeletal pattern formation

description: Background: A multiscale network of two galectins Galectin-1 (Gal-1) and
 Galectin-8 (Gal-8) patterns the avian limb skeleton. Among vertebrates
 with paired appendages, chondrichthyan fins typically have one or more
 cartilage plates and many repeating parallel endoskeletal elements,
 actinopterygian fins have more varied patterns of nodules, bars and
 plates, while tetrapod limbs exhibit tandem arrays of few, proximodistally
 increasing numbers of elements. We applied a comparative genomic and
 protein evolution approach to understand the origin of the galectin
 patterning network. Having previously observed a phylogenetic constraint
 on Gal-1 structure across vertebrates, we asked whether evolutionary
 changes of Gal-8 could have critically contributed to the origin of the
 tetrapod pattern. Results: Translocations, duplications, and losses of
 Gal-8 genes in Actinopterygii established them in different genomic
 locations from those that the Sarcopterygii (including the tetrapods)
 share with chondrichthyans. The sarcopterygian Gal-8 genes acquired a
 potentially regulatory non-coding motif and underwent purifying selection.
 The actinopterygian Gal-8 genes, in contrast, did not acquire the
 non-coding motif and underwent positive selection. Conclusion: These
 observations interpreted through the lens of a reaction-diffusion-adhesion
 model based on avian experimental findings can account for the distinct
 endoskeletal patterns of cartilaginous, ray-finned, and lobe-finned
 fishes, and the stereotypical limb skeletons of tetrapods.
description: BMC Evolutionary Biology
 EVOB-D-16-00044R3Protein sequences, CDS
 nucleotide sequences and promoter sequences used in the analyses of the
 paper
DOI: 10.5061/dryad.3r37c
title: Data from: Environmental variation causes different (co) evolutionary routes to the same adaptive destination across parasite populations

description: Epidemics are engines for host-parasite coevolution, where parasite
 adaptation to hosts drives reciprocal adaptation in host populations. A
 key challenge is to understand whether parasite adaptation and any
 underlying evolution and coevolution is repeatable across ecologically
 realistic populations that experience different environmental conditions,
 or if each population follows a completely unique evolutionary path. We
 established twenty replicate pond populations comprising an identical
 suite of genotypes of crustacean host, Daphnia magna, and inoculum of
 their parasite, Pasteuria ramosa. Using a time-shift experiment, we
 compared parasite infection traits before and after epidemics and linked
 patterns of parasite evolution with shifts in host genotype frequencies.
 Parasite adaptation to the sympatric suite of host genotypes came at a
 cost of poorer performance on foreign genotypes across populations and
 environments. However, this consistent pattern of parasite adaptation was
 driven by different types of frequency-dependent selection that was
 contingent on an ecologically relevant environmental treatment (whether or
 not there was physical mixing of water within ponds). In unmixed ponds,
 large epidemics drove rapid and strong host-parasite coevolution. In mixed
 ponds, epidemics were smaller and host evolution was driven mainly by the
 mixing treatment itself; here, host evolution and parasite evolution were
 clear, but coevolution was absent. Population mixing breaks an otherwise
 robust coevolutionary cycle. These findings advance our understanding of
 the repeatability of (co)evolution across noisy, ecologically realistic
 populations.
description: Auld&BrandDataEvolLettsThis data file includes the infection data for experiments conducted in Auld & Brand 2017 Evolution Letters. ID denotes the individual jar ID, genotype denotes the name of each host genotype, host type denotes whether the host genotype is sympatric or allopatric to the parasite populations, rep denotes the replicate number, pop.epi.size denotes the integrated prevalence of the epidemic from where the parasite isolate was sampled, prop. infected denotes the proportion of parasite hosts that became infected, control.prop.infected denotes the proportion of hosts exposed to the ancestral parasite isolate that became infected, control.spore.burden denotes the density of spores in hosts infected with the ancestral parasite isolate, spore.burden denotes the density of spores in hosts infected with evolved parasite isolates, change.prop.inf denotes the change in infectivity between evolved parasite isolates and controls and change.spore.burden denotes the change in parasite spore burden between hosts infected with the ancestral and evolved parasite isolates.
DOI: 10.5061/dryad.s4bt7
title: Data from: Adaptation to elevated CO2 in different biodiversity contexts

description: In the absence of migration, species persistence depends on adaption to a
 changing environment, but whether and how adaptation to global change is
 altered by community diversity is not understood. Community diversity may
 prevent, enhance or alter how species adapt to changing conditions by
 influencing population sizes, genetic diversity and/or the fitness
 landscape experienced by focal species. We tested the impact of community
 diversity on adaptation by performing a reciprocal transplant experiment
 on grasses that evolved for 14 years under ambient and elevated CO2, in
 communities of low or high species-richness. Using biomass as a fitness
 proxy, we find evidence for local adaptation to elevated CO2, but only for
 plants assayed in a community of similar diversity to the one experienced
 during the period of selection. Our results indicate that the biological
 community shapes the very nature of the fitness landscape within which
 species evolve in response to elevated CO2.
description: Survival, Inflorescence
 production and Biomass Data for Kleynhans et. al.This data was collected
 through a reciprocal transplant experiment conducted on Poa pratensis
 (Kentucky bluegrass) plants that were selected in communities of low and
 high species richness in ambient and elevated CO2 concentrations for 14
 years. Following selection, seeds were collected from each of these
 treatments propagated in common garden conditions and then transplanted
 back into each of these treatments The experiment was conducted in BioCON
 at the Cedar Creek Ecosystem Science Reserve in Minnesota in 2012 and
 2013. This data file contains survival, inflorescence production,
 aboveground, belowground and total biomass data for the transplanted Poa
 pratensis plants that survived for longer than the first month of the
 experiment and were not burned in a run away fire.Kleynhans.et.al_data.csvKleynhans et al_README.txt