cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.b20r7
title: Data from: Life history trait divergence among populations of a non-palatable species reveals strong non-trophic indirect effects of an abundant herbivore

description: When large herbivores exert selection on their prey plant species,
 co-occurring, non-prey species may experience selection through
 non-trophic indirect effects. Such selection is likely common where
 herbivores are overabundant. Yet, empirical studies of non-trophic
 indirect effects as drivers of non-prey trait evolution are lacking. Here
 we test for adaptive shifts in life history traits in an unpalatable
 species, Arisaema triphyllum, a common forest perennial that is unique
 because it exhibits size-dependent sex switching. We collected A.
 triphyllum from six sites that experience a gradient in abiotic stress
 caused by deer browse pressure on prey plant species that generate
 indirect effects. We grew A. triphyllum from these sites in a common
 garden for five years to evaluate life history predictions linking strong
 indirect effects and abiotic stress to changes in life history traits:
 flowering onset size threshold, female flowering size threshold, relative
 growth rate (RGR), biomass allocation, and asexual reproduction. Despite
 observed differences among phenotypes in the field, expression of
 flowering onset size threshold, biomass allocation, and asexual
 reproduction did not differ among the six populations in the garden,
 indicating common plastic responses. In contrast, A. triphyllum collected
 from sites experiencing the two highest deer impacts exhibited smaller
 female flowering size thresholds and the highest RGR. Responses in these
 traits support the predictions of adaptive divergence in response to
 indirect effects. Our results reinforce the idea that non-trophic indirect
 effects of large herbivores can elicit evolutionary responses in some
 traits of non-prey species. In general, life history traits of unpalatable
 species may be cryptically adapting to stressful indirect effects where
 large herbivores are overabundant.
description: garden_long2This file contains size and flowering status data for all common garden plants, collected between 2006 and 2011. Cmass is the wet biomass measure generated using regression described in the methods of Heckel and Kalisz 2016.
DOI: 10.5061/dryad.h67t6
title: Data from: Reconstruction of genetically identified neurons imaged by serial-section electron microscopy

description: Resolving patterns of synaptic connectivity in neural circuits currently
 requires serial section electron microscopy. However, complete circuit
 reconstruction is prohibitively slow and may not be necessary for many
 purposes such as comparing neuronal structure and connectivity among
 multiple animals. Here, we present an alternative strategy, targeted
 reconstruction of specific neuronal types. We used viral vectors to
 deliver peroxidase derivatives, which catalyze production of an
 electron-dense tracer, to genetically identified neurons, and developed a
 protocol that enhances the electron-density of the labeled cells and while
 retaining quality of the ultrastructure. The high contrast of the marked
 neurons enabled two innovations that dramatically speed data acquisition:
 targeted high-resolution reimaging of regions selected from
 rapidly-acquired lower resolution reconstruction, and an unsupervised
 segmentation algorithm. This pipeline reduces imaging and reconstruction
 times by at least two orders of magnitude, facilitating directed inquiry
 of circuit motifs.
description: Joesch et al. 2016 -
 Data Fig. 3k - sections 205-231Joesch et al. 2006 - Fig 3k -
 sections 205-231.zipJoesch et al. 2016 - Fig
 3k - sections 232-260Joesch et al. 2006 - Fig 3k -
 sections 232-260.zipJoesch et al. 2016 - Fig
 3k - sections 261-280Joesch et al. 2006 - Fig 3k -
 sections 261-280.zipJoesch et al. 2016 - Fig
 3k - sections 281-300Joesch et al. 2006 - Fig 3k -
 sections 281-300.zipJoesch et al. 2016 - Fig
 3k - sections 301-320Joesch et al. 2006 - Fig 3k -
 sections 301-320.zipJoesch et al. 2016 - Fig
 3k - sections 346-370Joesch et al. 2006 - Fig 3k -
 sections 346-370.zipJoesch et al. 2016 - Fig
 3k - sections 321-345Joesch et al. 2006 - Fig 3k -
 sections 321-345.zipJoesch et al. 2016 - Fig
 3k - sections 371-400Joesch et al. 2006 - Fig 3k -
 sections 371-400.zipJoesch et al. 2016 - Fig
 3k - sections 426-450Joesch et al. 2006 - Fig 3k -
 sections 426-450.zipJoesch et al. 2016 - Fig
 3k - sections 401-425Joesch et al. 2006 - Fig 3k -
 sections 401-425.zipJoesch et al. 2016 - Fig
 3k - sections 451-475Joesch et al. 2006 - Fig 3k -
 sections 451-475.zipJoesch et al. 2016 - Fig
 3k - sections 576-504Joesch et al. 2006 - Fig 3k -
 sections 576-504.zipOverview_Volume_Sections_205-504File InformationReadme file.Zip File Informationread me
DOI: 10.5061/dryad.c7k5d
title: Data from: Land abandonment and intensification diminish spatial and temporal β-diversity of grassland plants and herbivorous insects within paddy terraces

description: 1. Although traditional land-use and management practices are known to
 enhance environmental heterogeneity in agricultural lands, loss of
 heterogeneity resulting from recent land-use changes can lead to
 spatiotemporal β-diversity losses (biotic homogenization). However,
 patterns and causes of β-diversity loss, especially at a within-field
 scale, have remained unexplored. 2. We examined β-diversity declines in
 plants, butterflies and orthopterans resulting from land abandonment and
 intensification in semi-natural grasslands on paddy margins at a
 within-field scale in relation to changes in disturbance frequency and
 surrounding landscapes by surveying eight abandoned, thirteen traditional
 and ten intensive paddy terraces. Three indices, the additive partitioning
 of species richness (βadd) and the turnover (βtu) and nestedness (βne)
 components of Jaccard dissimilarity of plants and herbivores, were used to
 evaluate different aspects of β-diversity. We hypothesized that biotic
 homogenization due to abandonment and intensification would be expressed
 as low spatiotemporal βadd and βtu, low spatial βne and high temporal βne.
 3. The spatial and temporal βadd of plants and herbivores were higher in
 traditional terraces than in others. Changes in mowing frequency caused
 direct declines in butterfly βadd and indirectly decreased herbivore βadd
 through diminished plant βadd in abandoned and intensified terraces. 4.
 Neighbouring forests increased plant spatial and butterfly temporal βadd
 and βtu. Abandoned terraces had higher orthopteran spatial and plant
 temporal βtu than traditional terraces. Mowing frequency generally did not
 influence spatial and temporal βtu of plants and herbivores. In intensive
 terraces, temporal βne of plants were higher than in traditional terraces,
 suggesting dominance by plant species sharing similar phenologies. 4.
 Synthesis and applications. These results suggest that traditional mowing
 practices are essential for maintaining plant and herbivore βadd, and
 consequently, species pools within terraces. The higher spatial or
 temporal species turnover of plants and orthopterans in abandoned terraces
 and higher temporal plant nestedness in intensive than in traditional
 terraces were not due to increases in species pools within terraces.
 Because within-terrace environmental heterogeneity is thought to remain in
 abandoned and intensive terraces, we recommend reduction in mowing
 frequency in intensive terraces and reintroduction of mowing in abandoned
 terraces for biodiversity restoration.
description: plant_dataRaw data files used for statistical analyses in this study.butterfly_dataRaw data files used for statistical analyses in this study.orthoptera_dataRaw data files used for statistical analyses in this study.
DOI: 10.5281/zenodo.18384962
title: historical flowout 1992-2013

description: This data shows the annual and monthly flow output of the SWAT model for the calibration and validation period from 1992 to 2013.
DOI: 10.5281/zenodo.18384963
title: historical flowout 1992-2013

description: This data shows the annual and monthly flow output of the SWAT model for the calibration and validation period from 1992 to 2013.
DOI: 10.5061/dryad.v244v
title: Data from: Understanding genetic variation in in vivo tolerance to artesunate: implications for treatment efficacy and resistance monitoring

description: Artemisinin-based drugs are the front-line weapon in the treatment of
 human malaria cases, but there is concern that recent reports of slow
 clearing infections may signal developing resistance to treatment. In the
 absence of molecular markers for resistance, current efforts to monitor
 drug efficacy are based on the rate at which parasites are cleared from
 infections. However, some knowledge of the standing variation in parasite
 susceptibility is needed to identify a meaningful increase in infection
 half-life. Here, we show that five previously unexposed genotypes of the
 rodent malaria parasite Plasmodium chabaudi differ substantially in their
 in vivo response to treatment. Slower clearance rates were not linked to
 parasite virulence or growth rate, going against the suggestion that drug
 treatment will drive the evolution of virulence in this system. The level
 of variation observed here in a relatively small number of genotypes
 suggests existing ‘resistant’ parasites could be present in the population
 and therefore, increased parasite clearance rates could represent
 selection on pre-existing variation rather than de novo resistance events.
 This has implications for resistance monitoring as susceptibility may
 depend on evolved traits unrelated to drug exposure.
description: Parasite and red blood
 countsFile contains daily
 parasite counts and red blood cell densities for infections with 5
 genotypes of P. chabaudi which were either treated with artesunate or
 untreated (control). All methods as described in the paper. Please contact
 Laura Pollitt if any additional details are needed.data.for.dryad.csv
DOI: 10.5061/dryad.26v53
title: Data from: Decision-level adaptation in motion perception

description: Prolonged exposure to visual stimuli causes a bias in observers'
 responses to subsequent stimuli. Such adaptation-induced biases are
 usually explained in terms of changes in the relative activity of sensory
 neurons in the visual system which respond selectively to the properties
 of visual stimuli. However, the bias could also be due to a shift in the
 observer's criterion for selecting one response rather than the
 alternative; adaptation at the decision level of processing rather than
 the sensory level. We investigated whether adaptation to implied motion is
 best attributed to sensory-level or decision-level bias. Three experiments
 sought to isolate decision factors by changing the nature of the
 participants' task while keeping the sensory stimulus unchanged.
 Results showed that adaptation-induced bias in reported stimulus direction
 only occurred when the participants' task involved a directional
 judgement, and disappeared when adaptation was measured using a
 non-directional task (reporting where motion was present in the display,
 regardless of its direction). We conclude that adaptation to implied
 motion is due to decision-level bias, and that a propensity towards such
 biases may be widespread in sensory decision-making.
description: Mather Sharman
 Participant DataThis file contains the
 data values for individual participants which were analysed in the
 reported ANOVA tests. It also contains additional data relating to a
 control condition without adaptation.MatherSharmanParticipantData.xlsxMather Sharman Summary DataThis file contains derived data used for plotting graphs, and the actual graphs used in the paper. Raw data values in the accompanying file are converted in units suitable for the graphs.MatherSharmanSummaryData.xlsx
DOI: 10.5061/dryad.c317v31
title: Data from: Integrative taxonomy refutes a species hypothesis: the asymmetric hybrid origin of Arsapnia arapahoe (Plecoptera, Capniidae)

description: Molecular tools are commonly directed at refining taxonomies and the
 species that constitute their fundamental units. This has been especially
 insightful for groups for which species hypotheses are ambiguous and have
 largely been based on morphological differences between certain life
 stages or sexes, and has added importance when taxa are a focus of
 conservation efforts. Here we examine the taxonomic status of Arsapnia
 arapahoe, a winter stonefly in the family Capniidae that is a species of
 conservation concern because of its limited abundance and restricted range
 in northern Colorado, USA. Phylogenetic analyses of sequences of
 mitochondrial and nuclear genes of this and other capniid stoneflies from
 this region and elsewhere in western North America indicated extensive
 haplotype sharing, limited genetic differences, and a lack of reciprocal
 monophyly between A. arapahoe and the sympatric A. decepta, despite
 distinctive and consistent morphological differences in the sexual
 apparatus of males of both species. Analyses of autosomal and sex-linked
 single nucleotide polymorphisms detected using genotyping by sequencing,
 however, indicated that all individuals of A. arapahoe consisted of F1
 hybrids between female A. decepta and males of another sympatric stonefly,
 Capnia gracilaria. Rather than constitute a self-sustaining evolutionary
 lineage, A. arapahoe appears to represent the product of nonintrogressive
 hybridization in the limited area of syntopy between two widely
 distributed taxa. This offers a cautionary tale for taxonomists and
 conservation biologists working on the less-studied components of the
 global fauna.
description: ITS1
 alignmentThe ITS1 sequences were
 aligned in the online version of MAFFT 7 (Katoh, Rozewicki, & Yamada,
 2017) under the Q-INS-i algorithm with the default settings. Gaps were
 coded as characters following the simple method of Simmons and Ochoterena
 (2000) and appended to the nucleotide sequences using FastGap 1.2
 (Borchsenius, 2009).gapscoded.fas
DOI: 10.5061/dryad.q44p3
title: Data from: Combined use of molecular markers and high resolution melting (HRM) to assess chromosome dosage in potato hybrids

description: In plants, the most widely used cytological techniques to assess parental
 genome contributions are based on in situ hybridization (FISH and GISH),
 but they are time-consuming and need specific expertise and equipment.
 Recent advances in genomics and molecular biology have made PCR-based
 markers a straightforward, affordable technique for chromosome typing.
 Here, we describe the development of a molecular assay that uses
 single-copy conserved ortholog set II (COSII)-based single nucleotide
 polymorphisms (SNPs) and the high-resolution melting (HRM) technique to
 assess the chromosome dosage of interspecific hybrids between a Solanum
 phureja–S. tuberosum diploid (2n = 2x = 24) hybrid and its wild relative
 S. commersonii. Screening and analysis of 45 COSII marker sequences
 allowed S. commersonii-specific SNPs to be identified for all 12
 chromosomes. Combining the HRM technique with the establishment of
 synthetic DNA hybrids, SNP markers were successfully used to predict the
 expected parental chromosome ratio of 5 interspecific triploid hybrids.
 These results demonstrate the ability of this strategy to distinguish
 diverged genomes from each other, and to estimate chromosome dosage. The
 method could potentially be applied to any species as a tool to assess
 paternal to maternal ratios in the framework of a breeding program or
 following transformation techniques.
description: COSII makers
 allignmentsAlignment of COSII
 markers on S. commersonii, S. tuberosum cv. Blondy, a S. phureja-S.
 tuberosum hybrid (clone UP88P5), S. phureja (clone
 IVP35).
DOI: 10.5061/dryad.3h41m6v
title: Data from: Fine root morphology and growth in response to nitrogen addition through drip fertigation in a Populus × euramericana “Guariento” plantation over multiple years

description: Context: Nitrogen (N) deficiency is common in forest soils, and N addition
 is increasingly applied to the cultivation of plantations. Knowledge of
 the potential effect of high-efficiency fertilization techniques based on
 successive field experiments on fine root morphology and growth in trees
 with respect to nutrient acquisition strategy is insufficient. Aim: We
 aimed to quantitatively investigate the responses of fine roots in
 morphology and growth to N addition through surface drip fertigation (DF)
 over multiple years in a Populus × euramericana “Guariento” plantation.
 Methods: A field experiment that included four DF treatments with N
 addition levels (0, 60, 120, and 180 kg N ha-1 yr-1) was conducted for
 three successive years. A coring method was used to sample soils and
 quantify root morphological traits, foraging precision, and soil N content
 along 0-60 cm profiles. Results: The distribution pattern of fine roots
 along a vertical profile was not affected by the DF treatment. Root
 biomass, length, surface area, and specific length were significantly
 higher in N addition treatments than that in the control after the first
 year, but the positive effect decreased in the second year. Root biomass
 even showed a 11-39% reduction in the N addition treatments compared with
 that in the control in the third year. N addition affected fine root
 growth positively in the early period and negatively in later years. There
 was a positive correlation between root growth and soil N content in the
 first two years during which the soil N availability was low, whereas the
 relationship became negative in the third year when the soil N
 availability increased greatly. Conclusion: The responses of fine roots in
 the poplar clone to N addition include a comprehensive adjustment in
 morphology and growth. The species has a high degree of plasticity of root
 adaptation to soil N conditions and a tradeoff between energy cost and
 root production.
description: Primary
 data-AFSC-D-18-00156Datas-YXL.xlsx
DOI: 10.5061/dryad.q88sm
title: Data from: Why hate the good guy? Antisocial punishment of high cooperators is greater when people compete to be chosen

description: When choosing social partners, people prefer good cooperators (all else
 equal). Given this preference, anyone wishing to be chosen can either
 increase their own cooperation to become more desirable, or suppress
 others’ cooperation to make them less desirable. Previous research shows
 that very cooperative people sometimes get punished (“antisocial
 punishment”) or criticized (“do-gooder derogation”) in many cultures. Here
 we use a public goods game with punishment to test whether antisocial
 punishment is used as a means of competing to be chosen by suppressing
 others’ cooperation. As predicted, there was more antisocial punishment
 when participants were competing to be chosen for a subsequent cooperative
 task (a Trust Game) than without a subsequent task. This difference in
 antisocial punishment cannot be explained by differences in contributions,
 moralistic punishment, or confusion. This suggests that antisocial
 punishment is a social strategy that low cooperators use to avoid looking
 bad when high cooperators escalate cooperation.
description: data_for_Supplementary_Material_antisocialpunishmentThis file includes the data for Aleta Pleasant & Pat Barclay's "Why hate the good guy? Antisocial punishment of high cooperators is higher when people compete to be chosen". The Excel file includes one worksheet describing the variables, and another worksheet with the actual data. Please note that the data include both individual data and averages for each group of 4. In other words, every fifth row or sixth row is not an individual, but a group total. This is clearly labeled in column B ("group") as either a 0 (individual data) or a 1 (group average). When analyzing the data, you must either exclude the rows for individual data (to analyze group averages) or exclude the rows for group data (to analyze individual data); otherwise you will double count. The data also include participants in the Markets Condition who did not play a public goods game but were "Observers" (i.e., Trustors in a Trust Game)... these are identified as 1's in column G (Observer), and they provided no data on contributions or punishment because they did not play the public goods game.data_PleasantBarclay_antisocialpunishment_PsychologicalScience.xlsxSupplementary Material for Pleasant & Barclay antisocial punishment: instructions, questionnaires, supplementary analysisThis Supplementary Online Material for Aleta Pleasant and Pat Barclay's article in Psychological Science "Why hate the good guy? Antisocial punishment of high cooperators is higher when people compete to be chosen". This file includes instructions to participants, comprehension questions, post-experimental questionnaires, and a supplementary analysis that categorizes punishers into people who did not punish, did moralistic punishment only, did antisocial punishment only, or did both moralistic and antisocial punishment.SupplementaryMaterial_PleasantBarclay_antisocialpunishment_PsychologicalScience.docx
DOI: 10.5061/dryad.pm37b
title: Data from: Modality interactions alter the shape of acoustic mate preference functions in gray treefrogs

description: Sexual selection takes place in complex environments where females
 evaluating male mating signals are confronted with stimuli from multiple
 sources and modalities. The pattern of expression of female preferences
 may be influenced by interactions between modalities, changing the shape
 of female preference functions, and thus ultimately altering the selective
 landscape acting on male signal evolution. We tested the hypothesis that
 the responses of female gray treefrogs, Hyla versicolor, to acoustic male
 advertisement calls are affected by interactions with visual stimuli. We
 measured preference functions for several call traits under two
 experimental conditions: unimodal (only acoustic signals presented), and
 multimodal (acoustic signals presented along with a video-animated calling
 male). We found that females were more responsive to multimodal stimulus
 presentations and, compared to unimodal playbacks, had weaker preferences
 for temporal call characteristics. We compared the preference functions
 obtained in these two treatments to the distribution of male call
 characteristics to make inferences on the strength and direction of
 selection expected to act on male calls. Modality interactions have the
 potential to influence the course of signal evolution and thus are an
 important consideration in sexual selection studies.
description: Read Me Raw
 DataRead me file describing
 the data filesCall Duration Raw
 DataRaw data for female
 responses to the call duration stimuliCallDurationRaw.txtCall Period Raw DataRaw data for female responses to the call period stimuliCallPeriodRaw.txtCall Frequency Raw DataRaw data for female responses to the call frequency stimuliCallFrequencyRaw.txtCall Duration Preference Function dataDescriptive measurements for female preference functions measured in response to the call duration stimuliCallDurationPF.txtCall Period Preference Function DataDescriptive measurements for female preference functions measured in response to the call period stimuliCallPeriodPF.txtCall Frequency Preference Function DataDescriptive measurements for female preference functions measured in response to the call frequency stimuliCallFrequencyPF.txt