cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.k11r5b9
title: Data from: Acid-base physiology over tidal periods in the mussel Mytilus edulis: size and temperature are more influential than seawater pH

description: Ocean acidification (OA) studies to date have typically used stable
 open-ocean pH and CO2 values to predict the physiological responses of
 intertidal species to future climate scenarios, with few studies
 accounting for natural fluctuations of abiotic conditions or the
 alternating periods of emersion and immersion routinely experienced during
 tidal cycles. Here, we determine seawater carbonate chemistry and the
 corresponding in situ haemolymph acid-base responses over real time for
 two populations of mussel (Mytilus edulis) during tidal cycles,
 demonstrating that intertidal mussels experience daily acidosis during
 emersion. Using these field data to parameterise experimental work we
 demonstrate that air temperature and mussel size strongly influence this
 acidosis, with larger mussels at higher temperatures experiencing greater
 acidosis. There was a small interactive effect of prior immersion in OA
 conditions (pHNBS 7.7/pCO2 930 µatm) such that the haemolymph pH measured
 at the start of emersion was lower in large mussels exposed to OA.
 Critically, the acidosis induced in mussels during emersion in situ was
 greater (ΔpH ~0.8 units) than that induced by experimental OA (ΔpH ~0.1
 units). Understanding how environmental fluctuations influence physiology
 under current scenarios is critical to our ability to predict the
 responses of key marine biota to future environmental changes.
description: Mangan et al, raw
 dataAll lab and field
 data.Mangan
 et al_raw data.xlsx
DOI: 10.5061/dryad.t2k5143
title: Data from: Population closure and the bias-precision trade-off in Spatial Capture-Recapture

description: 1. Spatial capture-recapture (SCR) is an increasingly popular method for
 estimating ecological parameters. This method often relies on data
 collected over relatively long sampling periods. While longer sampling
 periods can yield larger sample sizes and thus increase precision of
 estimates, they also increase the risk of violating the closure
 assumption, thereby potentially introducing bias. The sampling period
 characteristics are therefore likely to play an important role in this
 bias-precision tradeoff. Yet few studies have studied this tradeoff and
 none has done so for SCR models. 2. In this study, we explored the
 influence of the length and timing of the sampling period on the
 bias-precision tradeoff of SCR population size estimators. Using a
 continuous time-to-event approach, we simulated populations with a wide
 range of life histories and sampling periods before quantifying the bias
 and precision of population size estimates returned by SCR models. 3.
 While longer sampling periods benefit the study of slow-living species
 (increased precision and lower bias), they lead to pronounced
 over-estimation of population size for fast living species. In addition,
 we show that both bias and uncertainty increase when the sampling period
 overlaps the species’ reproductive season. 4. Based on our findings, we
 encourage investigators to carefully consider the life history of their
 study species when contemplating the length and the timing of the sampling
 period. We argue that SCR (and non-spatial capture-recapture) studies can
 safely extend the sampling period to increase precision, as long as it is
 timed to avoid peak recruitment periods. The simulation framework we
 propose here can be used to guide decisions regarding the sampling period
 for a specific situation.
description: Dupont Milleret Gimenez
 Bischof_Population Closure and
 SCR_SupplementaryMaterialsDupontMilleretGimenezBischof_Pop Closure and Bias Precision tradeoff.R
DOI: 10.5061/dryad.g8c0vm8
title: Data from: Epilepsy duration and seizure outcome in epilepsy surgery: a systematic review and meta-analysis

description: Objective: To conduct a systematic review and meta-analysis on the effect
 of earlier or later resective epilepsy surgery on seizure outcome.
 Methods: We searched the electronic databases PubMed, EMBASE, and Cochrane
 Library for studies investigating the association of epilepsy duration and
 seizure freedom after resective surgery. Two reviewers independently
 screened citations for eligibility and assessed relevant studies for risk
 of bias. We combined data in meta-analyses using a random effects model.
 We assessed the certainty of evidence according to grading of
 recommendations assessment, development and evaluation (GRADE). Results:
 Twenty-five studies were included, twelve of which had data suitable for
 meta-analyses. Comparing seizure outcome if epilepsy surgery was performed
 before versus after 2, 5, 10 and 20 years of epilepsy duration, and
 comparing epilepsy duration &lt;5 years to &gt;10 years, we found
 significant effects favoring shorter duration with risk differences (RD)
 ranging from 0.15 to 0.21 and risk ratios (RR) ranging from 1.20 to 1.33
 (p&lt;0.01 for all comparisons). According to GRADE, we found low
 certainty of evidence (++--) favoring shorter epilepsy duration before
 surgery. Conclusions: People with shorter epilepsy duration are more
 likely to be seizure free at follow-up. Furthermore, there is a positive
 association between shorter duration and seizure freedom also for very
 long epilepsy durations. Patients who might benefit from epilepsy surgery
 should therefore be referred for presurgical assessments without further
 delay, regardless of epilepsy duration. The low certainty of evidence
 acknowledges concerns regarding study heterogeneity and possible residual
 confounding.
description: Appendix e-1 Search
 strategySearch strategy for
 Cochrane Library, Embase, and PubMed, 10 November 2017Bjellvi_Epilepsy_duration_Appendix_1_Search_strategy_2019.pdfAppendix e-2 Extracted study dataIncluded studies and extracted study dataBjellvi_Epilepsy_duration_Appendix_2_Extracted_study_data_2019.pdfAppendix e-2 Extracted study dataIncluded studies and extracted study dataBjellvi_Epilepsy_duration_Appendix_2_Extracted_study_data_2019.docx
DOI: 10.5061/dryad.g2n986g
title: Data from: Exotic plant species are locally adapted but not to high UV‐B radiation: a reciprocal multi‐species experiment

description: Ultraviolet (UV) radiation intensities differ among global regions, with
 significantly higher levels in the southern hemisphere. UV-B may act as an
 environmental filter during plant invasions, which might particularly
 apply to plant species from Europe introduced to New Zealand. Just like
 for any other abiotic or biotic filter, successful invaders can cope with
 novel environmental conditions via plastic responses and/or through rapid
 adaptation by natural selection in the exotic range. We conducted a
 multi-species experiment with herbaceous plants in two common gardens
 located in the species’ ‘native’ and exotic ranges, in Germany and New
 Zealand, respectively. We used plants of German and New Zealand origin of
 eight species to test for adaptation to higher UV-B radiation in their new
 range. In each common garden, all plants were exposed to three radiation
 treatments: (i) ambient sunlight, (ii) exclusion of UV-B while
 transmitting ambient UV-A, and (iii) combined exclusion of UV-B and UV-A.
 Linear mixed-effect models revealed significant effects of UV-B on growth
 and leaf traits and an indication for UV-B-induced biomass reduction in
 both common gardens pointing to an impact of natural, ambient UV radiation
 intensities experienced by plants in the northern and in the southern
 hemisphere. In both common gardens, the respective local plants (i.e.
 German origins in Germany, New Zealand origins in New Zealand) displayed
 enhanced productivity and aboveground biomass allocation, thus providing
 evidence for recent evolutionary processes in the exotic range. Genetic
 differentiation between different origins in consequence of divergent
 local selection pressures was found for specific leaf area. This
 differentiation particularly hints at different selective forces in both
 ranges while only little evidence was found for an immediate selective
 effect of high UV-B intensities in the exotic range. However, reaction
 norm slopes across ranges revealed higher plasticity of exotic individuals
 in functional leaf traits that might allow for a more sensitive regulation
 of photoprotection measures in response to UV-B. During the colonization,
 New Zealand populations might have been selected for the observed higher
 phenotypic plasticity and a consequently increased ability to successfully
 spread in the exotic range.
description: Raw
 dataData on productivity,
 growth and leaf traits of 8 exotic species in two common gardens
 experiments in the 'native' and exotic range.Hock_etal.csvR scriptR script based on the data file "Hock_etal.csv"Hock_etal.R
DOI: 10.5061/dryad.9f0n877
title: Data from: Multispecies invasion reduces the negative impact of single alien plant species on native flora

description: Aim: In the current Anthropocene, many ecosystems are being simultaneously
 invaded by multiple alien species. Some of these invasive species become
 more dominant and have greater environmental impacts than others. If two
 potentially dominant species invade the same area, the combined impact has
 been reported to be either (1) domination by one species, i.e., the
 competitive dominance of one invader, or (2) invasion meltdown, where the
 combined impact is much greater, i.e., a synergistic effect. We studied
 the effects of the invasion of two alien plant species that are known to
 strongly decrease native plant species diversity: the Persian walnut
 Juglans regia and goldenrod Solidago canadensis. Location: We examined
 native vegetation diversity in abandoned fields (in Poland) where neither
 species had invaded, only one species had invaded, and both species had
 invaded. Methods: Field survey data were analysed using generalized linear
 mixed models and ordination techniques. Results: When goldenrod invaded
 alone, it caused a larger decrease in species richness and cover (74%)
 than when walnut invaded alone (58%). ¬When walnut and goldenrod
 co-occurred in abandoned fields, walnut was dominant and strongly
 decreased goldenrod density by 87%. However, the combined impact on native
 species diversity was much lower (15% decrease in native plant diversity)
 than when either goldenrod or walnut invaded alone. Main conclusions: In
 contrast to many other studies, our study does not support the occurrence
 of an invasion meltdown. Instead, our results show that even when one
 invader dominates, its negative effect on plant diversity can be strongly
 modified by the presence of another invasive species.
description: Data of plant surveys in
 heterogeneous abandoned fieldsThe file contains data
 on native plant species growing in different habitat types within
 heteregoeneous abandoned fieldsData_heterogeneous_fields.xlsxData of plant surveys in homogeneous abandoned fieldsThe file contains data on native plant species growing in different types of homogeneous abandoned fieldsData_homogeneous_fields.xlsx
DOI: 10.5061/dryad.337c68r
title: Data from: Differential responses of ecosystem carbon flux components to experimental precipitation gradient in an alpine meadow

description: 1. Changes in precipitation have the potential to cause dramatic changes
 in ecosystem carbon (C) cycling; however, it remains unclear whether
 different components of the net ecosystem exchange (NEE) (e.g., C uptake
 vs. release, plant vs. microbe respiration, aboveground vs. belowground
 plant respiration), have similar or differential sensitivity to
 precipitation gradients. 2. We conducted a manipulative field experiment
 (from 2015 to 2017) with six precipitation treatments, including 1/12
 annual precipitation (P), 1/4 P, 1/2 P, 3/4 P, P, and 5/4 P in an alpine
 meadow to investigate the responses of the NEE components. 3. Over the
 three years, all C fluxes showed a nonlinear response to the precipitation
 gradients, except for root respiration. The most extreme drought treatment
 (1/12 P) caused strong reductions in NEE by 15.57%, gross primary
 productivity by 17.26%, and ecosystem respiration by 19.05%, in contrast
 to the control. Plant respiration was more sensitive to precipitation
 change than microbe respiration, and aboveground plant respiration was
 more susceptible than belowground respiration. Structural equation models
 revealed that the response of C fluxes under precipitation changes were
 primarily due to changes in the soil water content and aboveground net
 primary productivity. 4. Our findings indicate that future precipitation
 changes, particularly extreme drought, will decrease ecosystem C fluxes
 with different magnitudes, leading to a consequent reduction of NEE. These
 emergent ecosystem properties are essential for the improved elucidation
 of carbon cycle dynamics and benchmarking models, to predict ecosystem
 responses to precipitation changes.
description: FE-2018-01094-sup-Data
DOI: 10.5061/dryad.vd80g8n
title: Data from: Non-random latitudinal gradients in range size and niche breadth predicted by spatial patterns of climate

description: Aim. Tropical species are thought to experience and be adapted to narrow
 ranges of abiotic conditions. This idea has been invoked to explain a
 broad array of biological phenomena, including the latitudinal diversity
 gradient and differential rates of speciation and extinction. However,
 debate continues regarding the broad-scale applicability of this pattern
 and potential processes responsible. Here, we use a simulation approach to
 test two propositions: (1) strong geographic patterns of variation in
 realized niche breadth can arise in the absence of variance in the size of
 fundamental niches, and (2) realized niche breadths can show latitudinal
 patterns as a consequence of spatio-temporal climate change, even when
 fundamental niche breadths are unrelated to latitude, and dispersal
 abilities are held constant. Location. Global. Time period. Simulations
 were conducted using climate models from over the last 120 Ka, with trait
 dynamics captured at 95 Ka and present-day. Major taxa studied. We used
 virtual species with traits based loosely on plants. Methods. We simulated
 latitudinal trends of niche breadth and range size for virtual species
 using a cellular automaton algorithm that linked a gridded geographic
 domain with a three-dimensional environmental landscape. Results. In all
 simulations, strong spatial patterns in realized niches were obtained in
 the absence of niche evolution, and realized niches showed geographic
 patterns deriving only from real-world spatiotemporal variation in
 climate. We noted contrasting patterns of niche breadth in different
 environmental dimensions, with temperature breadth increasing with
 latitude, but precipitation breadth decreasing with latitude. Overall,
 simulation outcomes mimicked real-world pattern of latitudinal range
 extent covarying with amount of land area. Main conclusions. Tropical
 species can have narrower niche breadths for maximum and minimum
 temperature ranges compared to temperate species solely as the result of
 the spatial arrangement of environments. We therefore suggest that the
 complex spatiotemporal distribution of global abiotic environments has
 strong potential for structuring observed latitudinal gradients of niche
 breadths.
description: The data used in the
 paperdata_tables.zip
DOI: 10.5061/dryad.8tp4q6d
title: Data from: Influences of sodium and glycosaminoglycans on skin edema and the potential for ulceration: a finite element approach

description: Venous ulcers are chronic transcutaneous wounds common in the lower legs.
 They are resistant to healing and have a 78% chance of recurrence within
 two years. It is commonly accepted that venous ulcers are caused by the
 insufficiency of the calf muscle pump, leading to blood pooling in the
 lower legs, resulting in inflammation, skin edema, tissue necrosis and
 eventually skin ulceration. However, the detailed physiological events by
 which inflammation contributes to wound formation are poorly understood.
 We therefore sought to develop a model that simulated the inflammation,
 using it to determine the internal stresses and pressure on the skin that
 contribute to venous ulcer formation. A three-layer Finite Element skin
 model (epidermis, dermis and hypodermis) was developed to explore the
 roles in wound formation of two inflammation identifiers:
 Glycosaminoglycans (GAGs) and sodium. A series of parametric studies
 showed that increased GAGs and sodium content lead to edema and increased
 tissue stresses of 1.5 MPa, which was within the reported range of skin
 tissue Ultimate Tensile Stress (0.1-40 MPa). These results suggested that
 both the edema and increased fluid pressure could reach a threshold for
 tissue damage and eventual ulcer formation. The models presented here
 provide insights to the pathological events associated with venous
 insufficiency including inflammation, edema, and skin ulceration.
description: programszipped file of all the programs
DOI: 10.5061/dryad.8m40rb0
title: Data from: Tracking temporal shifts in area, biomes, and pollinators in the radiation of Salvia (sages) across continents: leveraging anchored hybrid enrichment and targeted sequence data

description: Premise of the Study: A key question in evolutionary biology is why some
 clades are more successful by being widespread geographically, biome
 diverse, or species‐rich. To extend understanding of how shifts in area,
 biomes, and pollinators impact diversification in plants, we examined the
 relationships of these shifts to diversification across the mega‐genus
 Salvia. Methods: A chronogram was developed from a supermatrix of anchored
 hybrid enrichment genomic data and targeted sequence data for over 500 of
 the nearly 1000 Salvia species. Ancestral areas and biomes were
 reconstructed using BioGeoBEARS. Pollinator guilds were scored, ancestral
 pollinators determined, shifts in pollinator guilds identified, and rates
 of pollinator switches compared. Key Results: A well‐resolved phylogenetic
 backbone of Salvia and updated subgeneric designations are presented.
 Salvia originated in Southwest Asia in the Oligocene and subsequently
 dispersed worldwide. Biome shifts are frequent from a likely ancestral
 lineage utilizing broadleaf and/or coniferous forests and/or arid
 shrublands. None of the four species diversification shifts are correlated
 to shifts in biomes. Shifts in pollination system are not correlated to
 species diversification shifts, except for one hummingbird shift that
 precedes a major shift in diversification near the crown of New World
 subgen. Calosphace. Multiple reversals back to bee pollination occurred
 within this hummingbird clade. Conclusions: Salvia diversified extensively
 in different continents, biomes, and with both bee and bird pollinators.
 The lack of tight correlation of area, biome, and most pollinator shifts
 to the four documented species diversification shifts points to other
 important drivers of speciation in Salvia.
description: Data from: Tracking the
 temporal shifts in area, biomes, and pollinators in the radiation of
 Salvia (sages, Lamiaceae) across continents: leveraging Anchored Hybrid
 Enrichment and targeted sequence dataThis folder includes the
 data and scripts to reproduce the analysis in this paper. The README file
 inside describes the files.Kriebel_Salvia_2019.zip
DOI: 10.5281/zenodo.18378272
title: py4dgeo Data Repository

description: Datasets for usage examples and demo workflows of py4dgeo, an open-source Python library for change analysis in 4D point clouds: https://github.com/3dgeo-heidelberg/py4dgeo
DOI: 10.5061/dryad.5v47197
title: Data from: Eco-evolutionary dynamics in the wild: clonal turnover and stability in Daphnia populations

description: There is increasing recognition of the importance of rapid adaptation in
 the dynamics of populations and communities. While the effects of rapid
 adaptation on the stability of populations have been shown in experimental
 systems, demonstration of their impacts in natural populations are rare.
 We examined the relationship between clonal dynamics and population
 stability of natural Daphnia pulex populations experiencing seasonal
 environmental variation. We show that the degree of asynchrony in a
 population's clonal dynamics is tightly linked to its
 population-level stability. Populations whose clonal abundances were more
 asynchronous were more stable temporally. Variation in asynchrony was
 related to variability in primary productivity, and experiments using
 clones from the study populations revealed significant genotype by
 environment interactions in response to food level. This suggests that
 clonal turnover was not due to neutral dynamics alone but may be linked to
 variation in functional traits associated with resource acquisition and
 conversion.
description: Daphnia clonal
 synchrony, population variability and environmental
 variablesMeasures of Daphnia
 pulex clonal synchrony, population-level variability and environmental
 variables from 24 ponds in southern Michigan. Data were collected within a
 single growing season.Synchrony_stability_environmental_predictors.csvTime series of Daphnia pulex clonal densitiesTime series of densities of Daphnia pulex clones from 24 ponds located in southern Michigan. Data were collected within a single growing season.Daphnia_pulex_clonal_densities_time_series.csvTime series of Daphnia pulex clonal frequenciesTime series of frequencies (i.e. proportional abundances) of Daphnia pulex clones from 24 ponds located in southern Michigan. Data were collected within a single growing season.Daphnia_pulex_clonal_frequencies_time_series.csvResults of a Daphnia pulex juvenile growth experimentResults from a laboratory-based juvenile growth experiment, testing the effects of algal resource concentration and clone identity on somatic growth rates of 23 Daphnia pulex clones.Trait_Assay_Experiment.csv
DOI: 10.5061/dryad.5tf55rb
title: Data from: Get off my back: vibrational assessment of homeowner strength

description: Animals may use a variety of sensory modalities to assess ownership and
 resource holding potential (RHP). However, few studies have experimentally
 tested whether animals can assess these key variables through a purely
 vibrational modality, exclusively involving substrate-borne vibrations.
 Here we studied social terrestrial hermit crabs (Coenobita compressus),
 where competitors assess homeowners by climbing on top of a solid external
 structure—an architecturally remodelled shell home, inside of which the
 owner then produces vibrations. In the field, we used a miniature
 vibratory device, hidden within an empty shell, to experimentally simulate
 a ‘phantom owner’, with variable amplitudes of vibration representing
 different levels of homeowner strength. We found that assessors could use
 these vibrations to deduce the owner’s RHP: for strong vibrations
 (indicative of a high RHP owner) assessors were least likely to escalate
 the conflict; for weak vibrations (indicative of a low RHP owner)
 assessors showed intermediate escalation; and in the absence of vibration
 (indicative of an extremely weak or absent owner) assessors were most
 likely to escalate. These results reveal that animals can assess homeowner
 strength based solely on substrate vibrations, thereby making important
 decisions about whether to escalate social conflicts over property.
description: Get off my back_Biology
 Letters (all data uploaded to Dryad 2019-01-25)All experimental
 data.