cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.1976kg3
title: Data from: The conserved aspartate ring of MCU mediates MICU1 binding and regulation in the mitochondrial calcium uniporter complex

description: The mitochondrial calcium uniporter is a Ca2+ channel that regulates
 intracellular Ca2+ signaling, oxidative phosphorylation, and apoptosis. It
 contains the pore-forming MCU protein, which possesses a DIME sequence
 thought to form a Ca2+ selectivity filter, and also regulatory EMRE,
 MICU1, and MICU2 subunits. To properly carry out physiological functions,
 the uniporter must stay closed in resting conditions, becoming open only
 when stimulated by intracellular Ca2+ signals. This Ca2+-dependent
 activation, known to be mediated by MICU subunits, is not well understood.
 Here, we demonstrate that the DIME-aspartate mediates a Ca2+-modulated
 electrostatic interaction with MICU1, forming an MICU1 contact interface
 with a nearby Ser residue at the cytoplasmic entrance of the MCU pore. A
 mutagenesis screen of MICU1 identifies two highly-conserved Arg residues
 that might contact the DIME-Asp. Perturbing MCU-MICU1 interactions elicits
 unregulated, constitutive Ca2+ flux into mitochondria. These results
 indicate that MICU1 confers Ca2+-dependent gating of the uniporter by
 blocking/unblocking MCU.
description: Source file for
 calcium-45 flux experimentsData
 summary.xlsx
DOI: 10.5061/dryad.k5k9074
title: Data from: Local range boundaries versus large-scale tradeoffs: climatic and competitive constraints on tree growth

description: Species often respond to human‐caused climate change by shifting where
 they occur on the landscape. To anticipate these shifts, we need to
 understand the forces that determine where species currently occur. We
 tested whether a long‐hypothesised trade‐off between climate and
 competitive constraints explains where tree species grow on mountain
 slopes. Using tree rings, we reconstructed growth sensitivity to climate
 and competition in range centre and range margin tree populations in three
 climatically distinct regions. We found that climate often constrains
 growth at environmentally harsh elevational range boundaries, and that
 climatic and competitive constraints trade‐off at large spatial scales.
 However, there was less evidence that competition consistently constrained
 growth at benign elevational range boundaries; thus, local‐scale
 climate‐competition trade‐offs were infrequent. Our work underscores the
 difficulty of predicting local‐scale range dynamics, but suggests that the
 constraints on tree performance at a large‐scale (e.g. latitudinal) may be
 predicted from ecological theory.
description: Example Data and Code
 from SIThe example code and
 relevant data provided in the manuscript Supplemental Information,
 including SIData S1, S2, S3 and S4.SI_Data_and_code.zipTree_Info_BAI_012118Focal tree size, competitive environment, regeneration counts within 5m of focal tree, and focal tree 10yr Basal Area Increment (2003-2012) data for 9 species replicates. One .csv per species replicate, named by Transect ID (CO/MT/WA) and Species ID (PIPO = Pinus ponderosa, POTR = Populus tremuloides, ABLA=Abies lasiocarpa, TSHE = Tsuga heterophylla, PSME = Psuedotsuga menziesii). treeinfobai_Metadata_VERSION# .csv has metadata including column descriptions.Raw_Ring_Widths_012118Raw ring width data (2013-variable start date) for focal trees from nine species-replicates. "avRingWidth_Metadata_VERSION##.csv" contains metadata for data files, including column descriptions.READMEREADME for Dryad repository.
DOI: 10.5061/dryad.c63b1v1
title: Data from: Love them all: mothers provide care to foreign eggs in the European earwig Forficula auricularia

description: The rejection of foreign individuals is considered a central parameter in
 the evolution of social life. Within family units, parents are typically
 thought to reject foreign offspring to ensure that their investment into
 care is directed towards their own descendants. Whereas selection for such
 kin bias is expected to be high when parental care is extended and
 involves numerous and energetically costly behaviours, it can be reduced
 when the acceptance of foreigners provide subsequent benefits to offspring
 and when alternative parental strategies limit the risk of clutch
 parasitism. In this study, we investigated the outcome of these
 conflicting selection pressures in the European earwig. Our results
 overall demonstrate that mothers do not eliminate foreign eggs, provide
 the same level of care to both foreign and own eggs (egg grooming, egg
 defense and maternal return) and pay the same costs of care in terms of
 weight loss and immunity when tending each type of eggs. We also show that
 foreign and own eggs exhibit similar development time, hatching success
 and lead to comparable juvenile quality. Interestingly, our results reveal
 that tending eggs (of any origin) reduces mothers’ weight loss during this
 long period, possibly due to egg cannibalism. Hence, these findings
 emphasize the difficulty to predict the occurrence of kin bias, and stress
 the need to broaden our knowledge on the net benefits of egg rejection for
 parents to better understand the general importance of kin bias in the
 evolution of pre-hatching parental care.
description: Data
 setsData sets of the three
 main questionsDRYAD.xlsx
DOI: 10.5061/dryad.c18qh26
title: Data from: Assessing the effect of predator control on an endangered goose population subjected to predator-mediated food web dynamics

description: 1. Assessing the effectiveness of conservation actions to halt population
 declines is challenging when confounded by other factors. We assessed
 whether culling of red fox, a predator currently increasing in the
 sub-Arctic, contributed to recent recovery of the critically endangered
 Fennoscandian population of Lesser White-fronted Goose Anser erythropus,
 while controlling for potentially confounding food web dynamics. 2. Using
 19 years of data, 10 before and 9 after the implementation of annual red
 fox culling, we estimated the effect of this action on annual performance
 of the goose population. We corrected for the potentially confounding
 effects of cyclic rodent dynamics and semi-domestic reindeer carrion
 abundance, both of which are expected to trigger predator functional and
 numerical responses, as well as for annual variation in spring phenology.
 3. Goose reproductive success fluctuated in synchrony with the rodent
 cycle and was negatively related to abundant carrion. When accounting for
 these aspects of food web dynamics, there was no evidence for an effect of
 red fox culling on reproductive success. There was, however, a tendency
 for fox culling to increase adult survival. 4. Our analysis suggests that
 goose performance in their breeding area is influenced by fluctuating
 offspring predation, mediated by mainly natural (rodents) and partly
 anthropogenic (semi-domestic reindeer) dynamic components of the food web.
 5. Synthesis and applications. The effect of a decade-long red fox culling
 on goose reproductive success and survival is currently uncertain. This is
 despite the fact that predation drives reproductive success through
 changes in rodent and reindeer carrion abundance. New management actions
 may consist of regulation of reindeer herd sizes and/or removal of
 carcasses to reduce the subsidizing effect of reindeer carrion on
 mesopredators. Getting robust evidence regarding the impact of red fox
 culling on population recovery depends on continuing research to
 disentangle food web dynamics and efficiency of management actions.
description: Data_FMZip folder containing datasets and R code to reproduce the analysis of our paper.
DOI: 10.5061/dryad.72048tr
title: Data from: Equivalence analysis to support environmental safety assessment: using nontarget organism count data from field trials with cisgenically modified potato

description: This paper considers the statistical analysis of entomological count data
 from field experiments with genetically modified (GM) plants. Such trials
 are carried out to assess environmental safety. Potential effects on
 nontarget organisms (NTOs), as indicators of biodiversity, are
 investigated. The European Food Safety Authority (EFSA) gives broad
 guidance on the environmental risk assessment (ERA) of GM plants. Field
 experiments must contain suitable comparator crops as a benchmark for the
 assessment of designated endpoints. In this paper, a detailed protocol is
 proposed to perform data analysis for the purpose of assessing
 environmental safety. The protocol includes the specification of a list of
 endpoints and their hierarchical relations, the specification of intended
 levels of data analysis, and the specification of provisional limits of
 concern to decide on the need for further investigation. The protocol
 emphasizes a graphical representation of estimates and confidence
 intervals for the ratio of mean abundances for the GM plant and its
 comparator crop. Interpretation relies mainly on equivalence testing in
 which confidence intervals are compared with the limits of concern. The
 proposed methodology is illustrated with entomological count data
 resulting from multiyear, multilocation field trials. A cisgenically
 modified potato line (with enhanced resistance to late blight disease) was
 compared to the original conventional potato variety in the Netherlands
 and Ireland in two successive years (2013, 2014). It is shown that the
 protocol encompasses alternative schemes for safety assessment resulting
 from different research questions and/or expert choices. Graphical
 displays of equivalence testing at several hierarchical levels and their
 interpretation are presented for one of these schemes. The proposed
 approaches should be of help in the ERA of GM or other novel plants.
description: Arthropod count data and
 analysis programsSee
 README.docxStatisticalAnalysis.zip
DOI: 10.5061/dryad.tt16kr6
title: Data from: Effects of anoxia on ATP, water, ion and pH balance in an insect (Locusta migratoria)

description: When exposed to anoxia insects rapidly go into a hypometabolic coma from
 which they can recover when exposed to normoxia again. However, prolonged
 anoxic bouts eventually lead to death in most insects, although some
 species are surprisingly tolerant. Anoxia challenges ATP, ion, pH and
 water homeostasis, but it is not clear how fast and to what degree each of
 these parameters are disrupted during anoxia, nor how quickly they
 recover. Further, it has not been investigated which disruptions are the
 primary source of the tissue damage that ultimately causes death. Here we
 show, in the migratory locust (Locusta migratoria), that prolonged anoxic
 exposures are associated with increased recovery time, decreased survival,
 rapidly disrupted ATP and pH homeostasis and a more slowly disruption of
 ion ([K+] and [Na+] ) and water balance. Locusts could not fully recover
 after 4 hours of anoxia at 30 °C, and at this point hemolymph [K+] and
 [Na+] was elevated 5-fold and decreased 2-fold, respectively, muscle [ATP]
 was decreased to ≤3% of normoxic values, hemolymph pH had dropped 0.8
 units from 7.3 to 6.5, and hemolymph water content was halved. These
 physiological changes are associated with marked tissue damage in vivo and
 we show that the isolated and combined effects of hyperkalemia, acidosis
 and anoxia can all cause muscle tissue damage in vitro to equally large
 degrees. When locusts were returned to normoxia after a moderate (2 hour)
 exposure of anoxia, ATP recovered rapidly (15 min) and this was quickly
 followed by recovery of ion balance (30 min), while pH recovery took 2-24
 hours. Recovery of [K+] and [Na+] coincided with the animals exiting the
 comatose state, but recovery to an upright position took∼90 min and was
 not related to any of the physiological parameters examined.
description: Raw data for
 figuresData_DRYAD.xlsx
DOI: 10.5061/dryad.0dt2h6c
title: Data from: Morphological innovation and the evolution of hadrosaurid dinosaurs

description: The hadrosaurids were a successful group of herbivorous dinosaurs. During
 the Late Cretaceous, 100 to 66 million years ago, hadrosaurids had high
 diversity, rapid speciation rates, and wide geographic distribution. Most
 hadrosaurids were large-bodied and had similar postcranial skeletons.
 However, they show important innovations in the skull, including disparate
 crests that functioned as socio-sexual display structures, and a complex
 feeding apparatus, with specialized jaws bearing dental batteries. Little
 is known about the macroevolutionary processes that produced these
 evolutionary novelties. Here we provide novel perspectives using
 evolutionary rates and disparity analyses. Our results show that
 hadrosaurid cranial evolution was complex and dynamic, but their
 postcranial skeleton and body size were conservative. High cranial
 disparity was achieved through multiple bursts of phenotypic innovation.
 We highlight contrasting evolutionary trends between the disparate facial
 skeleton and crests, which both showed multiple high-rate shifts, and the
 feeding apparatus, which had low variance and high rates on a single
 phylogenetic branch leading to the diverse Saurolophidae, within
 hadrosaurids. We reveal that rapid evolutionary rates were important for
 producing the high disparity of exaggerated crests, and present novel
 evidence that the hadrosaurid diversification was linked to both a key
 adaptive innovation in the feeding apparatus, and to multiple bursts of
 innovation in socio-sexual displays.
description: Stubbs et al. 2019
 Paleobiology Dryad SupplementSupplementary data, R
 scripts, and figures S2-9Stubbs_et_al_PAL_Dryad.zip
DOI: 10.5061/dryad.r07m836
title: Data from: Evolutionary stable sex ratios with non-facultative male-eggs first sex allocation in fig wasps

description: Sex allocation theory has long generated insights into the nature of
 natural selection. Classical models have elucidated causal phenomena such
 as local mate competition and inbreeding on the degree of female bias
 exhibited by various invertebrates. Typically, these models assume mothers
 facultatively adjust sex allocation using predictive cues of future
 offspring mating conditions. Here we relax this assumption by developing a
 sex allocation model for haplodiploid mothers experiencing local mate
 competition that lay a fixed number of male eggs first. Female egg number
 is determined by remaining oviposition sites or remaining eggs of the
 mother, depending on which is exhausted first. Our model includes
 parameters for variation in foundress number, patch size, fecundity and
 offspring mortality that allow us to generate secondary sex ratio
 predictions based on specific parameterizations for natural populations.
 Simulations show that: 1) in line with classical models, factors that
 increase sib-mating result in mothers laying relatively more female eggs;
 2) high offspring mortality leads to relatively more males as
 fertilization insurance; 3) unlike classical model predictions,
 sub-optimal predictions, such as more males than females are possible. In
 addition, our model provides the first quantitative predictions for the
 expected number of males and females in a patch where typically only one
 mother utilizes a given patch. We parameterized the model with data
 obtained from seven species of southern African fig wasps to predict
 expected means and variances for numbers of male and female offspring for
 typical numbers of mothers utilizing a patch. These predictions were
 compared to secondary sex ratio data from single foundress patches, the
 most commonly encountered situation for these species. Our predictions
 matched both the observed number and variance of male and female offspring
 with a high degree of accuracy suggesting that facultative adjustment is
 not required to produce evolutionary stable sex ratios.
description: Foundress
 countsEach tab represents
 foundress counts for a given fig wasp species - borders designate
 different treesChung et al. Oikos 2019 Table 2
 Foundress Counts Raw Data.xlsxChung et al. Oikos 2019
 Table 3 Single Foundress Offspring Counts Raw DataOffspring counts for
 figs with single foundresses for different species
DOI: 10.5061/dryad.6v52770
title: Data from: Early life and transgenerational stressors impact secondary sexual traits and fitness

description: Developmental stress from early life challenges impacts adult phenotype
 across a range of species. However, the potential transgenerational
 consequences for adult phenotype are largely unknown. Additionally, the
 possible impacts of natural hatch/birth order and natal brood composition
 in unmanipulated broods/litters on adult performance has been
 understudied. This experiment takes a novel approach to studying
 developmental stress by integrating and assessing multiple potential
 stressors and multiple secondary sexual traits simultaneously in order to
 determine how these influence both social and genetic reproductive
 success. Male zebra finches were colony-reared on high- or low-quality
 diets; as adults, they reproduced competitively on an intermediate diet.
 Male visual ornaments (beak color and cheek patch size) were found to be
 reliable signals of developmental stress, since they showed high
 sensitivity to multiple early conditions and predicted reproductive
 success. Contrary to the nutritional stress hypothesis, early diet did not
 impact song traits investigated. Male reproductive success was impacted by
 diet history, male hatch order, and natal brood traits of males’ fathers,
 with daughter and son production sensitive to different subsets of
 identified reproductive stressors. Notably, diet influenced only son
 production and the hatch orders of males and their fathers influenced only
 daughter production. Findings suggest that the sexes respond differently
 to early life conditions, which may influence subsequent sex allocation
 patterns. Despite good general correspondence in patterns of social and
 genetic reproductive success, males that sired one or more extra-pair
 offspring achieved higher fitness through greater son production.
description: Wilson et al. 2019
 BehavEcoWilson BehavEco 2019 Dryad
 Archive 1_13.xlsx
DOI: 10.5061/dryad.2hm27nc
title: Data from: Urbanization alters predator avoidance behaviors

description: 1. Urbanization is considered the fastest growing form of global land use
 change and can dramatically modify habitat structure and ecosystem
 function. While ecological processes continue to operate within cities,
 urban ecosystems are profoundly different from their more natural
 counterparts. Thus, ecological predictions derived from more natural
 ecosystems are rarely generalizable to urban environments. 2. In this
 study we used data from a large-scale and long-term camera trapping
 project in Chicago IL, USA to determine whether urbanization alters
 predator avoidance behavior of urban prey species. 3. We studied three
 behavioral mechanisms often induced by the fear of predation (spatial
 distribution, daily activity patterns, and vigilance) of white-tailed deer
 (Odocoileus virginianus) and eastern cottontail (Sylvilagus floridanus)
 when coyote (Canis latrans) – an urban apex predator – was present in the
 same habitat patch. 4. We found no evidence of spatial segregation between
 coyote and either prey species. Furthermore, neither white-tailed deer nor
 eastern cottontail changed their daily activity or increased vigilance in
 urban areas when coyotes were present. Eastern cottontail, however, had
 their uppermost level of vigilance in highly urban sites when coyotes were
 absent. 5. Our study demonstrates that predator-prey dynamics might be
 modified in urban ecosystems – moving from what is traditionally thought
 of as a two-player system (predator and prey) to a three-player system
 (predator, prey, and people).
description: gallo_et_al_2019_AnimalEcologyR script, JAGS models, and data used to assess how urbanization changes predator avoidance behaviors in Chicago, IL USA
DOI: 10.5281/zenodo.18390173
title: Samsung
DOI: 10.5281/zenodo.18390174
title: Samsung
DOI: 10.5061/dryad.v870905
title: Data from: Variation in plant functional traits is best explained by the species identity: stability of trait based species ranking across meadow management regimes

description: 1. It is commonly assumed in trait-based studies that plant functional
 traits are species-specific, being more variable among species than among
 different environmental conditions. If the environment affects traits it
 is assumed that species react in a similar direction and conserve the
 functional distances. The rank of species based on the trait values is
 then unchanged, which justifies the use of species trait averages from
 database values. Such assumptions of species specificity are, however,
 increasingly disputed by studies showing overall high intraspecific trait
 variability. 2. To test the species specificity and ranking stability of
 functional traits we sampled plant individuals of almost all species (66
 in total) within each plot of a long term (19 years) land use management
 experiment, which comprised a factorial combination of fertilization,
 mowing and removal of the dominant species Molinia caerulea in an
 oligotrophic wet meadow in the Czech Republic. Plant individuals were
 measured for eight commonly used traits: height, leaf dry matter content
 (LDMC), specific leaf area (SLA), leaf δ13C content, leaf carbon content,
 leaf δ15N content, and leaf nitrogen content. Height, LDMC, and SLA were
 also extracted from the LEDA trait database for comparison. 3. Species
 identity consistently explained the largest portion of trait variability
 (40%-68%). Land use managements had a considerably lower effect (0.4%-9%
 of explained trait variability for individual traits). The species trait
 averages computed for each land use management regime separately were
 mutually correlated, showing the stable trait-based species ranking.
 Ranking stability of species trait averages was observed despite land use
 management changing absolute trait values and despite the tremendous
 intraspecific trait variability (causing substantial overlap of trait
 values for different species). For all treatments our measured species
 averages for LDMC and SLA were also stably ranked with species averages
 from the LEDA database. 4. Synthesis. Our results showed that species
 conserve the functional distances in different environmental conditions
 from where they were measured. Species trait averages can describe general
 trends in functional composition, although averaging reduces the
 ecologically interesting information of the intraspecific trait
 variability.
description: Variability of plant
 functional traits at Ohrazeni meadow experimentTrait values of plant
 individuals sampled in eight different treatments of the meadow
 experiment.Ohrazeni_Var_Traits_data.xlsx