cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.pb637
title: Data from: The gastropod family Aporrhaidae in the Lower Cretaceous of the Neuquén Basin, west-central Argentina

description: The gastropod fauna of the Lower Cretaceous of the Argentinian Neuquén
 Basin contains three aporrhaid species. Protohemichenopus neuquensis
 Camacho, 1953 is the most abundant, longest-lived, and most geographically
 widespread of the aporrhaids of this basin, and its protoconch and early
 teleoconch whorls were unknown until now. The new species Dimorphosoma
 weaveri features convex to subtly angular spire whorls with opisthocyrt
 collabral ribs that are more prominent towards the mid-whorl, a bicarinate
 last whorl with small rounded nodes on the adapical carina, a simple,
 falcate labral wing which is more or less rectangular proximally and
 tapering and curving towards its distal end, and a short, straight
 rostrum. Tylostoma jaworskii Weaver, 1931 is now placed in Harpagodes, and
 other previous, scattered, coeval records of this genus in the basin are
 now recognized as part of this single species. It is believed that whereas
 H. jaworskii preferred shallower-water carbonate settings of low to
 moderate energy, P. neuquensis and D. weaveri favored siliciclastic to
 mixed clastic-carbonate environments, in deeper waters. In spite of its
 endemic elements, this aporrhaid association depicts a predominantly
 Tethyan influence.
description: Supplemental Data
 1List
 of previous Early Cretaceous aporrhaid records from South
 America—excluding Argentina—and Antarctica.Cataldo_Supplemental_Data_1.rtfSupplemental Data 2List of materials included in each of the three aporrhaid species treated in the text, organized by locality (Fig. 1) and indicating ammonoid zones. Additional materials are from museum collections.Cataldo_Supplemental_Data_2.rtfSupplemental Data 3Measurements of types and other specimens.Cataldo_Supplemental_Data_3.rtf
DOI: 10.5061/dryad.7mg3h
title: Data from: A mix-and-click method to measure amyloid-β concentration with sub-micromolar sensitivity

description: Aggregation of amyloid-β (Aβ) protein plays a central role in
 Alzheimer's disease. Because protein aggregation is a
 concentration-dependent process, rigorous investigations require accurate
 concentration measurements. Owing to the high aggregation propensity of Aβ
 protein, working solutions of Aβ are typically in the low micromolar
 range. Therefore, an ideal Aβ quantification method requires high
 sensitivity without sacrificing speed and accuracy. Absorbance at 280 nm
 is frequently used to measure Aβ concentration, but the sensitivity is low
 with only one tyrosine and no tryptophan residues in the Aβ sequence. Here
 we present a fluorescence method for Aβ quantification using
 fluorescamine, which gives high fluorescence upon reaction with primary
 amines. We show that, using hen egg white lysozyme as a standard,
 fluorescence correlates linearly with primary amine concentration across a
 wide range of fluorescamine concentrations, from 62.5 to 1000 µM. The
 maximal sensitivity of detection is achieved at a fluorescamine
 concentration of 250 µM or higher. The fluorescamine method is compatible
 with the presence of dimethyl sulfoxide, which is commonly used in the
 preparation of Aβ oligomers, and limits the use of absorbance at 280 nm
 due to its high background reading. Using aggregation kinetics, we show
 that the fluorescamine method gives accurate concentration measurements at
 low micromolar range and leads to highly consistent aggregation data. We
 recommend the fluorescamine assay to be used for routine and on-the-fly
 concentration determination in Aβ oligomerization and fibrillization
 experiments.
description: All
 dataXue_et_al_data_2017_07_12.xls
DOI: 10.5061/dryad.cv240
title: Data from: Sex-specific estimates of dispersal show female philopatry and male dispersal in a promiscuous amphibian, the alpine salamander (Salamandra atra)

description: Amphibians display wide variations in life-history traits and life cycles
 that should prove useful to explore the evolution of sex-biased dispersal,
 but quantitative data on sex-specific dispersal patterns are scarce. Here
 we focused on Salamandra atra, an endemic alpine species showing peculiar
 life-history traits. Strictly terrestrial and viviparous, the species has
 a promiscuous mating system and females reproduce only every three to four
 years. In the present study, we provide quantitative estimates of
 asymmetries in male vs female dispersal using both field-based
 (mark-recapture) and genetic approaches (detection of sex-biased dispersal
 and estimates of migration rates based on the contrast in genetic
 structure across sexes and age classes). Our results revealed a high level
 of gene flow among populations, which stems exclusively from male
 dispersal. We hypothesize that philopatric females benefit from being
 familiar with their natal area for the acquisition and defence of an
 appropriate shelter, while male dispersal has been secondarily favoured by
 inbreeding avoidance. Together with other studies on amphibians, our
 results indicate that a species' mating system alone is a poor
 predictor of sex-linked differences in dispersal, in particular for
 promiscuous species. Further studies should focus more directly on the
 proximate forces that favour or limit dispersal to refine our
 understanding of the evolution of sex-biased dispersal in animals.
description: Microsatellite_dataGenotypic data of the 5 studied populations, based on 10 microsatellite loci. The sex of each individual is specified (M=Male, F=Female, J=Juvenile).Capture_location_datasetCapture location dataset. Description in the enclosed readme file.
DOI: 10.5281/zenodo.18374494
title: Urban Inundation Forecasting from Sparse Drainage-Network Hydrodynamic States: A Physics-Constrained Graph–LSTM Surrogate Model

description: The data uploaded this time are the foundational data used in the process of building the physics-constrained Graph-LSTM surrogate model for urban inundation forecasting from sparse drainage-network hydrodynamic states. These data provide the necessary inputs for model construction and validation, mainly including the structural attributes of the drainage network, time-series observations of hydrodynamic states, topographic information, rainfall time-series inputs, and corresponding inundation monitoring or simulation results. They support the research on achieving efficient and accurate urban inundation simulation and forecasting from a perspective that integrates data-driven methods with physical constraints.
DOI: 10.5281/zenodo.18374495
title: Urban Inundation Forecasting from Sparse Drainage-Network Hydrodynamic States: A Physics-Constrained Graph–LSTM Surrogate Model

description: The data uploaded this time are the foundational data used in the process of building the physics-constrained Graph-LSTM surrogate model for urban inundation forecasting from sparse drainage-network hydrodynamic states. These data provide the necessary inputs for model construction and validation, mainly including the structural attributes of the drainage network, time-series observations of hydrodynamic states, topographic information, rainfall time-series inputs, and corresponding inundation monitoring or simulation results. They support the research on achieving efficient and accurate urban inundation simulation and forecasting from a perspective that integrates data-driven methods with physical constraints.
DOI: 10.5061/dryad.1768j
title: Data from: Restoring fire to grasslands is critical for migrating shorebird populations

description: Fire is a disturbance process that maintains the structure and function of
 grassland ecosystems while sustaining grassland biodiversity. Conversion
 of grasslands to other land uses coupled with altered disturbance regimes
 have greatly diminished the habitat available to many grassland dependent
 species. These changes have been linked to declines in breeding bird
 populations, but may also be critical for migrating bird populations such
 as those shorebird species that depend on mesic grasslands during
 migration. We examined migratory shorebird use of burned grasslands in the
 southern Great Plains of North America using DISTANCE sampling to estimate
 and compare bird densities across recently burned and not recently burned
 landscapes (1-5 years post fire). We conducted two surveys per week for
 8-10 weeks along a 54 km route starting at the end of March and concluding
 in mid-May during 2014-2015. We encountered 2,509 total shorebirds in
 recently burned areas compared to 130 individuals in areas that were
 unburned. Fire was a major attractant for our three focal species with
 American golden-plover (Pluvialis dominica), upland sandpiper (Bartramia
 longicauda), and killdeer (Charadrius vociferus) densities of 20.48,
 11.09, and 26.09 birds per km2 in burned areas compared with 0.00, 1.27,
 and 0.92 birds per km2 in unburned areas, respectively. This research
 illustrates the importance of burned grassland for migrating shorebirds, a
 phenomenon that has largely gone unreported previously. Generally, these
 findings add to a body of knowledge that demonstrates the value of
 managing grasslands with historic disturbances that vary over space and
 time. The application of these findings should improve decision-making for
 shorebird conservation and provides evidence that prescribed fire planning
 should include consideration for breeding, transient, and non-breeding
 populations that vary in their temporal use of the landscape.
description: Shorebird detections for
 three speciesShorebird species,
 perpendicular distance to species, date, time post fire, and number of
 individuals in the cluster.shorebirddata.xlsx
DOI: 10.5061/dryad.1860s
title: Data from: Balance between inbreeding and outcrossing in a nannandrous species, the moss Homalothecium lutescens

description: Epiphytic dwarf males on the females present a possible solution to the
 problem of short fertilization distances in mosses. However, leptokurtic
 spore dispersal makes dwarf males likely to be closely related to their
 host shoot, with an accompanying risk of inbreeding. The capacity of a
 female to harbour a high number of different dwarf males suggests that
 there may be mechanisms in place that counteract inbreeding, such as
 polyandry and post-fertilization selection. We have genotyped sporophytes,
 female host shoots and dwarf males in four populations of the moss
 Homalothecium lutescens. We found no evidence of selective sporophyte
 abortion based on level of heterozygosity. The occurrence of entirely
 homozygous sporophytes together with significantly positive inbreeding
 coefficients in three of the populations (mean FIS between 0.48 and 0.64)
 suggest frequent mother–son mating events. However, 23% of all sampled
 sporophytes had a higher level of heterozygosity compared with the mean
 expected heterozygosity at the population level. Polyandry was frequent,
 on average 59% of the sporophytes on a female shoot were sired by distinct
 fathers. In conclusion, sporadic fertilizations by dwarf males originating
 from nonhost female shoots appear to counteract strong inbreeding.
description: SNP
 genotypesSNP genotypes of female
 shoots, dwarf males and sporophytes sampled from four populations of the
 moss Homalotheciums lutescens in southern Sweden.SNP_genotypes.xlsxSNP marker sequencesSNP marker sequences for 68 markers, developed for the moss Homalothecium lutescens.SNP_marker_seq.txt
DOI: 10.5061/dryad.34dk0
title: Data from: Physiological thermal limits predict differential responses of bees to urban heat-island effects

description: Changes in community composition are an important, but hard-to-predict,
 effect of climate change. Here, we use a wild-bee study system to test the
 ability of critical thermal maxima (CTmax, a measure of heat tolerance) to
 predict community responses to urban heat-island effects in Raleigh, NC,
 USA. Among 15 focal species, CTmax ranged from 44.6 to 51.3°C and was
 strongly predictive of population responses to urban warming across 18
 study sites (r2 = 0.44). Species with low CTmax declined the most. After
 phylogenetic correction, solitary species and cavity-nesting species
 (bumblebees) had the lowest CTmax, suggesting that these groups may be
 most sensitive to climate change. Community responses to urban and global
 warming will likely retain strong physiological signal, even after decades
 of warming during which time lags and interspecific interactions could
 modulate direct effects of temperature.
description: HamblinEtAl_Data1 Bee CTmax, field abundance, and site temperatures HamblinEtAl_Data2 10 gene alignment for phylogenetic reconstruction HamblinEtAl_Data3 Best partition scheme HamblinEtAl_Data4 Best tree <strong>HamblinEtAl_CTmax_raw</strong> CTmax data for individual bees
DOI: 10.5061/dryad.189f4
title: Data from: Genetic monitoring reveals temporal stability over 30 years in a small, lake resident brown trout population

description: Knowledge of the degree of temporal stability of population genetic
 structure and composition is important for understanding microevolutionary
 processes and for addressing issues on human impact on natural
 populations. We know little about how representative single samples in
 time are to reflect population genetic constitution. We explore the
 temporal genetic variability patterns over a 30-year period of annual
 sampling of a lake resident brown trout (Salmo trutta) population,
 covering 37 consecutive cohorts and five generations. Levels of variation
 remain largely stable over this period with no indication of
 substructuring within the lake. We detect genetic drift, however, and the
 genetically effective population size (Ne) was assessed from allele
 frequency shifts between consecutive cohorts using an unbiased estimator
 that accounts for the effect of overlapping generation. The overall mean
 Ne is estimated as 74. We find indications that Ne varies over time, but
 th ere is no obvious temporal trend. We also estimated Ne using a
 one-sample approach based on linkage disequilibrium (LD) not accounting
 for the effect of overlapping generations. Combining one-sample estimates
 for all years gives an Ne estimate of 76. This similarity between
 estimates may be coincidental or reflecting a general robustness of the LD
 approach to violations of the discrete generations assumption. In contrast
 to the observed genetic stability, body size and catch per effort have
 increased over the study period. Estimates of annual effective number of
 breeders (Nb) correlated with catch per effort suggesting that genetic
 monitoring can be used for detecting fluctuations in abundance.
description: Charlier_Blanktjärnen_Brown trout_Heredity_DRYAD
DOI: 10.5061/dryad.sh2qf
title: Data from: Nosema ceranae can infect honey bee larvae and reduces subsequent adult longevity

description: Nosema ceranae causes a widespread disease that reduces honey bee health
 but is only thought to infect adult honey bees, not larvae, a critical
 life stage. We reared honey bee (Apis mellifera) larvae in vitro and
 provide the first demonstration that N. ceranae can infect larvae and
 decrease subsequent adult longevity. We exposed three-day-old larvae to a
 single dose of 40,000 (40K), 10,000 (10K), zero (control), or 40K
 autoclaved (control) N. ceranae spores in larval food. Spores developed
 intracellularly in midgut cells at the pre-pupal stage (8 days after egg
 hatching) of 41% of bees exposed as larvae. We counted the number of N.
 ceranae spores in dissected bee midguts of pre-pupae and, in a separate
 group, upon adult death. Pre-pupae exposed to the 10K or 40K spore
 treatments as larvae had significantly elevated spore counts as compared
 to controls. Adults exposed as larvae had significantly elevated spore
 counts as compared to controls. Larval spore exposure decreased longevity:
 a 40K treatment decreased the age by which 75% of adult bees died by 28%.
 Unexpectedly, the low dose (10K) led to significantly greater infection
 (1.3 fold more spores and 1.5 fold more infected bees) than the high dose
 (40K) upon adult death. Differential immune activation may be involved if
 the higher dose triggered a stronger larval immune response that resulted
 in fewer adult spores but imposed a cost, reducing lifespan. The impact of
 N. ceranae on honey bee larval development and the larvae of naturally
 infected colonies therefore deserve further study.
description: Supporting
 InformationSix Excel spreadsheets
 containing raw data used for experimental and statistical analysis. Please
 see each Excel spreadsheet file for a brief description, in conjunction
 with the Methods section of the manuscript for specific details on how
 data was obtained and analyzed.
DOI: 10.5061/dryad.4h4b82m
title: Data from: Organic management in apple orchards: higher impacts on biological control than on pollination

description: 1. Intensive agricultural management negatively affects both natural
 enemies of pests and pollinators. Such management also has the potential
 to adversely affect the ecosystem services that these communities confer.
 Organic management has been proposed as an alternative method to mitigate
 such problems by restoring the services provided by arthropod communities.
 2. We evaluated the effect of organic management on two ecosystem services
 provided by arthropods in apple orchards: pollination and biological
 control. We used relative decrease in colonies to assess biological
 control of the major apple aphid pest, and measured pollination through
 fruit set, number of seeds per apple and pollinator visitation.
 Additionally, we monitored the organisms responsible for pollination and
 biological control services and established the impact of pollination on
 apple quality. 3. Our results show a strong effect of organic management
 on biological control and on the temporal dynamic of natural enemy-pest
 interactions. Parameters such as aphid colony suppression, first and
 repeated occurrence of natural enemies, natural enemy species evenness and
 natural enemy abundance were significantly higher in organic compared to
 conventional orchards. Predatory bugs were the natural enemies
 best-affected by organic management and played a key role in early
 predation of aphids preventing colony growth. 4. In this instance,
 pollination was not influenced by organic management. It is likely due to
 the temporal scale at which this service is delivered, a scale that
 differs greatly from biological control, combined with differences in the
 dispersal capacity of the organisms involved. Fruit weight, calcium,
 potassium and magnesium content were positively affected by pollination
 success. 5. Synthesis and applications. We found that organic management
 in apple orchards preserves the local natural enemy community, and
 specifically predatory bug populations, essential for early aphid colony
 suppression. Our results suggest that, in conventional orchards, local
 management options that decrease or even eliminate pesticide use early in
 the season would increase the biological control of aphids. This would
 lead to reduction in apple damage at harvest. Our results on pollination
 success indicate that the implementation of organic management at orchard
 scale does not enhance pollination services for apple growers.
description: Data Porcel et al.
 (2018) JAEData from: Organic
 management in apple orchards: higher impacts on biological control than on
 pollination, Porcel, Mario, Andersson, Georg, Pålsson, Joakim, Tasin,
 Marco
DOI: 10.5061/dryad.ms38c8k
title: Data from: Experimental brood enlargement differentially influences the magnitude of the corticosterone stress response in closely related, co‐occurring songbirds

description: 1. Rearing environments can shape offspring phenotype across taxa, yet
 little is known about how brood size influences hypothalamic-pituitary
 axis functioning, whether its expression trades off with growth, and the
 degree to which these relationships vary between species. 2. We evaluated
 how brood size influenced nestling physiological (glucocorticoids) and
 somatic traits (growth), and the extent to which these relationships
 differed between two closely related, sympatric songbirds when
 experiencing identical rearing environments. Specifically, we used a
 cross-fostering approach to alter brood size and create an experimental
 gradient of nestmate competition, and then tested whether experimentally
 manipulated brood sizes resulted in nestlings with altered concentrations
 of corticosterone and if corticosterone responses traded off with growth.
 3. Nestlings of both species experienced elevated concentrations of
 baseline and stressor-induced corticosterone when raised in enlarged
 broods, relative to control and reduced broods, but neither measurement
 was found to trade off with growth or be linked to survival to fledging.
 4. In contrast, we found divergence in the magnitude of the corticosterone
 stress response between species across all brood treatments, with greater
 stressor-induced corticosterone concentrations found in the Violet-green
 Swallow (Tachycineta thalassina) relative to the closely related Tree
 Swallow (T. bicolor). 5. Our study demonstrated that brood size can lead
 to changes in offspring corticosterone concentrations in swallows, and
 that nestlings of sympatric species, even those that are closely related
 and ecologically similar, can diverge in their corticosterone stress
 response when experiencing identical rearing conditions. 6. We conclude
 that corticosterone appears to play a key role for balancing energetic
 demands that arise in the face of nestmate competition in Tachycineta
 swallows, and that elevated concentrations of corticosterone may enhance
 offspring survival during challenging environmental conditions, such as
 when brood competition is strong.
description: Dryad archive
 data_1_metadataDryad archive
 data_2_individuals dataDryad archive
 data_3_sample units data