cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.0n5v168
title: Data from: Diversity matters: effects of density compensation in pollination service during rainfall shift

description: 1. Extreme weather events are increasing in frequency due to the warming
 climate. Such extremities can jeopardise ecosystem services and create
 economic imbalances. Tropical developing countries are predicted to suffer
 the maximum consequences of such events. 2. We examined the impact of such
 an event – extreme rainfall fluctuation - on a critical ecosystem service
 – pollination, which can be intricately linked to a country’s economy. We
 performed this study in a dominant peri-urban vegetable hub of an
 agriculture-dependent developing country. 3. We found that the yield of
 all pollinator-dependent crops grown across a large spatial scale
 (district) over multiple years (six) drastically declined with the
 decrease in rainfall. 4. At the local scale, we found that the dominant
 crop (representative horticultural crop) had a significant drop in yield
 during drought, likely due to the production of fewer female flowers and a
 significant shift in the pollinator community. 5. We found that Trigona
 sp. (one of the four pollinators) was the critical pollinator positively
 influencing fruit to flower ratio (FFR) (an indicator of pollination
 service) in the normal rainfall year. However, despite its sharp decline
 during drought, the FFR remained unaffected. We found that during drought,
 Apis dorsata was crucial in maintaining FFR and compensated for the
 decline of the critical pollinator across 67% farmlands. 6. Our study
 demonstrates the role of ecosystem stabilising mechanism rescuing the
 crucial ecosystem service during climatic variability over the temporal
 scale.
description: pair_2014_For
 DryadThis file has
 information on all the farmland's flower numbers, average bee
 visitation, yield, and fruit information for the year
 2014pair_2015_For
 DryadThis file has
 information on all the farmland's flower numbers, average bee
 visitation, yield, and fruit information for the year
 2015.
DOI: 10.5061/dryad.08p2s85
title: Data from: Quantifying human presence in a heterogeneous urban landscape

description: Humans are a keystone species in urban ecosystems. Although the impact of
 human activities is increasingly reported in behavioural and evolutionary
 ecology, little is known about the effects of physical human presence per
 se. Of particular relevance is the extent to which human presence
 (sometimes referred to as human disturbance), is repeatable across the
 urban mosaic over time. We quantified human presence at fixed locations -
 here in a 15 meters radius of great tit nestboxes – within 6 urban and
 suburban study sites. While overall human presence did not differ between
 urban sites, it was significantly higher than in the suburban village.
 Moreover, considerable variance between fixed locations was observed
 within each site. We reported overall high repeatability of human presence
 for all sites (0.57 &lt; R &lt; 0.88, mean: 0.76, median: 0.77).
 We further simulated datasets of human presence made of an increasing
 number of counts, and demonstrated that 10 counts of human presence (each
 30-seconds long) made at each fixed location can generate a highly
 reliable indicator of human presence (R ≥ 0.6) for any urban site. We thus
 confirm that human presence is repeatable across the urban mosaic, thereby
 offering consistent cues to urban wildlife of human presence or absence in
 space and time. Importantly, our approach of human presence quantification
 allows for an effort-efficient approach to understand the effects of
 physical human presence at designated temporal timeframes, thereby
 allowing to reliably test the effects of human presence on the behaviour
 and ecology of urban wildlife.
description: data.Rcodes.Corsini2019This data archive contains data and R codes used in "Quantifying human presence in a heterogeneous urban landscape"(2019): specifically, repeatability tests via rptR package and simulation analysis together with all databases needed to perform the tests are included.
DOI: 10.5061/dryad.vm447nm
title: Data from: Maintenance of high genome integrity over vegetative growth in the fairy-ring mushroom Marasmius oreades

description: Most mutations in coding regions of the genome are deleterious, causing
 selection to favor mechanisms that minimize the mutational load over time
 [1–5]. DNA replication during cell division is a major source of new
 mutations. It is therefore important to limit the number of cell divisions
 between generations, particularly for large and long-lived organisms
 [6–9]. The germline cells of animals and the slowly dividing cells in
 plant meristems are adaptations to control the number of mutations that
 accumulate over generations [9–11]. Fungi lack a separated germline while
 harboring species with very large and long-lived individuals that appear
 to maintain highly stable genomes within their mycelia [8,12,13]. Here, we
 studied genomic mutation accumulation in the fairy-ring mushroom Marasmius
 oreades. We generated a chromosome-level genome assembly using a
 combination of cutting-edge DNA sequencing technologies, and re-sequenced
 40 samples originating from six individuals of this fungus. The low number
 of mutations recovered in the sequencing data suggests the presence of an
 unknown mechanism that works to maintain extraordinary genome integrity
 over vegetative growth in M. oreades. The highly structured growth pattern
 of M. oreades allowed us to estimate the number of cell divisions leading
 up to each sample [14,15], and from this data we infer an incredibly low
 per mitosis mutation rate (3.8 × 10-12 mutations per site and cell
 division) as one of several possible explanations for the low number of
 identified mutations.
description: Maror1_genome_assemblyVersion 1 genome assembly of the fairy ring mushroom Marasmius oreades.Maror1_transcriptome_assemblyVersion 1 transcriptome assembly of the fairy ring mushroom Marasmius oreades.Maror1.all.makerVersion 1 genome annotation of the fairy ring mushroom Marasmius oreades.
DOI: 10.5061/dryad.6kc0424
title: Data from: Natal conditions, lifespan and lifetime reproductive success of European Blackbirds

description: Even though much has been published in recent years on the factors
 affecting the lifespan and lifetime reproductive success of birds, there
 are still gaps in our knowledge. Here, we present the results of a
 long-term study of European Blackbirds which examined the effect of natal
 conditions on lifespan and lifetime reproductive success (expressed by the
 number of fledglings) of 152 nestlings (72 males and 80 females) ringed in
 the Stefan Żeromski Park in Szczecin (NW Poland). We have complete
 information regarding parental age, family brood (first-egg laying date,
 clutch size and hatching sequence), bird size, lifetime reproductive
 success, pair density and weather conditions during the natal year. For
 males, total fledgling production was the smaller, the later the laying
 date of the family brood, but increased with mean daily precipitation and
 pair density in the natal year. In the case of females, we did not find
 any significant relationships between their lifetime reproductive success
 and the above parameters. Male lifespan increased with mean daily
 precipitation and bird density, but only pair density had a positive
 effect on female lifespan. We suggest that for females, genetic factors
 could be more important for their reproductive success than for males. In
 addition, a Blackbird’s lifespan depends strongly on environmental
 factors.
description: Wysocki Blackbirds
 LRSraw data concerning
 factors that we analysed
DOI: 10.5061/dryad.h09hj3b
title: Data from: Individual variation in plasticity dulls transgenerational responses to stress

description: 1. Much research has shown that environmental stress can induce adaptive
 and maladaptive phenotypic changes in organisms that persist for multiple
 generations. Such transgenerational phenotypic plasticity shrouds our
 understanding of the long-term consequences of ongoing anthropogenic
 pressures. 2. Here, we evaluated within- and transgenerational phenotypic
 responses to food stress in the freshwater crustacean, Daphnia. We reared
 45 clones of Daphnia pulicaria each on high-quality Scenedesmus and
 low-quality (but also non-toxic) cyanobacteria (generation 1). Offspring
 produced by generation 1 adults were then reared on Scenedesmus
 (generation 2) and life history traits were measured across both
 generations. 3. The results show that Daphnia in generation 1 exhibited
 reduced fitness (i.e. delayed maturation, lower reproductive output,
 increased clutch interval) when reared in the presence of cyanobacteria as
 opposed to high-quality food. However, maternal stress had no clear
 influence on the fitness of offspring. That is, Daphnia in the second
 experimental generation had similar mean trait values, irrespective of
 whether their mothers were reared on cyanobacteria or high-quality food.
 4. Signals of transgenerational life history effects were obscured, in
 part, by extensive clonal variation among Daphnia in the direction of
 transgenerational responses to cyanobacteria (i.e. adaptive and
 maladaptive plasticity). Further analyses demonstrated that such
 individual variance in plasticity might be open to selection and
 potentially offer a means of contemporary adaptation to cyanobacteria.
 Taken together, our results denote a link between the overall strength of
 transgenerational responses to the environment and the potential for rapid
 evolution in populations.
description: SP18 life history
 dataResults of life history
 experiment using 45 Daphnia clones. Generation 1 treatments are
 Scenedesmus (S), Anabaena (A) and Microcystis (M). Results for Microcystis
 are not reported. Generation 2 treatments are maternal Anabaena (AS) and
 maternal Scenedesmus (SS). Letter on clone ID indicates lake of origin (A
 for Allequash, M for Mendota).
DOI: 10.5061/dryad.j42p0f5
title: Data from: Differentiating diploid and triploid individuals using single nucleotide polymorphisms genotyped by amplicon-sequencing

description: Triploidy can occur naturally or be induced in fish and shellfish during
 artificial propagation in order to produce sterile individuals. Fisheries
 managers often stock these sterile triploids as a means of improving
 angling opportunity without risking unwanted reproduction of the stocked
 fish. Additionally, the rearing of all-triploid individuals has been
 suggested as a means to reduce the possibility of escaped aquaculture fish
 interbreeding with wild populations. Efficient means of determining if an
 individual is triploid or diploid are therefore needed both to monitor the
 efficacy of triploidy inducing treatments and, when sampling fish from a
 body of water that has a mixture of diploids and triploids, to determine
 the ploidy of a fish prior to further analyses. Currently, ploidy is
 regularly measured through flow cytometry, but this technique typically
 utilizes a fresh blood sample. This study presents an alternative,
 cost-effective method of determining ploidy by analyzing
 amplicon-sequencing data for biallelic single-nucleotide polymorphisms
 (SNPs). For each sample, heterozygous genotypes are identified and the
 likelihoods of diploidy and triploidy are calculated based on the read
 counts for each allele. The accuracy of this method is demonstrated using
 triploid and diploid Brook Trout (Salvelinus fontinalis) genotyped with a
 panel of 234 SNPs and Chinook Salmon (Oncorhynchus tshawytscha) genotyped
 with a panel of 298 SNPs following the GT-seq methodology of amplicon
 sequencing.
description: allele_counts_all_samplesThis contains allele counts for known ploidy and presumed diploid samples genotyped by GT-seq.diff_dip_trip_amplicon_seq.zip
DOI: 10.5061/dryad.58cs77r
title: Data from: Endocrine and metabolic disorders in survivors of childhood cancers and health-related quality of life and physical activity

description: Context: Childhood cancer survivors experience chronic health conditions
 that impact health related quality of life (HRQOL) and participation in
 optimal physical activity. Objective: The study aimed to determine
 independent effects of endocrine and metabolic disorders on HRQOL and
 physical activity. Design, Setting, and Patients: Retrospective cohort
 with longitudinal follow-up of survivors of childhood cancer enrolled in
 the North American Childhood Cancer Survivor Study. Main Outcome Measures:
 Medical Outcomes Short Form-36 estimated HRQOL while participation in
 physical activity was dichotomized as meeting or not meeting
 recommendations from the Center for Disease Control and Prevention. Log
 binomial regression evaluated the association of each endocrine/metabolic
 disorder with HRQOL scales and physical activity. Results: Of 7,287
 survivors, median age 32 years (18-54) at their last follow-up survey,
 4,884 (67%) reported one or more endocrine/metabolic disorders. Survivors
 with either disorder were significantly more likely to be male, older,
 received radiation treatment, and experience other chronic health
 conditions. After controlling for covariates, survivors with any
 endocrine/metabolic disorder were more likely to report poor physical
 function risk ratio ([RR] 1.25; 95% confidence interval [CI] 1.05-1.48),
 increased bodily pain (RR 1.27; CI 1.12-1.44), poor general health (RR
 1.49; CI 1.32-1.68) and lower vitality (RR 1.21; CI 1.09-1.34) compared to
 survivors without. The likelihood of meeting recommended physical activity
 was lower among survivors with growth disorders (RR 0.90; CI=0.83-0.97),
 osteoporosis (RR 0.87; CI=0.76-0.99), and overweight/obesity (RR 0.92; CI
 0.88-0.96). Conclusion: Endocrine and metabolic disorders are
 independently associated with poor HRQOL and sub-optimal physical activity
 among childhood cancer survivors.
description: Supplemental
 TablesDescription of cancer
 survivors after exclusion of overweight/obesity and subsequent functional
 outcomes data without these 2 conditions within the endocrine
 cohortSupplemental
 data.docx
DOI: 10.5061/dryad.gc90861
title: Data from: Grassland harvesting alters ant community trophic structure: an isotopic study in tallgrass prairies

description: Disturbances have long been recognized as important forces for structuring
 natural communities but their effects on trophic structure are not well
 understood, particularly in terrestrial systems. This is in part because
 quantifying trophic linkages is a challenge, especially for small
 organisms with cryptic feeding behaviors such as insects, and often relies
 on conducting labor-intensive feeding trials or extensive observations in
 the field. In this study, we used stable isotopes of carbon and nitrogen
 to examine how disturbance (annual biomass harvesting) in tallgrass
 prairies affected the trophic position, trophic range, and niche space of
 ants, a widespread grassland consumer. We hypothesized that biomass
 harvest would remove important food and nesting resources of insects thus
 affecting ant feeding relationships and trophic structure. We found shifts
 in the feeding relationships inferred by isotopic signatures with harvest.
 In particular, these shifts suggest that ants within harvest sites
 utilized resources at lower trophic levels (possibly plant-based resources
 or herbivores), expanded trophic breadth, and occupied different niche
 spaces. Shifts in resource use following harvest could be due to
 harvest-mediated changes in both the plant and arthropod communities that
 might affect the strength of competition or alter plant nitrogen
 availability. Because shifts in resource use alters the flow of nutrients
 across the food web, disturbance effects on ants could have
 ecosystem-level consequences through nutrient cycling.
description: Kim-Bartel-Gratton-DataThese data are the average stable isotope values for ants, plants, and soil used in the study. We also include information on the abundances of ants and leaf hoppers collected at each site.
DOI: 10.5061/dryad.d880g55
title: Data from: Pair bonds, reproductive success and rise of alternate mating strategies in a social carnivore.

description: Monogamy is commonly observed across a wide variety of species and taxa
 and arises when young are altricial, parental investment in young is high,
 and mate monopolization is generally not possible. In such species, pairs
 may bond for multiple breeding seasons while successfully rearing young.
 Individuals, however, may attempt to bypass the dominant mating strategy
 particularly when breeding opportunities are limited. Currently, we do not
 know how pair bond duration affects the efficacy of alternative mating
 strategies in populations with a monogamous mating system. Additionally,
 inferences about pair bond effects on reproductive success (i.e., both
 clutch size and recruitment) are largely limited to long-lived birds and
 little is known about effects on mammalian cooperative breeders. I used
 genetic sampling and pedigrees to examine the effects of pair bond
 duration on reproductive success (i.e., litter size, recruitment) and
 mating strategies in a population of gray wolves (Canis lupus) in Idaho
 USA. There was a positive, marginally significant relationship between
 pair bond duration and apparent survival of offspring. Increased pair bond
 duration was also associated with a dampening in the prevalence of other
 alternative mating strategies such as sneaker males and polygamy. The
 selective advantage of alternative mating strategies are a combination of
 population, group (for applicable species), individual, and social
 influences such as pair bonds. The distribution of pair bonds in a
 monogamous population affects the selective advantage, and hence
 frequency, of various mating strategies observed.
description: Ausband_2019_pair_bonds_dataData from Ausband 2019, pair bonds.
DOI: 10.5061/dryad.b47n414
title: Data from: Predicting the non-linear collapse of plant-frugivore networks due to habitat loss

description: Habitat loss can trigger cascades of secondary extinctions, changing the
 organization of interacting assemblages. Until recently, most extinction
 models in interaction systems had limited ecological realism. Here, we
 estimate a realistic sequence of species extinctions resulting from
 habitat loss to assess its impacts on the structure of frugivory networks
 from the Brazilian Atlantic Forest. We show that realistic and random
 extinctions led to similar patterns. We also identified a threshold in the
 response of network structure to habitat loss. When forest cover was
 reduced to less than 40% of the landscape, network organization changed
 dramatically. Hence, the number of species being lost, rather than the
 order of species extinctions, is the key determinant of its impacts on the
 organization of frugivory networks. We highlight the need to conserve
 around 40% of forest cover to keep the basic organization of frugivory
 networks, a threshold already reached at the best-preserved Brazilian
 Atlantic Forest bioregion.
description: Matrices of
 plant-frugivore interactionsBinary matrices of
 interactions between frugivorous birds (rows) and plants (columns) from
 three sites in Parque Estadual Intervales (bottom of valley, middle slope
 and hilltop), as well as the combined matrix that combines data from the
 three sites. Presences of interaction between pairs of species are
 depicted by 1, while absences of interaction are depicted by
 0.interaction_matrices.xlsx
DOI: 10.5061/dryad.r2n4mj1
title: Data from: What's left after the hype? an empirical approach comparing the distributional properties of traditional and virtual currency exchange rates

description: This paper provides an empirical analysis of the distributional properties
 and statistical regularities of virtual, intra-virtual and traditional
 currency exchange rates. To perform the analysis, the most relevant
 virtual, intra-virtual and foreign currency exchange rates between October
 2015 and December 2018 are examined. The analysis shows that, in spite of
 their differing mode of formation, daily log-returns of all currency types
 share tent-shaped empirical densities, one of the characteristics of a
 Laplace distribution at semi-log scale. This peculiar property has also
 been examined thoroughly in other fields of economic literature. Moreover,
 the empirical results show that virtual and traditional currencies hold
 the same functional form, even after the 2018 hype. However, in spite of
 these similarities virtual and intra-virtual currencies display fatter
 tails and steeper towering peaks than regular foreign currencies which
 underscores the rather speculative nature of this asset class.
description: Raw Data
 filesThe data are collected
 from the poloniex.com database as RawJSON format and through ecb.europa.eu
 statistics website in XML format. The software used to export the data
 files and to make them available on this public repository was
 Mathematica.Data.zip
DOI: 10.5061/dryad.8fs1505
title: Data from: Different sensitivity and threshold in response to nitrogen addition in four alpine grasslands along a precipitation transect on the Northern Tibetan Plateau

description: The increase of atmospheric nitrogen (N) deposition has resulted in some
 terrestrial ecological changes. In order to identify the response of
 sensitive indicators to N input and estimate the sensitivity and
 saturation thresholds in alpine grasslands, we set up a series of
 multi-level N addition experiments in four types of alpine grasslands
 (alpine meadow (AM), alpine meadow-steppe (AMS), alpine steppe (AS), and
 alpine desert steppe (ADS)) along with a decreasing precipitation gradient
 from east to west on the Northern Tibetan Plateau. N addition only had
 significant effects on species diversity in AMS, while had no effects on
 the other three alpine grasslands. Aboveground biomass of grasses and
 overall community in ADS were enhanced with increasing N addition, but
 such effects did not occur in AS. Legume biomass in ADS and AS showed
 similar unimodal patterns, and exhibited a decreasing tend in AM.
 Regression fitting showed that the most sensitive functional groups were
 grasses, and the N saturation thresholds were 103, 115, 136 and 156 kg N
 hm-2 year-1 in AM, AMS, AS and ADS, respectively. This suggests that
 alpine grasslands become more and more insensitive to N input with
 precipitation decrease. N saturation thresholds also negatively correlated
 with soil N availability. N sensitivity differences caused by
 precipitation and nutrient availability suggest that alpine grasslands
 along the precipitation gradient will respond differently to atmospheric N
 deposition in the future global change scenario. This different
 sensitivity should also be taken into consideration when using N
 fertilization to restore degraded grasslands.
description: Raw data
 fileRaw
 data.xlsx