cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.1fc75v6
title: Data from: Scaling up the effects of inbreeding depression from individuals to metapopulations

description: 1. Inbreeding is common in nature, and many laboratory studies have
 documented that inbreeding depression can reduce the fitness of
 individuals. Demonstrating the consequences of inbreeding depression on
 the growth and persistence of populations is more challenging because
 populations are often regulated by density- or frequency-dependent
 selection and influenced by demographic and environmental stochasticity. A
 few empirical studies have shown that inbreeding depression can increase
 extinction risk of local populations. The importance of inbreeding
 depression at the metapopulation level has been conjectured based on
 population-level studies but has not been evaluated. 2. We quantified the
 impact of inbreeding depression affecting the fitness of individuals on
 metapopulation persistence in heterogeneous habitat networks of different
 sizes and habitat configuration in a context of natural butterfly
 metapopulations. 3. We developed a spatial individual-based simulation
 model of metapopulations with explicit genetics. We used Approximate
 Bayesian Computation to fit the model to extensive demographic, genetic,
 and life-history data available for the well-studied Glanville fritillary
 butterfly (Melitaea cinxia) metapopulations in the Åland islands in SW
 Finland. We compared 18 semi-independent habitat networks differing in
 size and fragmentation. 4. The results show that inbreeding is more
 frequent in small habitat networks, and consequently, inbreeding
 depression elevates extinction risks in small metapopulations.
 Metapopulation persistence and neutral genetic diversity maintained in the
 metapopulations increase with the total habitat amount in and mean patch
 size of habitat networks. Dispersal and mating behavior interact with
 landscape structure to determine how likely it is to encounter kin while
 looking for mates. 5. Inbreeding depression can decrease the viability of
 small metapopulations even when they are strongly influenced by stochastic
 extinction-colonization dynamics and density-dependent selection. The
 findings from this study support that genetic factors, in addition to
 demographic factors, can contribute to extinctions of small local
 populations and also of metapopulations.
description: Matlab code for the
 individual-based simulation modelThe simulation code
 consists of 18 m-files and one program written in C. This folder also
 contains input data used in the manuscript. The main simulation program is
 variance_model.m, which calls 16 sub-models. master_wn_125.m is where the
 user can specify input parameter values and run the program. This code was
 developed in Matlab 2016b.matlab_code.zip
DOI: 10.5061/dryad.nh07v50
title: Data from: How does spatial resolution affect model performance? A case for ensemble approaches for marine benthic mesophotic communities

description: Aim: To investigate how changing grid size can alter model predictions of
 the distribution of mesophotic taxa and how it affects different modelling
 methods. Location: Ningaloo Marine Park, Western Australia. Taxon: Benthic
 mesophotic taxa: corals, macroalgae, and sponges. Methods: We determined
 the distributions of the major benthic taxonomic groups: corals,
 macroalgae, and sponges, using a number of modelling techniques and an
 ensemble using the ‘sdm’ R package. A range of grid sizes were used (10 m,
 50 m, 100 m, and 250 m) to identify how model predictions were altered.
 Models were evaluated using the area under the curve of a receiver
 operator characteristic plot (AUC) and the true skill statistic (TSS)
 using a spatially independent dataset. Results: Grid size had a large
 effect on model performance across the taxonomic groups. Model outputs
 were compared to null surfaces and 88.8% of models performed significantly
 better than null. Distribution of corals was best predicted using the
 finest grid size (10 m) regardless of modelling method, although a model
 ensemble produced the best results (AUC = 0.80, TSS = 0.52). Macroalgae
 and sponges were better predicted at coaster grids sizes (250 m). Again,
 ensembles performed well for both macroalgae (AUC = 0.83, TSS = 0.63) and
 sponges (AUC = 0.88, TSS = 0.66). Model ensembles maintained high accuracy
 across grid sizes and were consistently the best, or second-best,
 performing method. Main Conclusions: This study has shown how grid size
 should be considered when producing distribution models. Identifying the
 most relevant grid size and being aware of the influence it may have will
 provide more accurate predictions of the distributions of taxa. Ensemble
 methods maintained good performance across scenarios and thus provide a
 useful tool for conservation and management especially where single
 modelling methods showed high levels of variability.
description: Raster .tif
 filesThis folder contains all
 topographic GIS layers and the ensemble model outputs for the manuscript
 "How does spatial resolution affect model performance? A case for
 ensemble approaches for marine benthic mesophotic communities" by
 Turner et al., published in the Journal of
 Biogeography.tif.zip
DOI: 10.25934/pr00004874.5
title: Available IPD datapackage for study 'A Multicenter, Randomized, Double-blind, Placebo-controlled Trial of Golimumab, an Anti-TNFα Monoclonal Antibody, Administered Intravenously, in Subjects With Active Ankylosing Spondylitis'

description: The purpose of this study is to evaluate the efficacy of intravenously (administration of a fluid into the vein) administered golimumab 2 milligram per kilogram (mg/kg) in participants with active ankylosing spondylitis (chronic inflammatory disease of unknown etiology that involves the sacroiliac joints, and often the axial skeleton, entheses, and peripheral joints).
DOI: 10.5061/dryad.gm27hj3
title: Data from: Why did the buffalo cross the park? Resource shortages, but not infections, drive dispersal in female African buffalo (Syncerus caffer)

description: Dispersal facilitates population health and maintains resilience in
 species via gene flow. Adult dispersal occurs in some species, is often
 facultative, and is poorly understood, but has important management
 implications, particularly with respect to disease spread. Although the
 role of adult dispersal in spreading disease has been documented, the
 potential influence of disease on dispersal has received little attention.
 African buffalo (Syncerus caffer) are wide‐ranging and harbor many
 pathogens that can affect nearby livestock. Dispersal of adult buffalo has
 been described, but ecological and social drivers of buffalo dispersal are
 poorly understood. We investigated drivers of adult buffalo dispersal
 during a 4‐year longitudinal study at Kruger National Park, South Africa.
 We monitored the spatial movement of 304 female buffalo in two focal areas
 using satellite and radio collars, capturing each buffalo every 6 months
 to assess animal traits and disease status. We used generalized linear
 mixed models to determine whether likelihood of dispersal for individual
 female buffalo was influenced by animal traits, herd identity,
 environmental variables, gastrointestinal parasites, or microparasite
 infections. The likelihood and drivers of buffalo dispersal varied by
 herd, area, and year. In the Lower Sabie herd, where resources were
 abundant, younger individuals were more likely to disperse, with most
 dispersal occurring in the early wet season and during an unusually dry
 year, 2009. In the resource‐poor Crocodile Bridge area, buffalo in poor
 condition were most likely to disperse. Our findings suggest that
 dispersal of female buffalo is driven by either seasonal (Lower Sabie) or
 perhaps social (Crocodile Bridge) resource restriction, indicating
 resource limitation and dispersal decisions are tightly linked for this
 social ungulate. We found no direct effects of infections on buffalo
 dispersal, assuaging fears that highly infectious individuals might be
 more prone to dispersing, which could accelerate the spatial spread of
 infectious diseases.
description: drivers_dispersal_African_buffaloDispersal status, animal traits, herd identity, environmental variables, gastrointestinal parasites and microparasite infections data
DOI: 10.5061/dryad.5g8h6f6
title: Data from: Sympatry and interference of divergent Microbotryum pathogen species.

description: The impact of infectious diseases in natural ecosystems is strongly
 influenced by the degree of pathogen specialization and by the local
 assemblies of potential host species. This study investigated anther-smut
 disease, caused by fungi in the genus Microbotryum, among natural
 populations of plants in the Caryophyllaceae. A broad geographic survey
 focused on sites of the disease on multiple host species in sympatry.
 Analysis of molecular identities for the pathogens revealed that sympatric
 disease was most often due to co-occurrence of distinct, host-specific
 anther-smut fungi, rather than localized cross-species disease
 transmission. Flowers from sympatric populations showed that the
 Microbotryum spores were frequently moved between host species.
 Experimental inoculations to simulate cross-species exposure to the
 pathogens in these plant communities showed that the anther-smut pathogen
 was less able to cause disease on its regular host when following exposure
 of the plants to incompatible pathogens from another host species. These
 results indicate that multi-host / multi-pathogen communities are common
 in this system and they involve a previously hidden mechanism of
 interference between Microbotryum fungi, which likely affects both
 pathogen and host distributions.
description: Population locality dat
 Coordinates.StatusThis file provides
 location data for sites where multiple host species were present and
 movement of Microbotryum spores was quantified between
 them.
DOI: 10.5061/dryad.d502rb4
title: Data from: Effects of land use, topography, climate and socio-economic factors on geographical variation pattern of inland surface water quality in China

description: The deterioration of water quality has become a primary environmental
 concern worldwide. Understanding the status of water quality and
 identifying the influencing factors are important for water resources
 management. However, reported analyses have mostly been conducted in small
 and focused areas. It is still unclear if factors driving spatial
 variation in water quality would be different in extended spatial scales.
 In this paper, we analyzed spatial pattern of inland surface water quality
 in China using a dataset with four water quality parameters (i.e., pH, DO,
 NH4+-N and CODMn) and the water quality level. We tested the effects of
 anthropogenic (i.e., land use and socio-economic) and natural (i.e.,
 climatic and topographic) factors on spatial variation in water quality.
 The study concluded that the overall inland surface water quality in China
 was at level III (fair). Water quality level was strongly correlated with
 CODMn and NH4+-N concentration. In contrast to reported studies that
 suggested land use patterns were the determinants of inland surface water
 quality, this study revealed that both anthropogenic and natural factors
 played important roles in explaining spatial variation of inland surface
 water quality in China. Among the tested explanatory variables, mean
 elevation within watershed appeared as the best predictor for pH, while
 annual precipitation and mean air temperature were the most important
 explanatory variables for CODMn and DO, respectively. NH4+-N concentration
 and water quality level were most strongly correlated with the percent of
 forest cover in watershed. Compared to studies at smaller spatial scales,
 this study found different influencing factors of surface water quality,
 suggesting that factors may play different roles at different spatial
 scales of consideration. Therefore management policies and measures in
 water quality control must be established and implemented accordingly.
 Since currently adopted parameters for monitoring of inland surface water
 quality in China are largely influenced by natural variables, additional
 physicochemical and biological indicators are needed for a robust
 assessment of human impacts on water quality.
description: Water quality
 datawaterquality0318.xlsxenviromental dataenvironmental data.rar
DOI: 10.5061/dryad.gd702q0
title: Data from: Pesticide exposure affects flight dynamics and reduces flight endurance in bumblebees

description: The emergence of agricultural land use change creates a number of
 challenges that insect pollinators, such as eusocial bees, must overcome.
 Resultant fragmentation and loss of suitable foraging habitats, combined
 with pesticide exposure, may increase demands on foraging, specifically
 the ability to collect or reach sufficient resources under such stress.
 Understanding effects that pesticides have on flight performance is
 therefore vital if we are to assess colony success in these changing
 landscapes. Neonicotinoids are one of the most widely used classes of
 pesticide across the globe, and exposure to bees has been associated with
 reduced foraging efficiency and homing ability. One explanation for these
 effects could be that elements of flight are being affected, but apart
 from a couple of studies on the honeybee (Apis mellifera), this has
 scarcely been tested. Here, we used flight mills to investigate how
 exposure to a field realistic (10 ppb) acute dose of imidacloprid affected
 flight performance of a wild insect pollinator—the bumblebee, Bombus
 terrestris audax. Intriguingly, observations showed exposed workers flew
 at a significantly higher velocity over the first ¾ km of flight. This
 apparent hyperactivity, however, may have a cost because exposed workers
 showed reduced flight distance and duration to around a third of what
 control workers were capable of achieving. Given that bumblebees are
 central place foragers, impairment to flight endurance could translate to
 a decline in potential forage area, decreasing the abundance, diversity,
 and nutritional quality of available food, while potentially diminishing
 pollination service capabilities.
description: Kenna et al - Data
 OverviewTable shows an overview
 of metrics for each individual worker bumblebee that was selected for
 testing. If a worker did not feed it was not flown on a flight mill, and
 hence NA values will appear in all flight metric columns. The number of
 circuits each bee flew is detailed both before and after the data was
 cleaned. The data used in the manuscript are the cleaned data, indicated
 in the table by brackets stating '(after data cleaned)'. The
 treatment column is coded as C = Control or T = pesticide
 Treatment.Flight trial data
 filesThis zip folder contains
 all flight trial data files. There is a separate file for each flight
 trial. Each file has the necessary information to uniquely identify each
 bee, which can then be matched with the data overview spreadsheet. Each
 file also contains the raw data for the number of circuits flown by each
 bee and the interval time for each circuit. The velocity flown for each
 circuit has also been calculated and added.Filght Bout Data
 Files.zip
DOI: 10.5061/dryad.k540b54
title: Data from: A comprehensive large-scale assessment of fisheries bycatch risk to threatened seabird populations

description: 1. Incidental mortality (bycatch) in fisheries remains the greatest threat
 to many large marine vertebrates and is a major barrier to fisheries
 sustainability. Robust assessments of bycatch risk are crucial for
 informing effective mitigation strategies, but are hampered by missing
 information on the distributions of key life-history stages (adult
 breeders and non-breeders, immatures and juveniles). 2. Using a uniquely
 comprehensive biologging dataset (1697 tracks, 790 individuals), we
 assessed spatial overlap of four threatened seabird populations from South
 Georgia, with longline and trawl fisheries in the Southern Ocean. We
 generated monthly population-level distributions, weighting each
 life-history stage according to population age-structure based on
 demographic models. Specifically, we determined where and when birds were
 at greatest potential bycatch risk, and from which fleets. 3. Overlap with
 both pelagic and demersal longline fisheries was highest for black-browed
 albatrosses, then white-chinned petrels, wandering and grey-headed
 albatrosses, whereas overlap with trawl fisheries was highest for
 white-chinned petrels. 4. Hotspots of fisheries overlap occurred in all
 major ocean basins, but particularly the south-east and south-west
 Atlantic Ocean (longline and trawl), and south-west Indian Ocean (pelagic
 longline). Overlap was greatest with pelagic longline fleets in
 May–September, when fishing effort south of 25°S is highest, and with
 demersal and trawl fisheries in January-June. Overlap scores were
 dominated by particular fleets: pelagic longline – Japan, Taiwan; demersal
 longline and trawl - Argentina, Namibia, Falklands, South Africa; demersal
 longline – Convention for Conservation of Antarctic Marine Living
 Resources (CCAMLR) waters, Chile, New Zealand. 5. Synthesis and
 applications: We provide a framework for calculating
 appropriately-weighted population-level distributions from biologging
 data, which we recommend for future bycatch risk assessments. Many regions
 of high overlap corresponded with high seabird bycatch rates recorded by
 on-board observers, indicating that our approach reliably mapped relative
 bycatch risk. Implementation of effective bycatch mitigation in these
 high-risk regions varies considerably. Although potential bycatch risk
 appears to have decreased since the early 2000s, albatross and petrel
 populations from South Georgia and elsewhere are still declining,
 emphasizing the need for much improved observer coverage and monitoring of
 compliance with bycatch regulations.
description: Uruguay
 trawlUruguay trawl effort.
 Description provided in the first tab of the data file.Uruguay_trawl.xlsxNamibia trawlNamibia trawl effort. Description provided in first tab of the data file.Namibia_trawl.xlsx
DOI: 10.5061/dryad.kp524f5
title: Data from: Between- and within-individual variation of maternal thyroid hormone deposition in wild great tits (Parus major)

description: Maternal hormones are often considered a mediator of anticipatory maternal
 effects, namely mothers adjust maternal hormone transfer to prepare the
 offspring for the anticipated environment. The flexibility for mothers to
 adjust hormone transfer is therefore a prerequisite for such anticipatory
 maternal effects. Nevertheless, previous studies have only focused on the
 average differences of maternal hormone transfer between groups and
 neglected the substantial individual variation, despite that individual
 plasticity in maternal hormone transfer is actually the central
 assumption. In this study, we studied the between- and within-individual
 variation of maternal thyroid hormones (THs) in egg yolk of wild great
 tits (Parus major) and estimated the individual plasticity of maternal
 yolk THs across environmental temperature, clutch initiation dates and egg
 laying order using linear mixed-effects models. Interestingly, our models
 provide statistical evidence that the two main THs – the main biologically
 active hormone T3, and T4, which is mostly considered as a prohormone –
 exhibited different variation patterns. Yolk T3 showed significant
 between-individual variation on the average levels, in line with its
 previously reported moderate heritability. Yolk T4, however, showed
 significant between-clutch variation in the pattern over the laying
 sequence, suggesting a great within-individual plasticity. Our findings
 suggest that the role and function of the hormone within the endocrine
 axis likely influences its flexibility to respond to environmental change.
 Whether the flexibility of T4 deposition brings fitness advantage should
 be examined along with its potential effects on offspring, which remains
 to be further investigated.
description: Data of great tit
 maternal yolk THs in Bennekom, The NetherlandsThe data contains
 maternal yolk thyroid hormone levels measured from great tits in Bennekom,
 The Netherlands in 2013-2016, along with other variables used to analyze
 the between- and within-individual variation in thyroid hormones levels
 for this study.Individual variation in
 maternal THs_Hsu etal 2019.zip
DOI: 10.15468/dl.2dash3
title: Occurrence Download

description: A dataset containing 524235 species occurrences available in GBIF matching the query:
{
 "and" : [
 "GadmGid is one of (UKR.4_1, UKR.20_1)",
 "OccurrenceStatus is Present"
 ]
}

 The dataset includes 524235 records from 458 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001560-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.5m09t8k
title: Data from: A highly sensitive LC-MS/MS method to determine novel Bruton's tyrosine kinase inhibitor spebrutinib: application to metabolic stability evaluation

description: Spebrutinib (SBT) is a Bruton's tyrosine kinase inhibitor. SBT is
 currently in phase II and phase I clinical trials for the management of
 rheumatoid arthritis and chronic lymphocytic leukaemia, respectively. We
 developed and validated a liquid chromatography tandem mass spectrometry
 analytical method to quantify SBT and investigate its metabolic stability.
 SBT and the naquotinib as internal standard were isocratically eluted on a
 C18 column. The linearity of the developed method is 5-500 ng/mL (r2≥
 0.9999) in the human liver microsomes (HLMs) matrix. Good sensitivity was
 approved by the very low limit of detection (0.39 ng/mL). Inter- and
 intra- assay accuracy values of -1.41 to 12.44 and precision values of
 0.71 to 4.78%, were obtained. SBT was found to have an in vitro half-life
 (82.52 min) and intrinsic clearance (8.4 µL/min/mg) as computed following
 its incubation with HLMs. The latter finding, hypothesize that SBT could
 be deliberately expelled from the body unlike other related tyrosine
 kinase inhibitors. So, drug plasma level and kidney function should be
 monitored because of potential bioaccumulation. To the best of our
 knowledge, this is considered the first analytical method for SBT
 quantification using LC-MS/MS with application to metabolic stability
 evaluation.
description: SBT
 MRMMRM mass spectrum of
 spebrutinib.NQT
 MRMMRM mass spectrum of
 naquotinib (IS)SBT
 BlankBlank PI chromatogram of
 HLMs matrix.SBT
 LQCLower quality control of
 spebrutinibSBT Calibration
 curveSpebrutinib calibration
 curve standardsSBT
 LLQCSignal to noise ratio at
 LLQC level of spebrutinib.SBT metabolic
 stabilitySpebrutinib metabolic
 stability curve.