cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.pnvx0k6mq
title: Flight training and dietary antioxidants have mixed effects on the oxidative status of multiple tissues in a female migratory songbird

description: Birds, like other vertebrates, rely on a robust antioxidant system to
 protect themselves against oxidative imbalance caused by energy-intensive
 activities such as flying. Such oxidative challenges may be especially
 acute for females during spring migration, since they must pay the
 oxidative costs of flight while preparing for reproduction; however,
 little previous work has examined how the antioxidant system of female
 spring migrants responds to dietary antioxidants and the oxidative
 challenges of regular flying. We fed two diets to female European
 starlings, one supplemented with a dietary antioxidant and one without,
 and then flew them daily in a windtunnel for two weeks during the fall and
 spring migration periods. We measured the activity of enzymatic
 antioxidants (GPx, SOD, CAT), non-enzymatic antioxidant capacity (ORAC),
 and markers of oxidative damage (protein carbonyls and lipid
 hydroperoxides) in four tissues: pectoralis, leg, liver, and heart.
 Dietary antioxidants affected enzymatic antioxidant activity and lipid
 damage in the heart, and non-enzymatic antioxidant capacity in the
 pectoralis and protein damage in leg muscle. In general, birds fed less
 antioxidants appear to incur increased oxidative damage while upregulating
 non-enzymatic and enzymatic antioxidant activity, though these effects
 were strongly tissue-specific. We also found a significant diet x training
 interaction for enzymatic antioxidant activity in the leg, and strong
 trends for diet x training interactions for enzymatic antioxidant activity
 in the heart and liver. Flight-training may condition the antioxidant
 system of females to dynamically respond to oxidative challenges, and
 females during spring migration may shift antioxidant allocation to reduce
 oxidative damage.
DOI: 10.5061/dryad.7m0cfxptf
title: Data from: Quantifying trade-offs between butterfly abundance and movement in the management of agricultural set-aside strips

description: 1. Agri-environment schemes (AES) create small areas of habitat within
 agricultural landscapes to support biodiversity. Here, we study butterfly
 flight behaviour within linear AES features and examine whether
 differences in resource availability affect the speed, linearity or
 directionality of local movements, thereby affecting their contribution to
 landscape connectivity. 2. We surveyed butterflies within three basic
 (naturally regenerating) and three wildflower-sown linear field margin
 strips (0.09-0.15 ha) on a farm in North Yorkshire, UK, and mapped
 butterfly flight paths to quantify local displacement (movement speed),
 efficiency (linearity, turning angles), directionality (step orientation)
 and behaviour (time spent flying, nectaring). 3. Butterfly species
 richness was similar between margin types (estimated asymptotic species
 richness of 21.9 [CI: 15.0-77.7] for basic margins and 14.2 [CI:
 14.0-18.7] for wildflower-sown margins), but abundance was 78% higher in
 wildflower-sown margins. For the three most common species (meadow brown,
 Maniola jurtina (L.), ringlet, Aphantopus hyperantus (L.), and small
 white, Pieris rapae (L.); n = 233 paths), movements within both margin
 types were highly linear (median turning angle  45˚) and
 generally oriented along the length of the margin strip (median step
 orientation  27˚). Movements in basic margins were slightly more
 orientated along the length of the margin but we found no differences
 between margin types in speed, path linearity, turning angles or the
 proportion of time spent flying or nectaring. 4. We found strong
 channelling of movements along field margin strips regardless of
 management type, potentially aiding landscape connectivity. Providing
 field margin strips with additional foraging resources through wildflower
 sowing increases butterfly abundance without impeding local movement rates
 or efficiency.
description: <strong>Full details of datasets (incl. column names) can
 be found in README.txt</strong>
 <strong>Butterfly data:</strong>
 butterfly_flight_paths.csv: Flight path data for
 butterflies extra_butterfly_sightings.csv: Additional
 opportunistic butterfly observations sampling_dur.csv:
 Sampling duration of each margin per day
 <strong>Plant data:</strong>
 quadrat_survey.csv: Flower data collected through regular quadrat
 sampling point_survey.csv: Vegetation data collected
 through regular point sampling
DOI: 10.5061/dryad.6djh9w11d
title: The hidden potential of saprotrophic fungi in arable soil: Patterns of short-term stimulation by organic amendments

description: Saprotrophic fungi are abundant in soils of (semi-)natural ecosystems,
 where they play a major role in ecosystem functioning. On the contrary,
 saprotrophic fungal biomass is remarkably low in intensively managed soils
 and this can have a negative impact on soil functioning. Nevertheless,
 arable soils harbour a diverse pool of fungi, which can be stimulated by
 organic amendments. Management targeted towards increasing soil organic
 matter often coincides with an increase of fungal biomass, but it can take
 years before effects are seen. However, a rapid stimulation of fungal
 biomass at the start of the growing season could immediately benefit crop
 production, by improving nutrient availability, soil structure and
 suppression of soil-borne diseases. The objective of this study is to
 realize a rapid increase of saprotrophic fungal biomass with organic
 amendments. In controlled pot experiments, dried and milled organic
 materials of different quality were added to an arable sandy soil.
 Ergosterol-based fungal biomass and ITS2-based fungal community structure
 were measured over a period of two months. Wood sawdust of deciduous tree
 species and paper pulp resulted in a high and lasting increase of fungal
 biomass, as opposed to transient effects given by cover crops and other
 non-woody plant materials. Little or no stimulation of fungi was seen for
 coniferous wood sawdust and agro-industrial by-products. Nitrogen
 immobilization induced by sawdust and paper pulp was compensated by
 supplementing mineral nitrogen, which enhanced the stimulation of
 saprotrophic fungi. The composition of the stimulated fungi was influenced
 by the quality of organic amendments. In particular, deciduous wood
 sawdust and paper pulp favoured saprotrophic ascomycete fungi (mainly
 Sordariomycetes), with no increment in potential plant-pathogenic fungi.
 Overall, our results point at a good perspective to use woody materials as
 sustainable soil improver via stimulation of saprotrophic fungi.
description: See the description in the published article.
description: See the first sheet of the excel document.
 Sequencing data at ENA accession number PRJEB33534
DOI: 10.5061/dryad.s7h44j16k
title: Long-term study shows that increasing body size in response to warmer summers is associated with a higher mortality risk in a long-lived bat species

description: Change in body size is one of the universal responses to global warming,
 with most species becoming smaller. While small size in most species
 corresponds to low individual fitness, small species typically show high
 population growth rates in cross-species comparisons. It is unclear,
 there- fore, how climate-induced changes in body size ultimately affect
 population persistence. Unravelling the relationship between body size,
 ambient temperature and individual survival is especially important for
 the conservation of endangered long-lived mammals such as bats. Using an
 individual-based 24-year dataset from four free-ranging Bechstein’sbat
 colonies (Myotis bechsteinii), we show for the first time a link between
 warmer summer temperatures, larger body sizes and increased mortality
 risk. Our data reveal a crucial time window in June–July, when juveniles
 grow to larger body sizes in warmer conditions. Body size is also affected
 by colony size, with larger colonies raising larger offspring. At the same
 time, larger bats have higher mortality risks throughout their lives. Our
 results highlight the importance of understanding the link between warmer
 weather and body size as a fitness-relevant trait for predicting
 species-specific extinction risks as consequences of global warming.
description: The dataset includes an R-project, four R scripts and all the
 datasets to run the analyses used in the associated paper:<br>
 "Long-term study shows that increasing body size in response to
 warmer summers is associated with a higher mortality risk in a long-lived
 bat species"
DOI: 10.5061/dryad.f1vhhmgwp
title: Complex feline disease mapping using a dense genotyping array

description: The current feline genotyping array of 63k single nucleotide polymorphisms
 has proven its utility within breeds, and its use has led to the
 identification of variants associated with Mendelian traits in purebred
 cats. However, compared to single gene disorders, association studies of
 complex diseases, especially with the inclusion of random bred cats with
 relatively low linkage disequilibrium, require a denser genotyping array
 and an increased sample size to provide statistically significant
 associations. Here, we undertook a multi-breed study of 1,122 cats, most
 of which were admitted and phenotyped for nine common complex feline
 diseases at the Cornell University Hospital for Animals. Using a
 proprietary 340k single nucleotide polymorphism mapping array, we
 identified significant genome-wide associations with hyperthyroidism,
 diabetes mellitus, and eosinophilic keratoconjunctivitis. These results
 provide genomic locations for variant discovery and candidate gene
 screening for these important complex feline diseases, which are relevant
 not only to feline health, but also to the development of disease models
 for comparative studies.
description: Genotype data from the Hill's custom Illumina feline high
 density mapping array, in binary PLINK format. SNPs are provided in genome
 assembly felCat9. Three datasets are included.
description: see README.txt
DOI: 10.7272/q60r9mmk
title: mRNA vaccine-induced T cells respond identically to SARS-CoV-2 variants of concern but differ in longevity and homing properties depending on prior infection status

description: While mRNA vaccines are proving highly efficacious against SARS-CoV-2, it
 is important to determine how booster doses and prior infection influence
 the immune defense they elicit, and whether they protect against variants.
 Focusing on the T cell response, we conducted a longitudinal study of
 infection-naïve and COVID-19 convalescent donors before vaccination and
 after their first and second vaccine doses, using a high-parameter CyTOF
 analysis to phenotype their SARS-CoV-2-specific T cells. Vaccine-elicited
 spike-specific T cells responded similarly to stimulation by spike
 epitopes from the ancestral, B.1.1.7 and B.1.351 variant strains, both in
 terms of cell numbers and phenotypes. In infection-naïve individuals, the
 second dose boosted the quantity and altered the phenotypic properties of
 SARS-CoV-2-specific T cells, while in convalescents the second dose
 changed neither. Spike-specific T cells from convalescent vaccinees
 differed strikingly from those of infection-naïve vaccinees, with
 phenotypic features suggesting superior long-term persistence and ability
 to home to the respiratory tract including the nasopharynx. These results
 provide reassurance that vaccine-elicited T cells respond robustly to
 emerging viral variants, confirm that convalescents may not need a second
 vaccine dose, and suggest that vaccinated convalescents may have more
 persistent nasopharynx-homing SARS-CoV-2-specific T cells compared to
 their infection-naïve counterparts.
DOI: 10.5061/dryad.x3ffbg7jv
title: CAM Global RCE simulations TC track, radial profiles, and filtered precipitation files

description: This dataset includes processed output from the Community Atmosphere Model
 (CAM), version 5, the atmospheric component of the Community Earth System
 Model (CESM2). CAM was run in a global rotating radiative
 convective equilibrium (RCE) aquaplanet configuration for 2 years, with
 the first 2 months discarded to allow for spin-up. The globally-uniform
 sea surface temperature (SST) was varied from 295 to 305 K in 1 K
 increments, producing a total of 11 model simulations. More details about
 CAM and the RCE configuration can be found in the associated manuscript
 in JGR: Atmospheres. The TempestExtremes software
 package (https://github.com/ClimateGlobalChange/tempestextremes) was used
 to track tropical cyclones (TCs) in the raw model output. Specifically
 DetectNodes and StitchNodes were used to locate potential TCs based on sea
 level pressure minima and then stitch these TC candidates into tracks
 based on spatial proximity. NodeFileEditor was used to calculate a radial
 wind profile at each timestep in each TCs' lifetime, and from these
 radial profiles, the TCs' outer sizes were estimated based on the
 radii of 8 m/s winds, outside the radii of maximum winds. Lastly
 NodeFileFilter was used to extract all precipitation within these
 calculated outer sizes at each timestep in each TC's lifetime. This
 dataset contains the TC track files, the TC radial wind profile and outer
 size files, and the filtered TC precipitation files. Note that while the
 track and radial profile files contain data from TCs all over the global
 domain, the filtered TC precipitation files only contain precipitation
 froms TCs between 40°S and 40°N because that's the domain we used for
 the TC precipitation analysis in the manuscript. 
description: The TC track and radial profile files are text files, while the
 TC precipitation files are netCDF files. The columns of the track files
 are as follows: TC center node number (data is on an unstructured grid),
 TC center longitude, TC center latitude, TC minimum sea level pressure
 [Pa], TC maximum wind speed at lowest model level [m/s], model year, model
 month, model day, and model hour. The columns of the radial profile files
 are as follows: TC center node number, TC center longitude, TC center
 latitude, radius of the 8 m/s wind [great circle degrees], radial wind
 profile [m/s], Accumulated Cyclone Energy [m/s], model year, model month,
 model day, and model hour. The TC precipitation files contain the
 following variables: time, lat (latitude), lon (longitude), PRECT (TC
 precipitation), and mask (a binary variable which is 1 for gridpoints
 within a TC's outer size and 0 for gridpoints outside TCs). The
 dimensions of the variables are time and ncol, which is the number of
 nodes in the unstructured grid. The other file in the dataset
 is ne120.connect_v2.dat, which is a grid connectivity file for the
 unstructured grid. This file is needed if any more TempestExtremes
 functions will be run on the data files.
DOI: 10.5061/dryad.9ghx3ffhf
title: Preterm birth is not associated with asymptomatic/mild SARS-CoV-2 infection per se: pre-pregnancy state is what matters

description: Evidence for the real impact of severe acute respiratory syndrome
 coronavirus 2 (SARS-CoV-2) infection on preterm birth is unclear, as
 available series report composite pregnancy outcomes and/or do not
 stratify patients according to disease severity.The purpose of the
 research was to determine the real impact of asymptomatic/mild
 SARS-CoV-2 infection on preterm birth not due to maternal respiratory
 failure.  This case-control study involved women
 admitted to a hospital for delivery between 20 September
 2020 and 9 January 2021 in northern Italy. The cumulative incidence
 of Coronavirus disease-19 was compared between preterm birth
 (case group, n = 102) and full-term delivery (control group, n =
 127). Only women with spontaneous or medically-indicated preterm
 birth because of placental vascular malperfusion (pregnancy-related
 hypertension and its complications) were included. Current or
 past SARS-CoV-2 infection was determined by nasopharyngeal swab testing
 and detection of IgM/IgG antibodies in blood samples. A
 significant difference in the cumulative incidence of Coronavirus
 disease-19 between the case (21/102, 20.5%) and the control group (32/127,
 25.1%) (P= 0.50) was not observed, although the case group was burdened by
 a higher prevalence of three known risk factors (body mass index &gt;
 24.9, asthma, chronic hypertension) for severe Coronavirus
 disease-19. Logistic regression analysis showed that asymptomatic/mild
 SARS-CoV-2 infection was not an independent predictor of spontaneous and
 medically-indicated preterm birth due to pregnancy-related hypertension
 and its complications (0.77; 95% confidence interval,
 0.41-1.43).  Pregnant patients without comorbidities need to be
 reassured that asymptomatic/mild SARS-CoV-2 infection does not increase
 the risk of preterm delivery. Preterm birth and severeCoronavirus
 disease-19 share common risk factors (i.e., body mass index
 &gt; 24.9, asthma, chronic hypertension), which may explain the high
 rate of indicated preterm birth due to maternal conditions reported in the
 literature.
DOI: 10.5061/dryad.gxd2547m3
title: Design of a custom-made device for real-time optical measurement of differential mineral concentrations in 3D scaffolds for bone tissue engineering

description: Monitoring bone tissue engineered constructs during their maturation is
 important to ensure the quality of applied protocols. Several destructive,
 mainly histochemical, methods are conventionally used to this aim,
 requiring the sacrifice of the investigated samples. This implies i) to
 plan several scaffold replicates, ii) expensive and time consuming
 procedures and iii) to infer the maturity level of a given tissue
 construct from a cognate replica. To solve these issues, non-destructive
 techniques such as light spectroscopy-based methods have been reported to
 be useful. Here, a miniaturized and inexpensive custom-made
 spectrometer device is proposed to enable the non-destructive analysis of
 hydrogel scaffolds. Testing involved samples with a differential amount of
 calcium salt. When compared to a reference standard device, the
 custom-made spectrometer demonstrates the ability to perform measurements
 without requiring elaborate sample preparation and/or a complex
 instrumentation. This preliminary study shows the feasibility of light
 spectroscopy-based methods as useful for the non-destructive analysis of
 tissue engineered constructs. Based on these results the custom-made
 spectrometer device appears as a useful option to perform
 real-time/in-line analysis. Finally, the device can be considered as a
 component that can be easily integrated on board of recently prototyped
 bioreactor systems, for the monitoring of the tissue engineered constructs
 during their conditioning.
description: The dataset was collected at the Laboratory of Cellular and
 Molecular Engineering “Silvio Cavalcanti” - Department of Electrical,
 Electronic and Information Engineering “Guglielmo Marconi” (DEI),
 University of Bologna, Cesena (FC), Italy, and has been processed by
 Matlab.
description: The ReadMe file contains an explanation of each of the variables
 in the dataset and its measurement units. Information on how the
 measurements were done can be found in the associated manuscript
 referenced above.
DOI: 10.5061/dryad.cz8w9gj3n
title: Participatory Mapping Reveals Sociocultural Drivers of Forest Fires in Protected Areas of the Post-Conflict Colombian Amazon

description: 1. Wildfires have increased in protected areas (PAs) of the Colombian
 Amazon following the 2016 peace agreement between the Government and the
 Revolutionary Armed Forced of Colombia (FARC – Spanish acronym). Recent
 study efforts to understand this issue suffer from data scarcity and
 limited consultation of local stakeholder perspectives on factors
 affecting wildfires. 2. This study uses a social-ecological systems
 framework to investigate local perceptions of factors driving and / or
 preventing wildfires in the Los Picachos, La Macarena and Tinigua PAs,
 which are shared by two Amazonian departments experiencing wildfire
 increase. Four stakeholder categories were selected to represent varied
 and possibly conflicting interests: cattle ranchers, the national park
 service, local authorities and cross-sectional stakeholders. We combined a
 participative mapping approach with interviews to illustrate stakeholder
 perceptions of interactions between key variables in graphical causal
 models. Network analyses were used to determine areas of agreement on key
 variables, and to compare local priorities with those of key informants at
 the national level. 3. Local stakeholders and key informants widely agreed
 on the roles of extensive cattle ranching and land-grabbing as key drivers
 of wildfires. The analysis identified areas for further research into
 wildfire occurrence within PAs including lack of governance and untitled
 land, as well as the effects of poor access to basic public services on
 unsustainable ranching methods. 4. This study revealed contested opinions
 between ranchers and other stakeholders over interactions between
 ranching, roads and illicit crops, and consequently their effects on
 wildfire occurrence. This indicates the need for cautious implementation
 of the National Development Plan, prioritising road maintenance over
 expansion, integrating arable alternatives to cattle ranching, and
 considering multiple stakeholders in regional decision-making around
 wildfire reduction. The strengths and limitations of the participative
 mapping approach employed here are discussed with a view to aiding
 decision-making in post-conflict regions of the Global South. --
description: Details provided in manuscript - methods section
description: Readme file available