cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.3929/ethz-b-000727370
title: Perception score dataset of 7'002 places in Utrecht, Netherlands

description: This perception dataset consists of responses from 10,042 individuals evaluating 7,002 places in the urban-rural region of Utrecht, based on street-level photographs. It includes eight perception indicators: urban, rural, safe, natural, beautiful, residential, recreational, and social. Perceptions were measured through pairwise comparisons, where respondents selected which of two randomly shown photos was more urban, beautiful, safe, etc. Individual scores for each photograph were derived using maximum likelihood estimation of the Bradley-Terry model and linearly rescaled between 0 and 10 for comparability. The dataset was collected via an online survey conducted in the Netherlands through a panel service company, following ICC/ESOMAR guidelines and implementing quality checks to mitigate non-response and bot participation. Quota sampling along gender, age, education, and region ensured representativeness of the Dutch population. While the final sample slightly overrepresents female respondents, older individuals, two-person households, and those with continuing education, regional distribution aligns well with national statistics. The study aimed to enhance the spatial extent, resolution, and integration of perception data with existing subjective attributes such as accessibility, building stock, and social indicators. For more in-depth information on the dataset and its analysis consult "Measuring place rather than space: integrating landscape qualities for the urban-rural gradient using people’s perceptions and machine learning" (linked in the "Related Publications" section).
DOI: 10.5061/dryad.8gb1n31
title: Data from: Empirical determination of severe trauma in seals from collisions with tidal turbine blades

description: 1. Tidal energy converters (turbines) are being developed in many
 countries as part of attempts to reduce reliance on hydrocarbon fuels.
 However, the moving blades of tidal turbines pose potential collision
 risks for marine animals. Accurate assessment of mortality risk as a
 result of collisions is essential for risk management during planning and
 consenting processes for marine energy developments. In the absence of
 information on the physical consequences of such collisions, predicting
 likely risks relies on theoretical collision risk models. The application
 of these at a population level usually assumes that all collisions result
 in mortality. This is unlikely and the approach therefore produces
 upwardly biased estimates of population consequences. 2. In this study, we
 estimate the pathological consequences of direct collisions with tidal
 turbines using seal carcasses and physical models of tidal turbine blades.
 We quantify severe trauma at a range of impact speeds and to different
 areas of seal carcasses. A dose-response model was developed with
 associated uncertainty to determine an impact speed threshold of severe
 trauma to use in future collision risk models. 3. Results showed that
 severe trauma was: a. restricted to the thoracic region, with no evidence
 of injury to the lumbar or cervical spine. b. only observed in collision
 speeds in excess of 5.6 m.s-1 (95% c.i. 4.4 to 6.6). c. affected by body
 condition; increasing blubber depth reduced the likelihood of severe
 trauma 4. Synthesis and applications: This study provides important
 information for policy makers and regulators looking to predict the
 potential impacts of tidal turbines on marine mammals. We demonstrate that
 the probability of severe trauma in seals due to collisions with turbine
 blades is highly dependent upon collision speed, and that the majority of
 predicted collisions are unlikely to cause fatal skeletal trauma. We
 recommend that collision risk models incorporate appropriate mortality
 assumptions to ensure accurate estimates of the population consequences
 are produced in risk assessments for tidal turbine deployments.
description: Post-trial
 scansThese images show the
 post-trial, 3-dimensional scans of the seal skeletons which were used for
 analysis. Some images are focussed on points of interest to show the
 important injuries identified for that individual. Relation back to
 collision speeds and morphometric data can be made through the published
 manuscript which details collision speeds for each individual and a full
 list of pathological indicators of mortality which were
 identified.
DOI: 10.5061/dryad.d02sc44
title: Data from: Plasticity of promoter-core sequences allows bacteria to compensate for the loss of a key global regulatory gene

description: Transcription regulatory networks (TRNs) are of central importance for
 both short-term phenotypic adaptation in response to environmental
 fluctuations and long-term evolutionary adaptation, with global regulatory
 genes often being targets of natural selection in laboratory experiments.
 Here, we combined evolution experiments, whole-genome resequencing, and
 molecular genetics to investigate the driving forces, genetic constraints,
 and molecular mechanisms that dictate how bacteria can cope with a drastic
 perturbation of their TRNs. The crp gene, encoding a major global
 regulator in Escherichia coli, was deleted in four different genetic
 backgrounds, all derived from the Long-Term Evolution Experiment (LTEE)
 but with different TRN architectures. We confirmed that crp deletion had a
 more deleterious effect on growth rate in the LTEE-adapted genotypes; and
 we showed that the ptsG gene, which encodes the major glucose-PTS
 transporter, gained CRP dependence over time in the LTEE. We then further
 evolved the four crp-deleted genotypes in glucose minimal medium, and we
 found that they all quickly recovered from their growth defects by
 increasing glucose uptake. We showed that this recovery was specific to
 the selective environment and consistently relied on mutations in the cis
 regulatory region of ptsG, regardless of the initial genotype. These
 mutations affected the interplay of transcription factors acting at the
 promoters, changed the intrinsic properties of the existing promoters, or
 produced new transcription initiation sites. Therefore, the plasticity of
 even a single promoter region can compensate by three different mechanisms
 for the loss of a key regulatory hub in the E. coli TRN.
description: Lamrabet_MBE_DataThe file contains raw data for growth rate measurements, glucose uptake measurements, and RT-qPCR. Each sheet corresponds to the data from the indicated figure.
DOI: 10.15468/dl.vpu33e
title: Occurrence Download

description: A dataset containing 368 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "TaxonKey is Apiomerus lanipes"
 ]
}

 The dataset includes 368 records from 20 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001580-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.m906r59
title: Data from: Male-only care and cuckoldry in black coucals: does parenting hamper sex life?

description: Providing parental care often reduces additional mating opportunities.
 Paternal care becomes easier to understand if trade-offs between mating
 and caring remain mild. The black coucal Centropus grillii combines
 male-only parental care with 50% of all broods containing young sired by
 another male. To understand how much caring for offspring reduces a male’s
 chance to sire additional young in other males’ nests, we matched the
 production of extra-pair young in each nest with the periods during which
 potential extra-pair sires were either caring for offspring themselves or
 when they had no own offspring to care for. We found that males that cared
 for a clutch were not fully excluded from the pool of competitors for
 siring young in other males’ nests. Instead, the relative siring success
 showed a temporary dip. Males were approximately 17% less likely to sire
 young in other males’ nests while they were incubating, about 48% less
 likely to do so while feeding nestlings, followed by 26% when feeding
 fledglings, compared to the success of males that currently did not care
 for offspring. These results suggest that real-life care situations by
 males may involve trade-off structures that differ from, and are less
 strict than those frequently employed in theoretical considerations of
 operational sex ratios, sex roles, and parenting decisions.
description: Male availability
 dataThis dataset contains
 the complete dataset used for the analysis, describing the social father,
 the genetic father and the potential sires for each egg of all completely
 sampled clutches.BC01-16_male_availability_complete_20190224.csv
DOI: 10.5061/dryad.786b9q0
title: Data from: The role of platelets in mediating a response to human influenza infection

description: Influenza infection increases the incidence of myocardial infarction but
 the reason is unknown. Platelets mediate vascular occlusion through
 thrombotic functions but are also recognized to have immunomodulatory
 activity. To determine if platelet processes are activated during
 influenza infection, we collected blood from 18 patients with acute
 influenza infection. Microscopy reveals activated platelets, many
 containing viral particles and extracellular- DNA associated with
 platelets. To understand the mechanism, we isolated human platelets and
 treated them with influenza A virus. Viral-engulfment leads to C3 release
 from platelets as a function of TLR7 and C3 leads to neutrophil-DNA
 release and aggregation. TLR7 specificity is confirmed in murine models
 lacking the receptor, and platelet depletion models support
 platelet-mediated C3 and neutrophil-DNA release post-influenza infection.
 These findings demonstrate that the initial intrinsic defense against
 influenza is mediated by platelet-neutrophil cross-communication that
 tightly regulates host immune and complement responses but can also lead
 to thrombotic vascular occlusion.
description: Images of platelets and
 neutrophils in blood of flu patientsTransmission Electron
 Microscopy (TEM) of platelets isolated from influenza infected patients;
 TEM of platelets incubated with sucrose-gradient purified influenza A
 strain, WSN/33. Fluorescent Microscopy of blood from influenza infected
 patients and platelets incubated with influenza virus.Influenza
 patients_ELISA.csv
DOI: 10.3929/ethz-c-000794381
title: Finding Phones Fast: Low-Latency and Scalable Monitoring of Cellular Communications in Sensitive Areas
DOI: 10.5061/dryad.44bm68r
title: Data from: Insulin-insensitivity of male genitals maintains reproductive success in Drosophila

description: For most arthropod species, male genital size is relatively implastic in
 response to variation in developmental nutrition, such that the genitals
 in large well-fed males are similar in size to those in small poorly-fed
 males. In Drosophila melanogaster, reduced nutritional plasticity of the
 male genitalia is a consequence of low insulin sensitivity through a
 tissue-specific reduction in expression of FOXO, a negative growth
 regulator. Despite an understanding of the proximate developmental
 mechanisms regulating organ size, the ultimate evolutionary mechanisms
 that may have led to reduced FOXO expression in the genitalia have not
 been fully elucidated. Here we show that restoring FOXO activity in the
 developing genitalia reduces male genital size and decreases various
 aspects of male reproductive success. These data support the hypothesis
 that sexual selection has acted on the male genitalia to limit their
 nutritional plasticity through a reduction in FOXO expression, linking
 proximate with ultimate mechanisms of genital evolution.
description: READMEContains description of
 Dryad uploadR
 ScriptR script used for
 analysis and to produce figuresallmalesComplete data file of female and male data including data for each mating mating regime (no competition, direct, and indirect competition) and male trait measurementsNo_Competition_OnlyData file of male and female mating pairs for the no competition mating regime onlyDirect_Competition_OnlyData file of male and female mating sets for the direct competition mating regime onlyIndirect_Competition_OnlyData file of male and female mating sets for the indirect competition mating regime only
DOI: 10.5061/dryad.6tj407n
title: Data from: The interplay of landscape composition and configuration: new pathways to manage functional biodiversity and agro-ecosystem services across Europe

description: Managing agricultural landscapes to support biodiversity and ecosystem
 services is a key aim of a sustainable agriculture. However, how the
 spatial arrangement of crop fields and other habitats in landscapes
 impacts arthropods and their functions is poorly known. Synthesising data
 from 49 studies (1515 landscapes) across Europe, we examined effects of
 landscape composition (% habitats) and configuration (edge density) on
 arthropods in fields and their margins, pest control, pollination and
 yields. Configuration effects interacted with the proportions of crop and
 non‐crop habitats, and species’ dietary, dispersal and overwintering
 traits led to contrasting responses to landscape variables. Overall,
 however, in landscapes with high edge density, 70% of pollinator and 44%
 of natural enemy species reached highest abundances and pollination and
 pest control improved 1.7‐ and 1.4‐fold respectively. Arable‐dominated
 landscapes with high edge densities achieved high yields. This suggests
 that enhancing edge density in European agroecosystems can promote
 functional biodiversity and yield‐enhancing ecosystem services.
description: Martin et
 al_2019_datatablesData used in Martin et
 al. (2019) compiled from 49 studies and 1,515 landscapes across Europe.
 Includes data on the abundance of arthropod species per site and data on
 pollination, natural pest control and yields in crops across
 Europe.Martin et al_2019_data
 tables_300319.xlsxMartin et al_2019_traits
 databaseFunctional traits data
 for 2088 species (morphospecies, individuals) from 144 arthropod families
 sampled in agricultural landscapes across Europe. All traits are
 categorical and based on published literature or expert knowledge. They
 are described in Table 1 and Appendix S1 of Martin et al. (2019). The
 traits included are: feeding habit ('Functional group'), diet
 breadth, agricultural specialism, diet life history, overwintering
 habitat, dispersal mode, and stratum. Species' names were resolved in
 R package taxize.
DOI: 10.5061/dryad.1vp7476
title: Data from: Changing of the guard: mixed specialization and flexibility in nest defense (Tetragonisca angustula)

description: Task allocation is a central challenge of collective behavior in a variety
 of group-living species, and this is particularly the case for the
 allocation of social insect workers for group defense. In social insects,
 both benefits and considerable costs are associated with the production of
 specialized soldiers. We asked whether colonies mitigate costs of
 production of specialized soldiers by simultaneously employing behavioral
 flexibility in non-specialist workers that can augment defense
 capabilities at short time scales. We studied colonies of the stingless
 bee Tetragonisca angustula, a species that has two discrete nest guarding
 tasks typically performed by majors: hovering guarding and standing
 guarding. Majors showed age polyethism across nest-guarding tasks, first
 hovering and then changing to the task of standing guarding after one
 week. Colonies were also able to reassign minors to guarding tasks when
 majors were experimentally removed. Replacement guards persisted in nest
 defense tasks until colonies produced enough majors to return to their
 initial state. Tetragonisca angustula colonies thus employed a coordinated
 set of specialization strategies in nest defense: morphologically
 specialized soldiers, age polyethism among soldiers within specific
 guarding tasks, and rapid flexible reallocation of non-specialists to
 guarding during soldier loss. This mixed strategy achieves the benefits of
 a highly specialized defensive force while maintaining the potential for
 rapid reinforcement when soldiers are lost or colonies face unexpectedly
 intense attack.
description: Age
 PolyethismData used to test for
 age polyethism between standing and hovering guarding. All data are from
 the maximum-observed guarding activity time point each day.
 "TaskMarkCat" is a categorical variable consisting of format
 "Current task_marked Day 0 task." "BeeN" is a count of
 bees within each Task-Marking category.age polyethism
 DayMax.csvMorphometricsBee mass and head size data used to compare across task groups and sitesRemoval Data BrazilData used to assess the effects of guard removal in domesticated Brazilian population. The final observation on day 8 was omitted due to rain.Removal Data PanamaData used to test for the effect of soldier removal on guard bee size in Panama.Wing wearData used to test whether wing wear differed across task groups.
DOI: 10.5061/dryad.mc40jt6
title: Data from: Genome-wide diversity and demographic dynamics of Cameroon goats and their divergence from east African, north African, and Asian conspecifics

description: Indigenous goats make significant contributions to Cameroon’s national and
 local economy, but little effort has been devoted to identifying the
 populations. Here, we assessed the genetic diversity and demographic
 dynamics of Cameroon goat populations using mitochondrial DNA (two
 populations) and autosomal markers (four populations) generated with the
 Caprine 50K SNP chip. To infer genetic relationships at continental and
 global level, genotype data on six goat populations from Ethiopia and one
 population each from Egypt, Morocco, Iran, and China were included in the
 analysis. The mtDNA analysis revealed 83 haplotypes, all belonging to
 haplogroup A, in Cameroon goats. Four haplotypes were shared between goats
 found in Cameroon, Mozambique, Namibia, Zimbabwe, Kenya, and Ethiopia.
 Analysis of autosomal SNPs in Cameroon goats revealed the lowest HO
 (0.335±0.13) and HE (0.352±0.15) in the North-west Highland and Central
 Highland populations, respectively. Overall, the highest HO (0.401±0.12)
 and HE (0.422±0.12) were found for Barki and Iranian goats, respectively.
 Barki goats had the highest average MAF, while Central Highland Cameroon
 goats had the lowest. Overall, Cameroon goats demonstrated high FIS. AMOVA
 revealed that 13.29% of the variation was explained by genetic differences
 between the six population groups. Low average FST (0.01) suggests
 intermixing among Cameroon goats. All measures indicated that Cameroon
 goats are closer to Moroccan goats than to other goat populations. PCA and
 STRUCTURE analyses poorly differentiated the Cameroon goats, as did
 genetic distance, Neighbor-Net network, and neighbor-joining tree
 analyses. The haplotype analysis of mtDNA showed the initial dispersion of
 goats to Cameroon and central Africa from north-east Africa following the
 Nile Delta. Whereas, the approximate Bayesian computation indicated
 Cameroon goats were separated from Moroccan goats after 506 generations in
 later times (~1518 YA), as supported by the phylogenetic net-work and
 admixture outputs. Overall, indigenous goats in Cameroon show weak
 phylogenetic structure, suggesting either extensive intermixing.
description: REVISED_
 dataThe attached file is in
 ped format consists of 43421 markers of 848 animals after QC mentioned in
 the paper.REVISED_
 dataMap file of the 43421
 markers mentioned in the ped file.BioPed file of one
 population which consists of 44230 markers from 31
 animals.BioMap file the 44230
 markers ped file.
DOI: 10.5061/dryad.jc4hf80
title: Data from: Bee pathogen transmission dynamics: deposition, persistence and acquisition on flowers

description: Infectious diseases are a primary driver of bee decline worldwide, but
 limited understanding of how pathogens are transmitted hampers effective
 management. Flowers have been implicated as hubs of bee disease
 transmission, but we know little about how interspecific floral variation
 affects transmission dynamics. Using bumble bees (Bombus impatiens), a
 trypanosomatid pathogen (Crithidia bombi), and three plant species varying
 in floral morphology, we assessed how host infection and plant species
 affect pathogen deposition on flowers, and plant species and flower parts
 impact pathogen survival and acquisition at flowers. We found that host
 infection with Crithidia increased defecation rates on flowers, and that
 bees deposited feces onto bracts of Lobelia siphilitica and Lythrum
 salicaria more frequently than onto Monarda didyma bracts. Among flower
 parts, bracts were associated with the lowest pathogen survival but
 highest resulting infection intensity in bee hosts. Additionally, we found
 that Crithidia survival across flower parts was reduced with sun exposure.
 These results suggest that efficiency of pathogen transmission depends on
 where deposition occurs and the timing and place of acquisition, which
 varies among plant species and environmental conditions. This information
 could be utilized for development of wildflower mixes that maximize forage
 while minimizing disease spread.
description: experiment1csv file containing data on defecation patterns of bumble bees inoculated and sham-inoculated with Crithidia. Includes data on the effect of plant species, flower part and infection on defecation by Bombus impatiens workers. The datafile includes data on when the bee was inoculated, where and how many times across flower parts the bees defecated, bee size, and quantified Crithidia load post-trial. This corresponds to "experiment 1" in associated manuscript.experiment2csv file containing data on Crithidia survival across plant species and flower parts. The datasheet includes information on the dose placed on each floral part, temperature, relative humidity, UV radiation, and whether or not the trial was conducted in sun-exposed or sun-protected conditions. This file corresponds to "experiment 2" in associated manuscript.experiment3csv containing data on the effects of plant species and flower part on Crithidia bombi acquisition and subsequent intensity of infection (Crithidia cells per ul) in Bombus impatiens workers. The datasheet contains information on where inoculum was encountered on the flower, bee size and resulting Crithidia load. The data corresponds to "experiment 3" in associated manuscript.R code for experiment 1Figueroa_et_al_experiment1.RR code for experiment 2Figueroa_et_al_experiment2.RR code for experiment 3Figueroa_et_al_experiment3.R