cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.m3987
title: Data from: Sibling competition does not exacerbate inbreeding depression in the burying beetle Nicrophorus vespilloides

description: Inbreeding results from matings between relatives and can cause a
 reduction in offspring fitness, known as inbreeding depression. Previous
 work has shown that a wide range of environmental stresses, such as
 extreme temperatures, starvation, and parasitism, can exacerbate
 inbreeding depression. It has recently been argued that stresses due to
 intraspecific competition should have a stronger effect on the severity of
 inbreeding depression than stresses due to harsh physical conditions.
 Here, we tested whether an increase in the intensity of sibling
 competition can exacerbate inbreeding depression in the burying beetle
 Nicrophorus vespilloides. We used a 2×3 factorial design with offspring
 inbreeding status (outbred or inbred) and brood size (5, 20, or 40 larvae)
 as the two factors. We found a main effect of inbreeding status, as inbred
 larvae had lower survival than outbred larvae, and a main effect of brood
 size, as larvae in large broods had lower survival and mass than larvae in
 medium-sized broods. However, there was no effect of the interaction
 between inbreeding status and brood size, suggesting that sibling
 competition did not influence the severity of inbreeding depression. Since
 we focused on sibling competition within homogeneous broods of either
 inbred or outbred larvae, we cannot rule out possible effects of sibling
 competition on inbreeding depression in mixed paternity broods comprising
 of both inbred and outbred offspring. More information on whether and when
 sibling competition might influence the expression of inbreeding
 depression can help advance our understanding of the causes underlying
 variation in the severity of inbreeding depression.
description: PilakoutaSieberSmisethJEB2016.csvRaw data on the joint effects of brood size and inbreeding status on offspring fitness in the burying beetle Nicrophorus vespilloides.
DOI: 10.15468/dl.ts7n6e
title: Occurrence Download

description: A dataset containing 57576353 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is United States of America",
 "DatasetKey is iNaturalist Research-grade Observations",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present"
 ]
}

 The dataset includes 57576353 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001230-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.hb87k
title: Data from: Are thyroid hormones mediators of incubation temperature-induced phenotypes in birds?

description: Incubation temperature influences a suite of traits in avian offspring.
 However, the mechanisms underlying expression of these phenotypes are
 unknown. Given the importance of thyroid hormones in orchestrating
 developmental processes, we hypothesized that they may act as an upstream
 mechanism mediating the effects of temperature on hatchling phenotypic
 traits such as reduced growth and thermoregulation. We found that plasma
 T3, but not T4 concentrations, differed among newly-hatched wood ducks
 (Aix sponsa) from different embryonic incubation temperatures. T4 at
 hatching correlated with time spent hatching, and T3 correlated with
 hatchling body condition, tarsus length, time spent hatching, and
 incubation period. In addition, the T3:T4 ratio differed among incubation
 temperatures up at hatch. Our findings are consistent with the hypothesis
 that incubation temperature modulates plasma thyroid hormones which in
 turn influences multiple aspects of duckling phenotype.
description: thyroid data for DuRant
 et al.DuRant
 et al. Dataset 2.txt
DOI: 10.5061/dryad.cd168nj1
title: Data from: Phenotypic and genetic divergence among harbour porpoise populations associated with habitat regions in the North Sea and adjacent seas.

description: Determining the mechanisms that generate population structure is essential
 to the understanding of speciation and the evolution of biodiversity.
 Here, we investigate a geographic range that transects two habitat
 gradients, the North Sea to North Atlantic transition, and the temperate
 to sub-polar regions. We studied the harbour porpoise (Phocoena phocoena),
 a small odontocete inhabiting both sub-polar and temperate waters. To
 assess differentiation among putative populations we measured
 morphological variation at cranial traits (N=462 individuals) and
 variation at eight microsatellite loci for 338 of the same individuals
 from Norwegian, British and Danish waters. Significant morphological
 differentiation reflected the size of the buccal cavity. Porpoises forage
 in relatively shallow waters preying mainly on benthic species in British
 and Danish waters, and on mesopelagic and pelagic fish off the coast of
 Norway. We suggest that the observed differentiation may be explained by
 resource specialization and either adaptation or developmental responses
 to different local habitats.
description: Norwegian_porps_8lociNorth Sea and Norwegian Sea harbour porpoises genotype data for 8 microsatellite loci.
DOI: 10.5061/dryad.p12g5
title: Data from: The cost of migratory prey: seasonal changes in semi-domestic reindeer distribution influences breeding success of Eurasian lynx in northern Norway

description: Migratory prey is a widespread phenomenon that has implications for
 predator–prey interactions. By creating large temporal variation in
 resource availability between seasons it becomes challenging for
 carnivores to secure a regular year-round supply of food. Some predators
 may respond by following their migratory prey, however, most predators are
 sedentary and experience strong seasonal variation in resource
 availability. Increased predation on alternative prey may dampen such
 seasonal resource fluctuations, but reduced reproduction rates in
 predators is a predicted consequence of migratory primary prey behavior
 that has received little empirical attention. We used data from 23 GPS
 collared Eurasian lynx Lynx lynx monitored during 2007–2013 in northern
 Norway, to examine how spatio-temporal variation in the migratory behavior
 of semi-domestic reindeer Rangifer tarandus influences lynx spatial
 organization and reproductive success using estimates of seasonal home
 range overlap and breeding success. We found that lynx of both sexes
 maintained seasonally stable home ranges and exhibited site fidelity
 across years, independent of whether they had access to reindeer
 throughout the year or experienced a scarcity of reindeer in winter due to
 migration. However, lynx without access to reindeer in winter showed a
 decreased probability of reproducing and a tendency for lowered kitten
 survival into their first winter, when compared to female lynx with
 reindeer available year around. This supports the hypothesis that
 sedentary predators experience demographic costs in systems with migratory
 primary prey. Changes in the migratory behavior of ungulates, including
 disrupted migrations, is therefore likely to have bottom–up effects on the
 population dynamics of sedentary predators as well as the previously
 documented consequences for ungulate population dynamics.
description: Lynx_data_dryadLynx home range overlap estimates and reproduction data files with data descriptions provided for each.
DOI: 10.5061/dryad.8jj12
title: Data from: Two-scale dispersal estimation for biological invasions via synthetic likelihood

description: Biological invasions reshape environments and affect the ecological and
 economic welfare of states and communities. Such invasions advance on
 multiple spatial scales, complicating their control. When modeling
 stochastic dispersal processes, intractable likelihoods and autocorrelated
 data complicate parameter estimation. As with other approaches, the recent
 synthetic likelihood framework for stochastic models uses summary
 statistics to reduce this complexity; however, it additionally provides
 usable likelihoods, facilitating the use of existing likelihood-based
 machinery. Here, we extend this framework to parameterize multi-scale
 spatio-temporal dispersal models and compare existing and newly developed
 spatial summary statistics to characterize dispersal patterns. We provide
 general methods to evaluate potential summary statistics and present a
 fitting procedure that accurately estimates dispersal parameters on
 simulated data. Finally, we apply our methods to quantify the short and
 long range dispersal of Chagas disease vectors in urban Arequipa, Peru,
 and assess the feasibility of a purely reactive strategy to contain the
 invasion.
description: Jerusalen jittered
 dataThis has the Jerusalen
 data described in the article, with X/Y jittered to prevent exact
 recognition of infested households (confidentiality issues). X: longitude
 in UTM, Y: longitude in UTM, OLDSTATUS: status (infested 0/1) in 2009,
 STATUS: status (infested 0/1) in 2011.jersusalen.csv
DOI: 10.5061/dryad.cr266nb
title: Data from: Age-related variation in non-breeding foraging behaviour and carry-over effects on fitness in an extremely long-lived bird

description: 1. Senescence has been widely documented in wild vertebrate populations,
 yet the proximate drivers of age-related declines in breeding success,
 including allocation trade-offs and links with foraging performance, are
 poorly understood. For long-lived, migratory species, the non-breeding
 period represents a critical time for investment in self-maintenance and
 restoration of body condition, which in many species is linked to fitness.
 However, the relationships between age, non-breeding foraging behaviour
 and fitness remain largely unexplored. 2. We performed a cross-sectional
 study, investigating age-related variation in the foraging activity,
 distribution and diet of an extremely long-lived seabird, the wandering
 albatross Diomedea exulans during the non-breeding period, and its links
 with subsequent reproductive performance. 3. We tracked the distributions
 of 82 adults aged 8 – 33 years with geolocator-immersion loggers and found
 an age-related decline in the number of landings (a proxy of foraging
 effort) during daylight hours. There was a decrease in body feather δ13C
 values in older males but not females, yet this did not accompany an
 age-related shift in distributions. Males conducted fewer landings than
 females, and the sexes were spatially segregated, with males foraging
 further south, likely due to their differential utilization of winds. 4.
 While younger (&lt; 20 years) birds had higher foraging activity, all
 individuals went on to breed successfully the following season. In
 contrast, among older (20+ years) birds, individuals that landed more
 often were more likely to defer breeding or fail during incubation,
 suggesting they have lower foraging success. 5. As far as we are aware,
 this is the first demonstration of an age-specific carry-over effect of
 foraging behaviour in the non-breeding period on subsequent reproductive
 performance. This link between foraging behaviour and fitness in late but
 not early adulthood indicates that the ability of individuals to forage
 efficiently outside the breeding period may be an important driver of
 fitness differences in old age.
description: GLSImmersion+Isotopes_SummaryAverage values of carbon and nitrogen isotopes in body feathers and activity metrics from geolocator-immersion loggers for each individual albatross. Demographic information also included: age, sex, and previous and next breeding outcome.Clayetal2018_Activity_Isotopes.xlsxGLSLocationsFiltered locations from geolocator-immersion loggers including information on the age and sex of each bird.Clayetal2018_Locations.xlsx
DOI: 10.5281/zenodo.17876592
title: SHM_120968_HST_3D

description: Photogrammetric 3D model of a stoneware mug collected from Kalmar, Sweden and currently held in the collections of the National Historical Museums in Stockholm. 

Link to the Dynamic Collection platform 

https://dyncolldev.ht.lu.se/plus/artifact_view.php?item=513

Link to Sök I Samlingarna  

https://samlingar.shm.se/object/5B9A1055-1369-41CB-BF0F-6FBDD228C13B
DOI: 10.5061/dryad.q6ng9
title: Data from: Nest material preferences by spotless starlings

description: The avian nest is an essential structure for offspring development. For
 adults, nest building entails costs in terms of time, energy and exposure
 to predators and parasites. Amount and diversity of materials used for
 nest building depend on their availability and functionality in scenarios
 of sexual selection and parasitism. Green plants and feathers of different
 colors have been hypothesized to play key roles in offspring protection
 against pathogens, and we here experimentally assessed spotless starling
 (Sturnus unicolor) preferences for pigmented vs. unpigmented feathers and
 for different green plants (aromatic vs. non-aromatic plants) as nest
 materials. We predicted a preferential selection of unpigmented feathers
 and aromatic plants according to the antimicrobial properties of these
 materials described in the literature. We evaluated these predictions
 during nest building and during egg-laying stages. As expected, starlings
 preferentially selected unpigmented feathers both before and during egg
 laying, while aromatic plants were preferentially selected only during the
 egg-laying stage. These results suggest that starlings prefer nest
 materials that enhance antimicrobial protection of their offspring. We
 also discuss some other, non-exclusive functions that might explain the
 observed preference for nest materials, especially with regard to their
 potential role in sexual signaling.
description: Plants and feathers in
 nestsData.txt
DOI: 10.5281/zenodo.17876591
title: SHM_120968_HST_3D

description: Photogrammetric 3D model of a stoneware mug collected from Kalmar, Sweden and currently held in the collections of the National Historical Museums in Stockholm. 

Link to the Dynamic Collection platform 

https://dyncolldev.ht.lu.se/plus/artifact_view.php?item=513

Link to Sök I Samlingarna  

https://samlingar.shm.se/object/5B9A1055-1369-41CB-BF0F-6FBDD228C13B
DOI: 10.5061/dryad.0p88f
title: Data from: Bayesian adaptive Markov Chain Monte Carlo estimation of genetic parameters

description: Accurate and fast estimation of genetic parameters that underlie
 quantitative traits using mixed linear models with additive and dominance
 effects is of great importance in both natural and breeding populations.
 Here we propose a new fast adaptive Markov Chain Monte Carlo (MCMC)
 sampling algorithm for the estimation of genetic parameters in the linear
 mixed model with several random effects. In the learning phase of our
 algorithm, we use the hybrid Gibbs sampler to learn the covariance
 structure of the variance components. In the second phase of the
 algorithm, we use this covariance structure to formulate an effective
 proposal distribution for a Metropolis-Hastings algorithm, which uses a
 likelihood function in which the random effects have been integrated out.
 Compared to the hybrid Gibbs sampler, the new algorithm had better mixing
 properties and was approximately twice as fast to run. Our new algorithm
 was able to detect different modes in the posterior distribution. In
 addition, the posterior mode estimates from the adaptive MCMC method were
 close to the REML (residual maximum likelihood) estimates. Moreover, our
 exponential prior for inverse variance components was vague and enabled
 the estimated mode of the posterior variance to be practically zero, which
 was in agreement with the support from the likelihood (in the case of no
 dominance). The method performance is illustrated using simulated data
 sets with replicates and field data in barley.
description: Field_dataField data from 82 spring barley (H. vulgare L.) lines originating from German North Rhine Westphalia core collection. These lines were cultivated in randomized complete-block design with three replications in three different years (2001, 2002, and 2003) at the Research Station ’Dikopshof’ of University of Bonn, Germany.Additive_relashioship_matrixThe numerator relationship matrix A, which describes additive genetic relationships among 82 lines, calculated from pedigree information.
DOI: 10.15468/dl.f6ddh4
title: Occurrence Download

description: A dataset containing 794 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Comarostaphylis polifolia",
 "HasCoordinate is true",
 "BasisOfRecord is one of (Specimen)"
 ]
}

 The dataset includes 794 records from 58 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001245-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.62sj6
title: Data from: Male interference with pollination efficiency in a hermaphroditic orchid

description: Hermaphroditism can lead to both intra- and inter-sexual conflict between
 male and female gender functions. However, the effect that such gender
 conflicts have on pollination efficiency has seldom been investigated. By
 artificially reducing the number of available male gametes on an
 individual, we quantified whether male interference with pollination
 efficiency occurs in the self-compatible, moth-pollinated orchid Satyrium
 longicauda. We partially emasculated S. longicauda inflorescences and
 compared pollination success and fecundity in these plants to intact
 controls. Pollen in both groups of plants was colour labelled so that its
 dispersal by pollinators could be tracked directly in the field. Intact
 flowers on partially emasculated inflorescences exported more pollen and
 received more cross-pollen and less self-pollen than those on intact
 inflorescences. Proportion fruit set per plant was similar between the two
 treatments, however fruits on partially emasculated plants had
 proportionally more viable seeds than those on intact controls. These
 results provide empirical evidence that male interference with pollination
 efficiency can occur in a hermaphroditic plant, and that such interference
 can compromise fecundity. The most likely mechanism for such male
 interference is competition for placement on the proboscis of hawkmoth
 pollinators. Consequently, male competition for siring success may
 influence the evolution of sexual systems in hermaphroditic
 pollinator-dependent plants.
description: Duffy and Johnson
 pollination dataField data of pollinia
 and pollen massulae movement of the orchid Satyrium longicauda under two
 treatments: partial emasculation and intact. Collected in montane
 grassland in South Africa.Duffy and Johnson
 fecundity dataField data of fruit and
 seed set of the orchid Satyrium longicauda under two treatments: partial
 emasculation and intact control.
DOI: 10.5061/dryad.02f6r
title: Data from: X-linkage is not a general inhibitor of tissue-specific gene expression in Drosophila melanogaster

description: As a consequence of its difference in copy number between males and
 females, the X chromosome is subject to unique evolutionary forces and
 gene regulatory mechanisms. Previous studies of Drosophila melanogaster
 have shown that the expression of X-linked, testis-specific reporter genes
 is suppressed in the male germline. However, it is not known whether this
 phenomenon is restricted to testis-expressed genes or if it is a more
 general property of genes with tissue-specific expression, which are also
 underrepresented on the X chromosome. To test this, we compared the
 expression of three tissue-specific reporter genes (ovary, accessory gland
 and Malpighian tubule) inserted at various autosomal and X-chromosomal
 locations. In contrast to testis-specific reporter genes, we found no
 reduction of X-linked expression in any of the other tissues. In accessory
 gland and Malpighian tubule, we detected higher expression of the X-linked
 reporter genes, which suggests that they are at least partially dosage
 compensated. We found no difference in the tissue-specificity of X-linked
 and autosomal reporter genes. These findings indicate that, in general,
 the X chromosome is not a detrimental environment for tissue-specific gene
 expression and that the suppression of X-linked expression is limited to
 the male germline.
description: Reporter gene expression
 dataFor all of the reporter
 genes tested in the paper, the genomic location of the transgene insertion
 is provided, along with the relevant annotations. The mean expression
 (measured as beta-galactosidase activity) and standard deviation of each
 reporter gene in whole males, whole females, or carcass is provided in
 units on mOD/min.ArgyridouData2017.xlsx
DOI: 10.5061/dryad.15rg7
title: Data from: The cost of prospecting for dispersal opportunities in a social bird

description: Understanding why individuals delay dispersal and become subordinates
 within a group is central to studying the evolution of sociality.
 Hypotheses predict that dispersal decisions are influenced by costs of
 extra-territorial prospecting that are often required to find a breeding
 vacancy. Little is known about such costs, partly because it is
 complicated to demonstrate them empirically. For example, prospecting
 individuals may be of inferior quality already before prospecting and/or
 have been evicted. Moreover, costs of prospecting are mainly studied in
 species where prospectors suffer from predation risk, so how costly
 prospecting is when predators are absent remains unclear. Here, we
 determine a cost of prospecting for subordinate Seychelles warblers,
 Acrocephalus sechellensis, in a population where predators are absent and
 individuals return to their resident territory after prospecting.
 Prospecting individuals had 5.2% lower body mass than non-prospecting
 individuals. Our evidence suggests this may be owing to frequent attacks
 by resident conspecifics, likely leading to reduced food intake by
 prospectors. These results support the hypothesis that energetic costs
 associated with dispersal opportunities are one factor influencing
 dispersal decisions and shaping the evolution of delayed dispersal in
 social animals.
description: Data_Kingma_etal_ProspectingCostsBody condition data of resident and prospecting individuals. All additional data used in the analyses are included.
DOI: 10.5061/dryad.s7rj3126
title: Data from: Molecular analyses reveal semi-cryptic species in Xanthoparmelia tasmanica

description: Evolutionary relationships between the major populations of Xanthoparmelia
 tasmanica are investigated using parsimony, likelihood, and Bayesian
 analyses of ITS sequence data. Results indicate that this taxon is
 comprised of at least two geographically distinct lineages. Moreover,
 these lineages belong to two larger clades of Xanthoparmelia s. str. (also
 defined by geography) that were recognized in previous phylogenetic
 studies of the genus. The geographically distinct, but morphologically and
 chemically identical populations of X. tasmanica are treated here as
 separate taxa with independent evolutionary histories. While the name X.
 tasmanica is properly applied to Australasian populations, populations
 from North America that were previously called X. tasmanica are here
 referred to X. hypofusca.
description: Hodkinson_and_Lendemer_2011_Xanthoparmelia_ITSThis is a NEXUS file containing the elements necessary for all phylogenetic analyses conducted as part of the associated study.