cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.h9f3c
title: Data from: Satellite telemetry reveals higher fishing mortality rates than previously estimated, suggesting overfishing of an apex marine predator

description: Overfishing is a primary cause of population declines for many shark
 species of conservation concern. However, means of obtaining information
 on fishery interactions and mortality, necessary for the development of
 successful conservation strategies, are often fisheries-dependent and of
 questionable quality for many species of commercially exploited pelagic
 sharks. We used satellite telemetry as a fisheries-independent tool to
 document fisheries interactions, and quantify fishing mortality of the
 highly migratory shortfin mako shark (Isurus oxyrinchus) in the western
 North Atlantic Ocean. Forty satellite-tagged shortfin mako sharks tracked
 over 3 years entered the Exclusive Economic Zones of 19 countries and were
 harvested in fisheries of five countries, with 30% of tagged sharks
 harvested. Our tagging-derived estimates of instantaneous fishing
 mortality rates (F = 0.19–0.56) were 10-fold higher than previous
 estimates from fisheries-dependent data (approx. 0.015–0.024), suggesting
 data used in stock assessments may considerably underestimate fishing
 mortality. Additionally, our estimates of F were greater than those
 associated with maximum sustainable yield, suggesting a state of
 overfishing. This information has direct application to evaluations of
 stock status and for effective management of populations, and thus
 satellite tagging studies have potential to provide more accurate
 estimates of fishing mortality and survival than traditional
 fisheries-dependent methodology.
description: Byrne_et_al_data_readmeInformation about contents of data files for tagging, fate, and harvest information.Byrne_et_al_Mako_Tagging_Fate_dataTagging information and ultimate fate of all mako sharks in this study.Can be used to recreate survival analysisByrne_et_al_Harvest_dataInformation on all harvest events
DOI: 10.5061/dryad.7mc93
title: Data from: MHC class II DRB diversity predicts antigen recognition and is associated with disease severity in California sea lions naturally infected with Leptospira interrogans

description: We examined the associations between California sea lion MHC class II DRB
 (Zaca-DRB) configuration and diversity, and leptospirosis. As Zaca-DRB
 gene sequences are involved with antigen presentation of bacteria and
 other extracellular pathogens, we predicted that they would play a role in
 determining responses to these pathogenic spirochaetes. Specifically, we
 investigated whether Zaca-DRB diversity (number of genes) and
 configuration (presence of specific genes) explained differences in
 disease severity, and whether higher levels of Zaca-DRB diversity
 predicted the number of specific Leptospira interrogans serovars that a
 sea lion's serum would react against. We found that serum from
 diseased sea lions with more Zaca-DRB loci reacted against a wider array
 of serovars. Specific Zaca-DRB loci were linked to reactions with
 particular serovars. Interestingly, sea lions with clinical manifestation
 of leptospirosis that had higher numbers of Zaca-DRB loci were less likely
 to recover from disease than those with lower diversity, and those that
 harboured Zaca-DRB.C or –G were 4.5 to 5.3 times more likely to die from
 leptospirosis, regardless of the infective serovars. We propose that for
 leptospirosis, a disadvantage of having a wider range of antigen
 presentation might be increased disease severity due to immunopathology.
 Ours is the first study to examine the importance of Zaca-DRB diversity
 for antigen detection and disease severity following natural exposure to
 infective leptospires.
description: ZacaDRB_Lepto_File1_DryadData file contains information on ZacaDRB genotyping, HL and leptospirosis status.
DOI: 10.5061/dryad.bq64c
title: Data from: Carry-over effects of winter habitat quality on en route timing and condition of a migratory passerine during spring migration

description: We examined how conditions prior to migration influenced migration
 performance of two breeding populations of black-and-white warblers
 (Mniotilta varia) by linking information on the migrant's winter
 habitat quality, measured via stable carbon isotopes, with information on
 their breeding destination, measured via stable hydrogen isotopes. The
 quality of winter habitat strongly influenced the timing of migration when
 we accounted for differential timing of migration between breeding
 populations. Among birds migrating to the same breeding destination, males
 and females arriving early to the stopover site originated from more mesic
 habitat than later arriving birds, suggesting that the benefits of
 occupying high-quality mesic habitat during the winter positively
 influence the timing of migration. However, male warblers arriving early
 to the stopover site were not in better migratory condition than later
 arriving conspecifics that originated from poor-quality xeric winter
 habitat, regardless of breeding destination. The two breeding populations
 stopover at the study site during different time periods, suggesting that
 the lower migratory condition of early birds is not a function of the time
 of season, but potentially a migrant's migration strategy. Strong
 selection pressures to arrive early on the breeding grounds to secure
 high-quality breeding territories may drive males from high-quality winter
 habitat to minimize time at the expense of energy. This migration strategy
 would result in a smaller margin of safety to buffer the effects of
 adverse weather or scarcity of food, increasing the risk of mortality. The
 migratory condition of females was the same regardless of the timing of
 migration or breeding destination, suggesting that females adopt a
 strategy that conserves energy during migration. This study fills an
 important gap in our understanding of the linkages between winter habitat
 quality and factors that influence the performance of migration, the phase
 of the annual cycle thought to be limiting most migratory bird
 populations.
description: all
 analysesData collected in the
 field. Subject is the unique identifier of each black-and-white warbler
 that was sampled during the study. The study was conducted over 4 years
 (y1=2008, y2=2009, y3=2010, y4=2011). Breeding (N=boreal forest,
 S=southeast) is based on stable hydrogen isotope values. Timing (E=Early,
 M=middle, L=Late) is based on the range of capture dates for each sex in a
 given breeding destination and in a given year. rbc represents the stable
 carbon isotope value based on red blood cells collected from brachial vein
 puncture. Cond is a size-specific condition index value. Age and sex of
 the warbler.dryrad.csv
DOI: 10.6084/m9.figshare.31157170
title: Hallu

description: This is data for halluciation
DOI: 10.6084/m9.figshare.31157170.v1
title: Hallu

description: This is data for halluciation
DOI: 10.5061/dryad.8v312
title: Data from: Maladaptation to acute metal exposure in resurrected Daphnia ambigua clones after decades of increasing contamination

description: Human environmental impacts have driven some of the strongest and fastest
 phenotypic changes recorded in wild animal populations. Across
 populations, this variation is often adaptive, as populations evolve
 fitness advantages in response to human-modified environments. Yet some
 populations fail to adapt to changing environments. Evidenced by declines
 in relative fitness, such seemingly maladaptive outcomes are less common,
 but may be more likely in human modified contexts. Further, our ability to
 investigate the dynamics of these adaptive and maladaptive responses over
 time is typically limited in natural systems. I combined resurrection
 ecology and paleolimnology approaches to examine evolutionary responses of
 the freshwater zooplankter Daphnia to exposure to heavy metal
 contamination over the past 50-75 years using animals hatched from
 diapausing egg banks. In contrast to the predicted trend of adaptation to
 metal exposure over time, I observed an increase in sensitivity to both
 copper and cadmium exposure associated with increasing historic
 contamination. This potentially maladaptive trend occurred in Daphnia
 populations in three lakes. Given that the release of toxicants such as
 heavy metals is widespread and other researchers have observed local
 maladaptation to toxicant exposure, it is important to understand the
 drivers and implications of this pattern.
description: Rogalski_AmNat_2016_Daphnia_Toxicity_TrialsAcute toxicity responses (48 hour LC50s) to metal exposure for Daphnia ambigua clones hatched from lake sediment egg banks. Mortality responses were measured for 1-5 replicates per clone on one or more test dates.Rogalski_AmNat_112116_Raw_Data.csv
DOI: 10.5061/dryad.8671
title: Data from: Evolution of Dendrocolaptes platyrostris (Aves: Furnariidae) between the South American open vegetation corridor and the Atlantic forest

description: The open vegetation corridor of South America is a region dominated by
 savanna biomes. It contains forests, i.e. riverine forests, that may act
 as corridors for rainforest specialist between the open vegetation
 corridor and its neighboring biomes, the Amazonian and Atlantic forests. A
 prediction for this scenario is that populations of rainforest specialists
 in the open vegetation corridor and in the forested biomes show no
 significant genetic divergence. We addressed this hypothesis by studying
 plumage and genetic variation of the Planalto woodcreeper Dendrocolaptes
 platyrostris Spix (1824) (Aves: Furnariidae), a forest specialist that
 occurs in both the open habitat and in the Atlantic forest. Our questions
 are: (1) is there any evidence of genetic continuity between populations
 of the open habitat and the Atlantic forest? and (2) is plumage variation
 congruent with patterns of neutral genetic structure or with ecological
 factors related to habitat type? We used cytochrome b and mtDNA control
 region sequences to show that D. platyrostris is monophyletic and that
 presents substantial intraspecific differentiation. We found two areas of
 plumage stability: one associated to Cerrado and the other associated to
 southern Atlantic Forest. Multiple Mantel tests showed that most of the
 plumage variation followed transition of habitats but not phylogeographic
 gaps, suggesting that selection may be related to the evolution of the
 species plumage. Results were not compatible with the idea that forest
 specialist in the open vegetation corridor and in the Atlantic forest are
 linked at the population level because birds from each region were not
 part of the same genetic unit. Divergence in the presence of gene flow
 across the ecotone between both regions might explain our results. Also,
 our findings indicate that the southern Atlantic forest may have been
 significantly affected by Pleistocene climatic alteration, but that those
 events did not cause local extinction of most taxa, as occurred in other
 regions of the globe where forests were significantly affected by global
 glaciations. Finally, our results neither supported subspecies nor regions
 of stability of plumage as species.
description: Plumage data
 Dendrocolaptes platyrostrisThe plumage data is in
 the attached file (Plumage Dendrocolaptes platyrostris.txt). It is a
 spreadsheet in plain text containing for each population (n=38) median
 scores of each of the five studied plumage characters and a population
 total plumage score. The population total plumage score is equal to the
 sum of median scores of each of the five characters. The table also
 presents geographic location of each population. See section Material and
 Methods of the publication for further details.
DOI: 10.5061/dryad.5dq4fg4
title: Data from: Male phenotypic diversity experienced during ontogeny mediates female mate choice in guppies

description: Early social experience can be important in shaping female mate choice.
 Previous work has shown that females adjust their decisions based on the
 distribution of male sexual trait values encountered during development.
 However, other phenotypic features could be important in the formation of
 mate preferences if, for example, they provide additional information
 about the males available. Here, we examined how the level of overall
 phenotypic variance (independent of trait values) experienced during
 ontogeny, mediated female choice in guppies, Poecilia reticulata.
 Developing females were reared with males either all different in
 colouration or all similar in colouration or with adult females
 representing high variance, low variance and no experience of male
 variance respectively. We found that females were more sexually responsive
 when reared with females only than in either of the male treatments. When
 reared with males, responsiveness was greater in the low-variance compared
 to the high variance treatment. Moreover, females had stronger sexual
 preferences following rearing in the high variance compared to the low
 variance condition. In turn, males switched mating tactics, increasing the
 rate of coerced copulation attempts when facing choosier females, possibly
 to balance the loss in mating opportunities. Taken together, these results
 demonstrate the adaptive plasticity of female mating decisions and the
 dynamic selection pressures they might impose on the evolution of male
 sexual traits, potentially contributing to the maintenance of the extreme
 polymorphism found in male colour patterns.
description: Macario_Dryad_DataEach row of the .csv file represents a male and shows the total number of courtship display and gonopodium thrusts performed by this male during a mating trial. It also shows the values of the different sexual traits borne by each male. These trait values are included as covariates in the different GLMMs carried out and are used to calculate the female preference functions. Finally it also contains the fraction response, D, which is a measure of female responsiveness. The data are ordered by treatment and by replicate.
DOI: 10.5061/dryad.5g2s0
title: Data from: Insectivorous bat pollinates columnar cactus more effectively per visit than specialized nectar bat

description: Plant-pollinator interactions are great model systems to investigate
 mutualistic relationships. We compared pollinator effectiveness between
 facultative and obligate nectar-feeding bats to determine how foraging
 specialization influences mutualistic interactions in a bat-adapted
 cactus. We predicted that a specialized nectarivorous bat would deliver
 more pollen than an opportunistic nectar-feeding bat because of
 specialized adaptations to nectar-feeding that indicate close association
 with their food plants. Counter to our predictions, the opportunistic
 Antrozous pallidus delivered significantly more pollen grains per visit
 than the specialized Leptonycteris yerbabuenae. Higher pollinator
 effectiveness, based on visitation rates and pollen deposition levels,
 varied between species by site, and although A. pallidus visits flowers
 much less frequently than L. yerbabuenae over all sites, it is likely an
 effective and reliable pollinator of Pachycereus pringlei in Baja, Mexico.
 Our results suggest morphological adaptations and dietary specialization
 on nectar do not necessarily confer advantages for pollination over less
 specialized plant visitors and highlights the reciprocally exploitative
 nature of mutualisms.
description: pollen_datadryadData were collected at field sites in Baja California Sur, Mexico by Winifred F. Frick. Geographic locations for SiteIDs can be obtained by author upon request. Species codes are LEYE: Leptonycteris yerbabuenae; ANPA: Antrozous pallidus. Time = time visit occurred; Sunset = time of local sunset; MinSunset= minutes after local sunset of when visit occurred; Pollen Grains = number of pollen grains of Pachycereus pringlei found on stigma after single visit by identified bat species.
DOI: 10.5061/dryad.d5jc3
title: Data from: Ecomorphological variation in male and female wall lizards and the macroecolution of sexual dimorphism in relation to habitat use

description: Understanding how phenotypic diversity evolves is a major interest of
 evolutionary biology. Habitat use is an important factor in the evolution
 of phenotypic diversity of many animal species. Interestingly, male and
 female phenotypes have been frequently shown to respond differently to
 environmental variation. At the macroevolutionary level, this difference
 between the sexes is frequently analyzed by using phylogenetic comparative
 tools to assess variation in sexual dimorphism (SD) across taxa in
 relation to habitat. A shortcoming of such analyses is that they evaluate
 the degree of dimorphism itself and therefore they do not provide access
 to the evolutionary trajectories of each sex. As such, the relative
 contribution of male and female phenotypes on macroevolutionary patterns
 of sexual dimorphism cannot be directly assessed. Here we investigate how
 habitat use shapes phenotypic diversity in wall lizards by using
 phylogenetic comparative tools to simultaneously assess the tempo and mode
 of evolution in males, females and the degree of sexual dimorphism. We
 find both sexes have globally diversified under similar, but not
 identical, processes, where habitat use seems to drive macroevolutionary
 variation in head shape, but not in body size or relative limb length.
 However, we also observe small differences in the evolutionary dynamics of
 male and female phenotypes that have a marked impact on macroevolutionary
 patterns of SD, with important implications for our interpretation of what
 drives phenotypic diversification within and between the sexes.
description: Dated and scaled
 phylogenyDated chronogram used
 for analyses, rescaled to unit total length, and with associated ancestral
 character states for habitat use obtained using maximum
 likelihood.scaledPodarcisphylo.treFemale trait means per speciesSpecies means of log-transformed trait values for females.asymptLSM.FMale trait means per speciesSpecies means of log-transformed trait values for females, based on the 10 largest individuals per species.asymptLSM.M
DOI: 10.5061/dryad.5g0rg
title: Data from: Modeling time to population extinction when individual reproduction is autocorrelated

description: In nature, individual reproductive success is seldom independent from year
 to year, due to factors such as reproductive costs and individual
 heterogeneity. However, population projection models that incorporate
 temporal autocorrelations in individual reproduction can be difficult to
 parameterize, particularly when data are sparse. We therefore examine
 whether such models are necessary to avoid biased estimates of stochastic
 population growth and extinction risk, by comparing output from a matrix
 population model that incorporates reproductive autocorrelations to output
 from a standard age-structured matrix model that does not. We use a range
 of parameterizations, including a case study using moose data, treating
 probabilities of switching reproductive class as either fixed or
 fluctuating. Expected time to extinction from the two models is found to
 differ by only small amounts (under 10%) for most parameterizations,
 indicating that explicitly accounting for individual reproductive
 autocorrelations is in most cases not necessary to avoid bias in
 extinction estimates.
description: Individual histories for
 moose at Vega 1984-2012Individual reproductive
 and survival histories for female moose at Vega 1984-2012. Numbers
 according to states: 1: Produced 0 calves, 2: Produced 1 calf, 3: Produced
 2 calves, 4: Hunted, and 5: Natural death.Vegafemc190515.txt
DOI: 10.5061/dryad.7qf5f
title: Data from: Wolbachia-induced meiotic drive and feminization is associated with an independent occurrence of selective mitochondrial sweep in a butterfly

description: Maternally inherited Wolbachia endosymbionts manipulate arthropod
 reproduction in various ways. In the butterfly Eurema mandarina, a
 cytoplasmic incompatibility-inducing Wolbachia strain wCI and the
 associated mtDNA haplotypes are known to originate from the sister species
 Eurema hecabe, which offered a good case study for microbe-mediated hybrid
 introgression. Besides wCI, some females with the Z0 karyotype harbour a
 distinct Wolbachia strain wFem, which causes all-female production by
 meiotic drive and feminization. We report that a considerable proportion
 of E. mandarina females (65.7%) were infected with both wCI and wFem (CF)
 on Tanegashima Island. While females singly infected with wCI (C) produced
 offspring at a 1 : 1 sex ratio, CF females produced only females. Although
 Z-linked sequence polymorphism showed no signs of divergence between C and
 CF females, mtDNA split into two discrete clades; one consisted of C
 females and the other CF females, both of which formed a clade with E.
 hecabe but not with uninfected E. mandarina. This suggests that CF
 matrilines also, but independently, experienced a selective sweep after
 hybrid introgression from E. hecabe. Distinct evolutionary forces were
 suggested to have caused C and CF matrilines to diverge, which would be
 irreversible because of the particular phenotype of wFem.
description: Sample sheet for Eurema
 mandarinaSample sheet of Eurema
 mandarina adults collected in Tanegashima Island, Japan, in 2015. It
 contains sample codes, date of sampling, sex, latitudes and longitudes of
 collected sites, Wolbachia infection status (C: singly infected with wCI,
 CF: doubly infected with wCI and wFem, NA: not analysed), numbers of
 female offspring and male offspring where available, and accession numbers
 of Tpi, COI and COIII.sample
 sheet_0420.csv
DOI: 10.5061/dryad.hh1f7
title: Data from: Clonal genetic variation in a Wolbachia-infected asexual wasp: horizontal transmission or historical sex?

description: Wolbachia are endocellular bacteria known for manipulating the
 reproductive systems of many of their invertebrate hosts. Wolbachia are
 transmitted vertically from mother to offspring. In addition, new
 infections result from horizontal transmission between different host
 species. However, to what extent horizontal transmission plays a role in
 the spread of a new infection through the host population is unknown.
 Here, we investigate whether horizontal transmission of Wolbachia can
 explain clonal genetic variation in natural populations of Leptopilina
 clavipes, a parasitoid wasp infected with a parthenogenesis-inducing
 Wolbachia. We assessed variance of markers on the nuclear, mitochondrial
 and Wolbachia genomes. The nuclear and mitochondrial markers displayed
 significant and congruent variation among thelytokous wasp lineages,
 showing that multiple lineages have become infected with Wolbachia. The
 alternative hypothesis in which a single female became infected, the
 daughters of which mated with males (thus introducing nuclear genetic
 variance) cannot account for the presence of concordant variance in mtDNA.
 All Wolbachia markers, including the hypervariable wsp gene, were
 invariant, suggesting that only a single strain of Wolbachia is involved.
 These results show that Wolbachia has transferred horizontally to infect
 multiple female lineages during the early spread through L. clavipes.
 Remarkably, multiple thelytokous lineages have persisted side-by-side in
 the field for tens of thousands of generations.
description: lclav_msat_data
DOI: 10.5281/zenodo.17973222
title: SHM_415360_HST_3D

description: Photogrammetric 3D model of a Mesolithic Lihult axe collected from Dalsland and 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=670

Link to Sök I Samlingarna  

https://samlingar.shm.se/object/006BBEB4-4B0E-4C7E-8153-3EAF4B6B347A