cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.670m5n0
title: Data from: Herbivore control in connected seascapes: habitat determines when population regulation occurs in the life history of a key herbivore

description: Herbivore outbreaks often trigger catastrophic overgrazing events in
 marine macrophyte ecosystems. The sea urchin Paracentrotus lividus, the
 dominant herbivore of shallow Mediterranean seascapes, is capable of
 precipitating shifts to barrens when its populations explode. P. lividus
 is found ubiquitously in rocky macroalgal communities and in sandy
 seagrass meadows of Posidonia oceanica, two of the most important subtidal
 habitats in the Mediterranean. We explored if habitat-specific regulation
 across the principal stages of the urchin life cycle could help explain
 the persistence of these populations in connected mosaics. We measured
 each of three relevant ecological process (i.e. settlement,
 post-settlement survival and predation) across a wide stretch of the
 Mediterranean coast (ca. 600km). Our results show that habitat-specific
 regulation is critical in determining urchin populations: each habitat
 limited urchin sub-populations at different life stages. Settlement was
 never limiting; urchins settled at similar rates in both habitats across
 the coast. Post-settlement survival was a clear bottleneck, particularly
 in seagrass meadows where no juvenile urchins were recorded. Despite this
 bottleneck in seagrasses, adult urchin populations were very similar in
 both seagrass and macroalgal habitats indicating that other processes
 (potentially migration) could be key in determining adult distributions
 across the mosaic. The fact that population regulation is clearly
 habitat-specific suggests that sea urchin populations may be significantly
 buffered from bottlenecks in mixed seascapes where both habitats co-occur.
 Sea urchin populations can therefore persist across the seascape despite
 strong habitat-specific regulation either by maintaining reproductive
 output in one habitat or by migrating between them. By affording these
 regulatory escapes to habitat-modifying species, patchy mosaics may be
 much more prone to herbivore outbreaks and a host of cascading effects
 that come in their wake.
description: Densities
 OIKOSSea urchin densities per
 size class in two different habitats (macroalgal communities on rocky
 substrates and Posidonia oceanica seagrass meadows). Data were collected
 by SCUBA in the NW Mediterranean (Catalan Coast, NE Spain) in 8 different
 sites and 2 periods.
DOI: 10.5061/dryad.8t3nf
title: Data from: No early gender effects on energetic status and life history in a salmonid.

description: Throughout an organism's early development, variations in physiology
 and behaviours may have long lasting consequences on individual life
 histories. While a large part of variation in critical life-history
 transitions remains unexplained, a significant proportion may be caused by
 early gender effects as part of gender-specific life histories shaped by
 sexual selection. In this study, we investigated the presence of early
 gender effects on the timing of emergence from gravel and the energetic
 status of brown trout (Salmo trutta) early stages. To investigate this
 question, individual measures of emergence timing, metabolic rate and
 energetic content were coupled for the first time with the use of a recent
 genetic marker for sdY (sexually dimorphic on the Y-chromosome), a master
 sex-determining gene. Our results show that gender does not influence the
 energetic content of emerging juveniles or their emergence timing. These
 findings suggest that gender differences may appear later throughout
 salmonid life history and that selective pressures associated with the
 critical period of emergence from gravel may shape early life-history
 traits similarly in both males and females.
description: Data Regnier et
 al
DOI: 10.5061/dryad.23hs6
title: Data from: Is there an interaction of the effects of salinity and pesticides on the community structure of macroinvertebrates?

description: Salinization of freshwater ecosystems is a global problem affecting many
 regions worldwide and can co-occur with pesticides in agricultural
 regions. Given that both stressors are potent to affect macroinvertebrate
 communities, their effects could interact. We investigated the effects of
 salinity and pesticides at 24 sites in an agricultural region of southern
 Victoria, South-East Australia. We used distance-based redundancy analysis
 to determine the influence of pesticides, salinity and other environmental
 variables on the composition of macroinvertebrate communities. Salinity
 and pesticide toxicity had a statistically significant effect on
 communities as had the substrate composition and the percentage of pool
 and riffle sections in the sampled stream reaches. We did not find
 evidence for interactive effects between salinity and pesticides, i.e. the
 effect of one of these variables did not depend on the level of the other.
 Nevertheless, our results show that salinization and exposure to
 pesticides can be major factors for the structure of macroinvertebrate
 communities in agricultural regions. Pesticide toxicity acted on a lower
 taxonomic level compared to salinity, potentially indicating evolutionary
 adaptation to salinity stress.
description: Data from Szöcs, Eduard,
 Ben J. Kefford, and Ralf B. Schäfer. “Is There an Interaction of the
 Effects of Salinity and Pesticides on the Community Structure of
 Macroinvertebrates?” Science of The Total Environment 437 (2012): 121 –
 126.see
 README.txtSupplement.zip
DOI: 10.15468/dl.bj4b9r
title: Occurrence Download

description: A dataset containing 2644 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Astraea lobata"
 ]
}

 The dataset includes 2644 records from 222 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001291-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.1fp8g
title: Data from: Genomic data reveals potential for hybridization, introgression, and incomplete lineage sorting to confound phylogenetic relationships in an adaptive radiation of narrow-mouth frogs

description: The microhylid frog genus Kaloula is an adaptive radiation spanning the
 edge of the Asian mainland and multiple adjacent island archipelagos, with
 much of the clade's diversity associated with an endemic Philippine
 radiation. Relationships among clades from the Philippines, however,
 remain unresolved. With ultraconserved element (UCE) and mitogenomic data,
 we identified highly-supported differences in topology and areas of poor
 resolution, for each marker set. Using the UCE data, we then identified
 possible instances of contemporary hybridization, past introgression and
 incomplete lineage sorting (ILS) within the Philippine Kaloula. Using a
 simulation approach, and an estimate of the Philippine Kaloula clade
 origin (12.7—21.0 mya), we demonstrate that an evolutionary history
 including inferred instances of hybridization, introgression, and ILS
 leads to phylogenetic reconstructions that show concordance with results
 from the observed mitogenome and UCE data. In the process of validating a
 complex evolutionary scenario in the Philippine Kaloula, we provide the
 first demonstration of the efficacy of UCE data for phylogenomic studies
 of anuran amphibians.
description: short_or_ambiguous_sequences.fastaSequence for mitogenome fragments of the various Kaloula samples where the sequence was either too short to submit to Genbank (&lt;50 bp) or contained more than 50% ambiguous bases (all positions covered by less than four reads were converted to ambiguous positions). Sequence title corresponds to the Genbank feature table.short_or_ambiguous_feature_tableGenbank feature table (in sequin format) for short or ambiguous sequences in the corresponding fasta file.
DOI: 10.5061/dryad.p12cn93
title: Data from: The extended consequences of genetic conductivity: mating distance affects community phenotypes in Norway spruce

description: Anthropogenic landscape level alterations such as habitat fragmentation
 and long distance translocation of genetic material are currently altering
 the genetic connectivity and structure of forest tree populations
 globally. As the susceptibility of individual trees to dependent organisms
 is often genetically determined, it is possible that these genetic changes
 may extend beyond individuals to affect associated communities. To test
 this, we examined how variation in crossing distance among the progeny of
 18 controlled crosses of Norway spruce (Picea abies) populations occurring
 across central Sweden affected chemical defense, and subsequently, a small
 community of galling Adelges aphids infecting planted trees at two common
 garden trails. Although crossing distance did not influence growth,
 vitality nor reproduction in the studied population, it did influence the
 expression of one candidate defensive chemical compound, Apigenin, which
 was found in higher concentrations within outcrossed trees. We also show
 that this variation in apigenin induced by crossing distance correlated
 with susceptibility to one member of the galling community but not the
 other. Furthermore, the effect of crossing distance on galling communities
 and the general susceptibility of Norway spruce to infection also varied
 with environment. Specifically, in the more benign environment inbred
 trees suffered greater gall infection than outcrossed trees, which is
 contrary to general predictions that the effects of inbreeding should be
 more pronounced in harsher environments. These findings suggest that the
 effects of variation in crossing distance in forest trees can extend
 beyond the individual to influence whole communities.
description: Gall and
 chemistryData on gall infection
 on, and chemical composition of different Norway spruce families growing
 in two common gardens in SwedenE&E 2018 open access
 data.xlsx
DOI: 10.5061/dryad.0pf75
title: Data from: Genetic relationships between Atlantic and Pacific populations of the notothenioid fish Eleginops maclovinus: the footprints of Quaternary glaciations in Patagonia

description: The genetic relationships between the Pacific and the Atlantic populations
 of marine costal biota in Southern South America have been analyzed in few
 studies, most of them relying on a single mitochondrial locus. We analyzed
 ten polymorphic microsatellite loci, isolated from a dinucleotide-enriched
 E. maclovinus genomic library, in a total of 240 individuals (48 from each
 of five sampled sites: two Atlantic, two Pacific and one in Beagle
 Channel). The results were contrasted against a previous work on the same
 species with mtDNA. Observed heterozygosity within localities ranged from
 0.85 to 0.88 and the highest overall number of alleles was observed at the
 northernmost locality on the Pacific side (Concepción) but no clear
 geographic pattern arose from the data. On the other hand, the number of
 private alleles was negatively correlated with latitude (Spearman's
 rs test, p = 0.017). Among-population variance was low but significant
 (1.35 %; p &lt; 0.0001, AMOVA) and low genetic differentiation between
 populations was observed (pairwise FST values ranged from 0 to 0.021). A
 Mantel test reveled a significant correlation between geographic distances
 and FST (r = 0.56, p = 0.047). This could be partially accounted for the
 Atlantic vs Pacific population differentiation detected in three different
 analyses (Structure, SAMOVA and a population phylogeny). The observed
 pattern is compatible with a history of separation into two glacial
 refugia, which was better captured by the multilocus microsatellite data
 than by the mtDNA analysis.
description: Eleginops maclovinus
 microsatellite datasetMicrosatellites_dataset.txt
DOI: 10.5061/dryad.9hf5c
title: Data from: Evolution in the sabertooth cat, Smilodon fatalis, in response to Pleistocene climate change

description: The late Pleistocene was a time of environmental change, culminating in an
 extinction event. Few fossil localities record a temporal series of
 carnivore fossil populations from this interesting interval as well as
 Rancho La Brea (RLB). We analyzed mandibles of Smilodon fatalis from RLB
 using 2D geometric morphometrics to examine if, and how, mandibular shape
 changes through time. S. fatalis shows mandibular evolution with
 oscillations between a small, ancestral-type morph in pits 77 (≈37 Kybp)
 and 2051 (≈26 Kybp), a larger, more derived morph in pits 91 (≈28 Kybp)
 and 61-67 (≈13.6 Kybp), and an intermediate morph from pit 13 (≈17.7
 Kybp). These oscillations end in pit 61-67, where Smilodon exhibits its
 greatest body size, widest gape, and lowest bite forces. Additionally,
 variation is lowest in pit 61-67, which was deposited concurrent with the
 Bølling-Allerød warming event, which may have important implications for
 the timing or conditions during the extinction event. Contra to a temporal
 Bergmann’s rule, such rapid warming events appear to be correlated with
 larger, derived, morphologies while static, cooler, climates correlate
 with gracile, ancestral morphologies.
description: Smilodon XY coordinates
 for GMRaw digitized
 coordinates of Smilodon fatalis mandibles for geometric morphometric data
 analysis.Temporalis angle
 measurements for Smilodon fatalisPhi prime temporalis
 angle measurements taken from the coronoid process height on Smilodon
 fatalis mandibles.
DOI: 10.15468/dl.m2mbj3
title: Occurrence Download

description: A dataset containing 850 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Enkianthus cernuus",
 "HasCoordinate is true",
 "BasisOfRecord is one of (Specimen)"
 ]
}

 The dataset includes 850 records from 36 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001292-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.t8s1227
title: Data from: Galcanezumab in chronic migraine: the randomized, double-blind, placebo-controlled REGAIN study

description: Objective: To evaluate the efficacy and safety of galcanezumab, a
 humanized monoclonal antibody that selectively binds to calcitonin
 gene-related peptide (CGRP), in the preventive treatment of chronic
 migraine. Methods: REGAIN was a Phase 3 study with a 3-month double-blind,
 placebo-controlled treatment phase and a 9-month open-label extension.
 Eligible patients 18-65 years of age with chronic migraine were randomized
 2:1:1 to monthly subcutaneous injections of placebo (n = 558),
 galcanezumab 120 mg (with a 240-mg loading dose, n = 278), or galcanezumab
 240 mg (n = 277). The primary endpoint was the overall mean change from
 baseline in the number of monthly migraine headache days (MHDs) during the
 3-month double-blind treatment phase. Results: Mean number of monthly MHDs
 at baseline was 19.4 for the total sample. Both galcanezumab dose groups
 demonstrated greater overall mean reduction in the number of monthly MHDs
 than placebo: placebo: -2.7, galcanezumab 120 mg: -4.8, galcanezumab 240
 mg: -4.6 (p &lt; 0.001 for each dose compared to placebo). There were
 no clinically meaningful differences between galcanezumab doses and
 placebo on any safety or tolerability outcome except for a higher
 incidence of treatment-emergent injection-site reaction (p &lt; 0.01),
 injection-site erythema (p &lt; 0.001), injection-site pruritus (p
 &lt; 0.01), and sinusitis (p &lt; 0.05) in the galcanezumab 240-mg
 group relative to placebo. Conclusions: Both doses of galcanezumab were
 superior to placebo in reducing the number of monthly MHDs. Galcanezumab
 appears efficacious, safe, and well-tolerated for the preventive treatment
 of chronic migraine. Classification of evidence: This interventional study
 provides Class I evidence that galcanezumab is superior to placebo in the
 reduction of the number of monthly migraine headache days.
description: Appendix e-1. List of
 Principal InvestigatorsList of principal
 investigators who participated in the REGAIN study.
DOI: 10.5061/dryad.42355kp
title: Data from: Short-term response of a declining woodland bird assemblage to the removal of a despotic competitor

description: Interspecific aggression by the noisy miner (Manorina melanocephala), a
 highly despotic species, is homogenizing woodland avifaunas across eastern
 Australia. Although a native species, the noisy miner's aggressive
 exclusion of small birds is a Key Threatening Process under national law.
 Large‐scale removal of noisy miners has been proposed as a management
 response to this threat following increases in miner presence due to
 anthropogenic land use practices. We tested this proposal by
 experimentally removing noisy miners from eucalypt woodland remnants
 (16–49 ha), assigned randomly as control (n = 12) or treatment (miner
 removal) sites (n = 12). Standardized bird surveys were conducted before
 and after removal, and generalized linear mixed models were used to
 investigate the effect of miner removal on bird assemblage metrics.
 Despite removing 3552 noisy miners in three sessions of systematic
 shooting, densities of noisy miners remained similarly high in treatment
 and control sites, even just 14 days after their removal. However, there
 was evidence of an increase in richness and abundance of small birds in
 treatment sites compared to controls—an effect we only expected to see if
 noisy miner densities were drastically reduced. We suggest that miner
 removal may have reduced the ability of the recolonizing miners to
 aggressively exclude small birds, even without substantially reducing
 miner densities, due to the breakdown of social structures that are
 central to the species' despotic behaviour. However, this effect on
 small birds is unlikely to persist in the long term. Synthesis and
 applications: Despite evidence from other studies that direct removal of
 noisy miners can result in rapid and sustained conservation benefit for
 bird communities at small scales, our findings cast doubt on the potential
 to scale‐up this management approach. The circumstances under which direct
 control of noisy miners can be achieved remain unresolved.
description: Data from Davitt et al
 2018Summarised bird survey
 results and corresponding vegetation and site context data from each
 survey at each site as described in Davitt et al. 2018.
DOI: 10.5061/dryad.2vp4v
title: Data from: Ancient, but not recent, population declines have had a genetic impact on alpine yellow-bellied toad populations, suggesting potential for complete recovery

description: Reduction in population size and local extinctions have been reported for
 the yellow-bellied toad, Bombina variegata, but the genetic impact of this
 is not yet known. In this study, we genotyped 200 individuals, using mtDNA
 cytochrome b and 11 nuclear microsatellites. We investigated fine-scale
 population structure and tested for genetic signatures of historical and
 recent population decline, using several statistical approaches, including
 likelihood methods and approximate Bayesian computation. Five major
 genetically divergent groups were found, largely corresponding to
 geography but with a clear exception of high genetic isolation in a highly
 touristic area. The effective sizes in the last few generations, as
 estimated from the random association among markers, never exceeded a few
 dozen of individuals. Our most important result is that several analyses
 converge in suggesting that genetic variation was shaped in all groups by
 a 7- to 45-fold demographic decline, which occurred between a few hundred
 and a few 1000 years ago. Remarkably, only weak evidence supports recent
 genetic impact related to human activities. We believe that the alpine B.
 variegata populations should be monitored and protected to stop their
 recent decline and to prevent local extinctions, with highest priority
 given to genetically isolated populations. Nonetheless, current genetic
 variation pattern, being mostly shaped in earlier times, suggests that
 complete recovery can be achieved. In general, our study is an example of
 how the potential for recovery should be inferred even under the
 co-occurrence of population decline, low genetic variation, and genetic
 bottleneck signals.
description: Bombina_variegata_11lociMicrosatellite data in genepop format
DOI: 10.5281/zenodo.17971959
title: SHM_120786_HST_3D

description: Photogrammetric 3D model of a ceramic jug from the Middle Ages, collected in the field at Slottsfjärden in Kalmar 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=665

Link to Sök I Samlingarna  

https://samlingar.shm.se/object/17249601-1DB0-4AC4-A7E1-06697322F695
DOI: 10.5281/zenodo.17971960
title: SHM_120786_HST_3D

description: Photogrammetric 3D model of a ceramic jug from the Middle Ages, collected in the field at Slottsfjärden in Kalmar 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=665

Link to Sök I Samlingarna  

https://samlingar.shm.se/object/17249601-1DB0-4AC4-A7E1-06697322F695
DOI: 10.5061/dryad.gt64c
title: Data from: Royal dynasties as human inbreeding laboratories: the Habsburgs

description: The European royal dynasties of the Early Modern Age provide a useful
 framework for human inbreeding research. In this article, consanguineous
 marriage, inbreeding depression and the purging of deleterious alleles
 within a consanguineous population are investigated in the Habsburgs, a
 royal dynasty with a long history of consanguinity over generations.
 Genealogical information from a number of historical sources was used to
 compute kinship and inbreeding coefficients for the Habsburgs. Marriages
 contracted by the Habsburgs from 1450 to 1750 presented an extremely high
 mean kinship (0.0628 {plus minus} 0.009), which was the result of the
 matrimonial policy conducted by the dynasty to establish political
 alliances through marriage. A strong inbreeding depression for both infant
 and child survival was detected in the progeny of 71 Habsburg marriages in
 the period 1450-1800. The inbreeding load for child survival experienced a
 pronounced decrease from 3.98 {plus minus} 0.87 in the period 1450-1600 to
 0.93 {plus minus} 0.62 in the period 1600-1800, temporal changes in the
 inbreeding depression for infant survival were not detected. Such
 reduction of inbreeding depression for child survival in a relatively
 small number of generations could be caused by elimination of deleterious
 alleles of large effects according with predictions from purging models.
 The differential purging of the infant and child inbreeding loads suggests
 that the genetic basis of inbreeding depression was probably very
 different for infant and child survival in the Habsburg lineage. Our
 findings provide empirical support that human inbreeding depression for
 some fitness components might be purged by selection within consanguineous
 populations.
description: Habsburg Inbreeding
 DataRaw data for kinship and
 inbreeding depression analyses of the Habsburg Dynasty