cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.95qc4
title: Data from: Weak habitat isolation in a threespine stickleback (Gasterosteus spp.) species pair

description: Reproductive isolation is central to the study of speciation. Multiple
 isolating barriers may prevent species from hybridizing, although their
 individual strength and the interactions between them are rarely measured.
 We quantified habitat isolation in a recently diverged threespine
 stickleback species pair (Gasterosteus aculeatus complex) and controlled
 for any such interactions. Using enclosures in an outdoor pond, we confirm
 that males of the two species strongly prefer different nesting habitats:
 limnetic males build nests in open habitats, whereas benthic males nest
 under vegetation. However, forcing males to nest in their nonpreferred
 habitat did not reduce the probability of spawning by females. As a
 result, habitat isolation between the species is estimated to be weak. We
 compared the strength of habitat isolation estimated in the present study
 with estimates of other behavioural barriers using previously published
 data. We discovered that, although total mating isolation between the
 species is strong, the contributions of differences in body size and male
 nuptial colour are similarly individually weak. Instead, interactions with
 other, undetermined species-specific traits were responsible for most of
 the isolation resulting from differences in body size and, in benthics,
 colour. This is one of the first attempts to estimate individual isolating
 barriers at the same time as controlling for interactions.
description: Habitat-, body size-,
 and nuptial colour-based isolation in benthic and limnetic
 sticklebackThree .csv files with
 associated .txt readme files and an R script file for replication of
 statistical analyses. The .csv files contain data from (1) a test of
 nesting habitat preference in male benthic and limnetic threespine
 stickleback, (2) a test of mate choice by female benthic and limnetic
 stickleback based on male nest habitat, and (3) mate choice trials between
 benthics and limnetics measuring the effects of size difference and male
 nuptial colour on hybridization rate.southcott et al. stickleback
 habitat isolation data.zip
DOI: 10.5061/dryad.8c1p6
title: Data from: Metadata capital in a data repository

description: This paper reports on a study exploring ‘metadata capital’ acquired via
 metadata reuse. Collaborative modeling and content analysis methods were
 used to study metadata capital in the Dryad data repository. A sample of
 20 cases for two Dryad metadata workflows (Case A and Case B) consisting
 of 100 instantiations (60 metadata objects, 40 metadata activities) was
 analyzed. Results indicate that Dryad’s overall workflow builds metadata
 capital, with the total metadata reuse at 50% or greater for 8 of 12
 metadata properties, and 5 of these 8 properties showing reuse at 80% or
 higher. Metadata reuse is frequent for basic bibliographic properties
 (e.g., author, title, subject), although it is limited or absent for more
 complex scientific properties (e.g., taxon, spatial, and temporal
 information). This paper provides background context, reports the research
 approach and findings, and considers research implications and system
 design priorities that may contribute to metadata capital—long term.
description: figure_2_phase_1_case_aData showing metadata reuse in Dryad for Case A, during phase 1.figure_2_phase_1_case_bData showing metadata reuse in Dryad for Case B, during phase 1.figure_3_phase_2_case_aData showing metadata reuse in Dryad for Case A, during phase 2.figure_3_phase_2_case_bData showing metadata reuse in Dryad for Case B, during phase 2.
DOI: 10.5061/dryad.3090c
title: Data from: Direct evidence that density-dependent regulation underpins the temporal stability of abundant species in a diverse animal community

description: To understand how ecosystems are structured and stabilized, and to
 identify when communities are at risk of damage or collapse, we need to
 know how the abundances of the taxa in the entire assemblage vary over
 ecologically meaningful timescales. Here, we present an analysis of
 species temporal variability within a single large vertebrate community.
 Using an exceptionally complete 33-year monthly time series following the
 dynamics of 81 species of fishes, we show that the most abundant species
 are least variable in terms of temporal biomass, because they are under
 density-dependent (negative feedback) regulation. At the other extreme, a
 relatively large number of low abundance transient species exhibit the
 greatest population variability. The high stability of the consistently
 common high abundance species—a result of density-dependence—is reflected
 in the observation that they consistently represent over 98% of total fish
 biomass. This leads to steady ecosystem nutrient and energy flux
 irrespective of the changes in species number and abundance among the
 large number of low abundance transient species. While the
 density-dependence of the core species ensures stability under the
 existing environmental regime, the pool of transient species may support
 long-term stability by replacing core species should environmental
 conditions change.
description: hinkleyThis spreadsheet includes the annual abundance data for fish at Hinkley Point in the Bristol Channel collected between 1981 and 2012. Each monthly sample was collected using the same effort and method. For methods see: Henderson & Holmes (1990). Population stability over a ten year period in the short-lived fish Liparis liparis. J. Fish Biol. 37, 605-615. Henderson & Holmes (1991). On the population dynamics of dab, sole and flounder in the lower Severn estuary, England. Neth. J. Sea Res. 27 (3/4), 337-344. Henderson, James & Holmes (1992). Trophic structure within the Bristol Channel: seasonality and stability in Bridgwater Bay. J. Mar. Biol. Ass. UK. 71, 675-690. Bamber, R.N. & Henderson, P. A. (1994). Seasonality of caridean decapod and mysid distribution and movements within the Severn Estuary and Bristol Channel. Biol. J. Lin. Soc. 51, 83-91. Henderson, P. A. & Seaby, R. M. H. (1994). On the factors influencing juvenile flat fish abundance in the lower Severn Estuary. Neth. J. Sea Res. 33; 321-330. Henderson, P. A. & Seaby, R. M. H. (1999). Population stability of the sea snail at the southern edge of its range. J. Fish Biol. 54, 1161-1176.
DOI: 10.5061/dryad.2r025
title: Data from: Posttraumatic stress reactions in parents of children esophageal atresia.

description: Objective – The aim of this study was to investigate psychological stress
 in parents of children with esophageal atresia and to explore factors
 associated with the development of Posttraumatic Stress disorder (PTSD).
 Design - Self-report questionnaires were administered to parents of
 children with EA. Domains included: (1) sociodemographic data, current
 personal difficulties, assessment scales for the quality of life and for
 the global health status of the child (2) French-validated versions of the
 Perinatal Posttraumatic Stress disorder Questionnaire and of the
 State-Trait Anxiety Inventory. Associations between PTSD and severity of
 the neonatal course, presence of severe sequelae at 2 years of age, and
 quality of life and global health status of children according to their
 parents’ perception were studied. Setting – a Tertiary care University
 Hospital Results - Among 64 eligible families, 54 parents of 38 children
 (59%) participated to the study. PTSD was present in 32 (59%) parents;
 mothers were more frequently affected than fathers (69 vs 46%, p=0.03).
 Four mothers (8%) had severe anxiety. PTSD was neither associated with
 neonatal severity nor with severe sequelae at 2 years. Parents with PTSD
 rated their child’s quality of life and global health status significantly
 lower (7.5 vs 8.6; p=0.01 and 7.4 vs 8.3; p=0.02 respectively).
 Conclusions - PTSD is frequent in parents of children with esophageal
 atresia, independently of neonatal severity and presence of severe
 sequelae at 2 years of age. Our results highlight the need for a long-term
 psychological support of families.
description: LeGouez_PlosOne2016Neonatal data from a cohort of children with esophageal atresia and their parents' psychological responses (PPQ and STAI questionnaires).
DOI: 10.5061/dryad.h53v8
title: Data from: Syphilis infection among homosexual men reporting contact with syphilis: a case control study

description: OBJECTIVE: High rates of syphilis have been reported among men who have
 sex with men (MSM) internationally. Guidelines recommend presumptive
 treatment of sexual contacts of individuals with syphilis at the point of
 care. The aim of this study was to determine among men reporting contact
 with a man with syphilis the proportion who were infected with syphilis
 and the factors predictive of infection. DESIGN: Contacts who were
 syphilis infected (cases) were compared with those who were uninfected
 (controls). SETTING: This study was conducted at the main public sexually
 transmitted diseases clinic in Victoria, Australia. PARTICIPANTS: One
 hundred and seventy two MSM presenting as sexual contacts of men with
 syphilis at a sexual health service in Melbourne, Australia, between July
 2007 and October 2011 were assessed for syphilis. OUTCOME MEASURES:
 Proportion of MSM who are infected with syphilis and factors associated
 with infection. RESULTS: Of 172 men who presented reporting contact with
 syphilis, 26 (15%, 95% CI: 10-20%) had syphilis. One man had primary
 syphilis, four had secondary syphilis, while the remaining 21 had early
 latent syphilis. Infection was associated with unprotected anal sex over
 the prior 3 months (adjusted odds ratio 6.1, 95% CI 1.4-26.8). CONCLUSION:
 One in seven men presenting as contacts of syphilis had syphilis
 infection, most of whom were latently infected. Contacts reporting recent
 unprotected anal sex were more likely to have syphilis.
description: Data on syphilis
 contactsThese SPSS data show the
 characteristics and laboratory results for 172 men who presented to the
 Melbourne Sexual Health Centre as contacts of other men with
 syphilis.Syphilis contacts final data
 for DRYAD.sav
DOI: 10.5061/dryad.72p7k
title: Data from: Genus-wide microsatellite primers for the goldenrods (Solidago; Asteraceae)

description: Premise of the study: Microsatellite primers were developed for studies of
 polyploid evolution, ecological genetics, conservation genetics, and
 species delimitation in the genus Solidago. Methods and Results: Illumina
 sequencing of a shotgun library from S. gigantea identified ca. 1900
 putative single-copy loci. Fourteen loci were subsequently shown to be
 amplifiable, single-copy, and variable in a broad range of Solidago
 species. Conclusions: The utility of these markers both across the genus
 and in herbarium specimens of a wide age range will facilitate numerous
 inter- and intraspecific studies in the ca. 120 Solidago species
description: Solidago SSR paired end
 readsIncluded is a file
 detailing the paired-end Illumina reads used to design primers for the 14
 SSR loci reported in the manuscript. Each read begins with the
 corresponding locus name from Table 1.Solidago_SSRs.fastq.txt
DOI: 10.5061/dryad.c1q5h
title: Data from: Predicting bird song from space

description: Environmentally imposed selection pressures are well known to shape animal
 signals. Changes in these signals can result in recognition mismatches
 between individuals living in different habitats, leading to reproductive
 divergence and speciation. For example, numerous studies have shown that
 differences in avian song may be a potent prezygotic isolating mechanism.
 Typically, however, detailed studies of environmental pressures on
 variation in animal behavior have been conducted only at small spatial
 scales. Here, we use remote-sensing data to predict animal behavior, in
 this case, bird song, across vast spatial scales. We use remotely sensed
 data to predict the song characteristics of the little greenbul
 (Andropadus virens), a widely distributed African passerine, found across
 secondary and mature rainforest habitats and the rainforest-savanna
 ecotone. Satellite data that captured ecosystem structure and function
 explained up to 66% of the variation in song characteristics. Song
 differences observed across habitats, including those between
 human-altered and mature rainforest, have the potential to lead to
 reproductive divergence, and highlight the impacts that both natural and
 anthropogenic change may have on natural populations. Our approach offers
 a novel means to examine the ecological correlates of animal behavior
 across large geographic areas with potential applications to both
 evolutionary and conservation biology.
description: Characteristics of four
 songtypes for Andropadus virens by site in Cameroon, Central
 AfricaThese are the measured
 song characteristic averages of four songtypes of the little greenbul,
 Andropadus virens, at each site in Cameroon sampled in the manuscript
 "Predicting Song from Space". If particular song or bird data
 are needed, please contact the authors.PredictingSongfromSpaceRawData.csv
DOI: 10.5061/dryad.d2r5027j
title: Data from: Biophysical modeling of the temporal niche: from first principles to the evolution of activity patterns

description: Most mammals can be characterized as nocturnal or diurnal. However
 infrequently, species may overcome evolutionary constraints and alter
 their activity patterns. We modeled the fundamental temporal niche of a
 diurnal desert rodent, the golden spiny mouse, Acomys russatus. This
 species can shift into nocturnal activity in the absence of its congener,
 the common spiny mouse, A. cahirinus, suggesting that it was competitively
 driven into diurnality, and that this shift in a small desert rodent may
 involve physiological costs. Therefore, we compared metabolic costs of
 diurnal vs. nocturnal activity using a biophysical model to evaluate the
 preferred temporal niche of this species. The model predicted that energy
 expenditure during foraging is almost always lower during the day except
 during mid-day in summer at the less sheltered microhabitat. We also found
 that a shift in summer to foraging in less sheltered microhabitats in
 response to predation pressure and food availability involves a
 significant physiological cost moderated by midday reduction in activity.
 Thus adaptation to diurnality may reflect the 'ghost of competition
 past'; Climate-driven diurnality is an alternative but less likely
 hypothesis. While climate is considered to play a major role in the
 physiology and evolution of mammals, this is the first study to model its
 effect on the evolution of activity patterns of mammals.
description: Predicted day versus
 night energy expenditurehourly means of
 individuals’ (summer, n=5; winter, n=6) calculated energy expenditure
 during daytime and nighttime foraging in the UB and BB microhabitats.
 "chip" is the unique identifier for each individual and
 "met" is the predicted mean hourly energy expenditure [mW/g
 Mb].Levy et
 al - met data.txtPredicted day versus
 night evaporative water losshourly means of
 individuals’ (summer, n=5; winter, n=6) calculated evaporative water loss
 during daytime and nighttime foraging in the UB and BB microhabitats.
 "chip" is the unique identifier for each individual and
 "evp" is the predicted mean hourly evaporative water loss [mg
 H2O/sec×g Mb].Levy et al - evp
 data.txt
DOI: 10.5281/zenodo.18385451
title: Aggregated Surface Roughness and Topology Data for 316L LPBF Parts under Varying Laser Parameters

description: This dataset contains aggregated and visualized results from LPBF (Laser Powder Bed Fusion) experiments on 316L stainless steel, conducted within the ARUMAM project. It includes:





Surface topology images for overhang angles of 25°, 30°, and 35° (Topo_25deg.png, Topo_30deg.png, Topo_35deg.png)




3D graphs showing the dependence of surface roughness Sz on laser power and hatch distance for the same angles (Sz_3D_25deg.png, Sz_3D_30deg.png, Sz_3D_35deg.png)




Comparative graphs of volumetric energy density (VED) versus Sz (VED_vs_Sz_25deg.png, VED_vs_Sz_30deg.png, VED_vs_Sz_35deg.png)




Tensile test data (Tensile_test.png) illustrating stress-strain behavior of the printed samples



The dataset provides aggregated and derived information for analysis and comparison. Raw experimental data are not included.
DOI: 10.5281/zenodo.18385452
title: Aggregated Surface Roughness and Topology Data for 316L LPBF Parts under Varying Laser Parameters

description: This dataset contains aggregated and visualized results from LPBF (Laser Powder Bed Fusion) experiments on 316L stainless steel, conducted within the ARUMAM project. It includes:





Surface topology images for overhang angles of 25°, 30°, and 35° (Topo_25deg.png, Topo_30deg.png, Topo_35deg.png)




3D graphs showing the dependence of surface roughness Sz on laser power and hatch distance for the same angles (Sz_3D_25deg.png, Sz_3D_30deg.png, Sz_3D_35deg.png)




Comparative graphs of volumetric energy density (VED) versus Sz (VED_vs_Sz_25deg.png, VED_vs_Sz_30deg.png, VED_vs_Sz_35deg.png)




Tensile test data (Tensile_test.png) illustrating stress-strain behavior of the printed samples



The dataset provides aggregated and derived information for analysis and comparison. Raw experimental data are not included.
DOI: 10.5061/dryad.t2v7g
title: Data from: Limited by the roof of the world: mountain radiations of Apollo swallowtails controlled by diversity-dependence processes

description: Mountainous areas comprise a substantial part of the world species
 richness, but the evolutionary origins and diversification of this
 biodiversity remain elusive. Diversification may result from differences
 in clade age (longer time to diversify), net diversification rates (faster
 speciation rate), or carrying capacities (number of niches). The
 likelihood of these macroevolutionary scenarios was assessed for six
 clades of Apollo swallowtails (Parnassius) that diversified mainly in the
 Himalayan-Tibetan region. The analyses suggest that neither the clade age,
 nor the speciation rate could explain the mountain butterfly
 diversification. Instead diversity-dependence models were strongly
 supported for each group. Models further estimated clades’ carrying
 capacities that approximate the current number of species, indicating that
 diversity equilibrium is reached (or close to be). The results suggest
 that diversification of mountain butterflies was controlled by ecological
 limits, which governed the number of niches, and provide macroevolutionary
 justification for regarding mountains as islands.
description: Dated trees of
 ParnassiusThe zip file contains
 the Parnassius trees used to fit diversification models. The global tree
 (Parnassius_MolMorpho_BD.tre) has been used to create the six independent
 mountain radiations.Parnassius_data.zip
DOI: 10.5061/dryad.gm465
title: Data from: Male-female genotype interactions maintain variation in traits important for sexual interactions and reproductive isolation

description: Prezygotic reproductive isolation can evolve quickly when sexual selection
 drives divergence in traits important for sexual interactions between
 populations. It has been hypothesized that standing variation for
 male/female traits and preferences facilitates this rapid evolution and
 that variation in these traits is maintained by male–female genotype
 interactions in which specific female genotypes prefer specific male
 traits. This hypothesis can also explain patterns of speciation when
 ecological divergence is lacking, but this remains untested because it
 requires information about sexual interactions in ancestral lineages.
 Using a set of ancestral genotypes that previously had been identified as
 evolving reproductive isolation, we specifically asked whether there is
 segregating variation in female preference and whether segregating
 variation in sexual interactions is a product of male–female genotype
 interactions. Our results provide evidence for segregating variation in
 female preference and further that male–female genotype interactions are
 important for maintaining variation that selection can act on and that can
 lead to reproductive isolation.
description: Castillo and Delph
 isofemale dataFor each mating
 replicate data is provided for the length of the male and female, the
 interaction latency, and copulation latency
DOI: 10.5061/dryad.s781c7kq
title: Data from: Swimming against the current: genetic structure, host mobility and the drift paradox in trematode parasites

description: Life cycle characteristics and habitat processes can potentially interact
 to determine gene flow and genetic structuring of parasitic species. In
 this comparative study, we analysed the genetic structure of two
 freshwater trematode species with different life histories using
 cytochrome c oxidase I gene (COI) sequences and examined the effect of a
 unidirectional river current on their genetic diversity at 10 sites along
 the river. We found moderate genetic structure consistent with an
 isolation by distance pattern among subpopulations of Coitocaecum parvum
 but not in Stegodexamene anguillae. These contrasting parasite population
 structures were consistent with the relative dispersal abilities of their
 most mobile hosts (i.e. their definitive hosts). Genetic diversity
 decreased, as a likely consequence of unidirectional river flow, with
 increasing distance upstream in C. parvum, which utilises a definitive
 host with only restricted mobility. The absence of such a pattern in S.
 anguillae suggests that unidirectional river flow affects parasite species
 differently depending on the dispersal abilities of their most mobile
 host. In conclusion, genetic structure, genetic diversity loss and drift
 are stronger in parasites whose most mobile hosts have low dispersal
 abilities and small home ranges. An additional prediction can be made for
 parasites under unidirectional drift: those parasites that stay longer in
 their benthic intermediate host or have more than one benthic intermediate
 hosts would have relatively high local recruitment and hence increased
 retention of upstream genetic diversity.
description: Haplotypes distribution
 along the river linked to Genbank accession numbers
DOI: 10.5061/dryad.1b549
title: Data from: More than bindin divergence: reproductive isolation between sympatric subspecies of a sea urchin by asynchronous spawning

description: The evolution of reproductive barriers is crucial to the process of
 speciation. In the Echinoidea, studies have focused on divergence in the
 gamete recognition protein, bindin, as the primary isolating mechanism
 among species. As such, the capacity of alternate mechanisms to be
 effective reproductive barriers and the phylogenetic context in which they
 arise is unclear. Here, we examine the evolutionary histories and factors
 limiting gene exchange between two subspecies of Heliocidaris
 erythrogramma that occur sympatrically in Western Australia. We found low,
 but significant differentiation between the subspecies in two
 mitochondrial genes. Further, coalescent analyses suggest that they
 diverged in isolation on the east and west coasts of Australia, with a
 subsequent range expansion of H. e. erythrogramma into Western Australia.
 Differentiation in bindin was minimal, indicating gamete incompatibility
 is an unlikely reproductive barrier. We did, however, detect strong
 asynchrony in spawning seasons; H. e. erythrogramma spawned over summer
 while H. e. armigera spawned in autumn. Taken together, we provide
 compelling evidence for a recent divergence of these subspecies and their
 reproductive isolation without gamete incompatibility. Western Australian
 H. erythrogramma may therefore present an intriguing case of incipient
 speciation, which depends on long-term persistence of the factors
 underlying this spawning asynchrony.
description: Sex
 RatioSpawning
 DataGSI
 Data