cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.rp7n9
title: Data from: Large-scale genotyping of highly polymorphic loci by next generation sequencing: how to overcome the challenges to reliably genotype individuals?

description: Studying the different roles of adaptive genes is still a challenge in
 evolutionary ecology and requires reliable genotyping of large numbers of
 individuals. Next-generation sequencing (NGS) techniques enable such
 large-scale sequencing, but stringent data processing is required. Here,
 we develop an easy to use methodology to process amplicon-based NGS data
 and we apply this methodology to reliably genotype four major
 histocompatibility complex (MHC) loci belonging to MHC class I and II of
 Alpine marmots (Marmota marmota). Our post-processing methodology allowed
 us to increase the number of retained reads. The quality of genotype
 assignment was further assessed using three independent validation
 procedures. A total of 3069 high-quality MHC genotypes were obtained at
 four MHC loci for 863 Alpine marmots with a genotype assignment error rate
 estimated as 0.21%. The proposed methodology could be applied to any
 genetic system and any organism, except when extensive copy-number
 variation occurs (that is, genes with a variable number of copies in the
 genotype of an individual). Our results highlight the potential of
 amplicon-based NGS techniques combined with adequate post-processing to
 obtain the large-scale highly reliable genotypes needed to understand the
 evolution of highly polymorphic functional genes.
description: output data from the
 sequencing machineData sequenced on an
 eighth of a PicoTiterPlate of a Roche® 454 FLX sequencing
 instrumentdata.fna
DOI: 10.5061/dryad.q3p64
title: Data from: Early warning signals of extinction in deteriorating environments

description: During the decline to extinction, animal populations may present dynamical
 phenomena not exhibited by robust populations. Some of these phenomena,
 such as the scaling of demographic variance, are related to small size,
 whereas others result from density-dependent nonlinearities. Although
 understanding the causes of population extinction has been a central
 problem in theoretical biology for decades, the ability to anticipate
 extinction has remained elusive. Here we argue that the causes of a
 population’s decline are central to the predictability of its extinction.
 Specifically, environmental degradation may cause a tipping point in
 population dynamics, corresponding to a bifurcation in the underlying
 population growth equations, beyond which decline to extinction is almost
 certain. In such cases, imminent extinction will be signalled by critical
 slowing down (CSD). We conducted an experiment with replicate laboratory
 populations of Daphnia magna to test this hypothesis. We show that
 populations crossing a transcritical bifurcation, experimentally induced
 by the controlled decline in environmental conditions, show statistical
 signatures of CSD after the onset of environmental deterioration and
 before the critical transition. Populations in constant environments did
 not have these patterns. Four statistical indicators all showed evidence
 of the approaching bifurcation as early as 110 days (~8 generations)
 before the transition occurred. Two composite indices improved
 predictability, and comparative analysis showed that early warning signals
 based solely on observations in deteriorating environments without
 reference populations for standardization were hampered by the presence of
 transient dynamics before the onset of deterioration, pointing to the
 importance of reliable baseline data before environmental deterioration
 begins. The universality of bifurcations in models of population dynamics
 suggests that this phenomenon should be general.
description: data-and-code
DOI: 10.5061/dryad.61dg2
title: Data from: Health-related lifestyle behaviors among male and female rural-to-urban migrant workers in Shanghai, China

description: Background: Lifestyle behaviors significantly impact health, yet remain
 poorly defined in Chinese rural-to-urban migrants. Methods: In a
 cross-sectional study of health-related behaviors of 5484 rural-to-urban
 migrants who had worked in Shanghai for at least six months, we assessed
 the contribution of demographics and physical and mental health to
 lifestyle behaviors in male and female participants by multiple stepwise
 cumulative odds logistic regression. Results: Respondents were 51.3% male.
 9.9% exhibited abnormal blood pressure; 27.0% were overweight or obese;
 11.2% reported abnormal mental health; 36.9% reported healthy lifestyle.
 Multiple stepwise cumulative odds logistic regression indicated that men
 working in manufacturing reported less unhealthy lifestyle than those in
 hospitality (cumulative odds ratio (COR) = 1.806, 95%CI 1.275–2.559) or
 recreation/leisure (COR = 3.248, 95%CI 2.379–4.435); and women working in
 manufacturing and construction reported less unhealthy lifestyle than
 those in all other sectors. Unhealthy lifestyle was associated with small
 workplaces for men (COR = 1.422, 95%CI 1.154–1.752), working more than 8
 or 11 hours per day for women and men, respectively, and earning over 3500
 RMB in women (COR = 1.618, 95%CI 1.137–2.303). Single women and women who
 had previously resided in three or more cities were more likely to report
 unhealthy lifestyle (COR = 2.023, 95%CI 1.664–2.461, and COR = 1.311,
 95%CI 1.072–1.602, respectively). Abnormal mental status was also
 correlated with unhealthy lifestyle in men (COR = 3.105, 95%CI
 2.454–3.930) and women (COR = 2.566, 95%CI 2.024–3.252). Conclusions:
 There were different risk factors of unhealthy lifestyle score in male and
 female rural-to-urban migrants, especially in number of cities
 experienced, salary, marital status, work place scale. Several demographic
 groups: employment sectors (e.g. hospitality and recreation/leisure),
 working conditions (e.g. long hours) and abnormal mental status were
 associated with unhealthy lifestyle behaviors in Chinese rural-to-urban
 migrants, and health interventions should be targeted to these groups.
description: Health-related lifestyle
 behaviors among male and female rural-to-urban migrant workers in
 Shanghai, ChinaHealth-related_lifestyle_behaviors_among_male_and_female_rural-to-urban_migrant_workers_in_Shanghai.xlsCodebook
DOI: 10.15468/dl.wqjteb
title: Occurrence Download

description: A dataset listing the 588 species recorded in GBIF matching the query:
{
 "DatasetKey" : [
 "is Atlas de la Biodiversité Communale de Breuillet-ABC Breuillet"
 ]
}

 The dataset's 588 records were derived from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001609-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.24tt2
title: Data from: The emergent geography of biophysical dispersal barriers across the Indo-West Pacific

description: Aim: To discover and evaluate potential dispersal barriers across the
 Indo-West Pacific Ocean and to develop spatially explicit hypotheses
 regarding the location of barriers and their capacity to filter taxa.
 Additionally, to compare model predictions with previously described
 barriers and build a more thorough understanding of the region's
 biogeographic patterns. Location: The reefs of the Indo-West Pacific
 Ocean, from 100 to 170°E and from 30°N to 30°S. Methods: A biophysical
 larval dispersal model was used to quantify over 800,000 dispersal kernels
 by simulating 99 model taxa. Spatial analysis was used to map emergent
 patterns of potential multispecies population connectivity and predict
 geographic locations and strength of concordant dispersal barriers across
 the seascape. Results: Although individual taxa varied in their predicted
 fine-scale population connectivity, there was consistency in the location
 of dispersal barriers. Across all trait combinations, reproductive output
 (fecundity and density of reproductive adults), reproductive strategy
 (spawning phenology) and the length of the larval dispersal phase
 determined the strength of barriers across the seascape. More than 80% of
 the previously described marine boundaries in the region were predicted to
 restrict the dispersal of at least 10% of the simulated taxa. The location
 and strength of many additional multitaxa barriers were described at
 scales &lt;200 km. Main conclusions: The geographic structure
 of many previously described multispecies barriers across the Indo-West
 Pacific were predicted with the biophysical dispersal model and spatial
 analysis. The permeability of individual dispersal barriers was primarily
 determined by reproductive output, spawning phenology and the length of
 the pelagic larval stage. Across all dispersal barriers analysed,
 Euclidean distance explained up to 49% of the variation in barrier
 strength.
description: Treml_etal_Appendix_S2_Reef_LocationsList of reef IDs and centroid locations.Treml_etal_Appendix_S4_99SP_Prob_Mat_1002x1002x99Row-normalized probability matrices for the 99 trait combinations as a three-dimensional array for reading in the R software environment (.RData file). Array indexing as [from reef, to reef, model taxon].Read_Treml_etal_ConMatsExample R script for reading and extracting data matrices from the .RData file.
DOI: 10.5061/dryad.24061
title: Data from: Conspicuous female ornamentation and tests of male mate preference in threespine sticklebacks (Gasterosteus aculeatus)

description: Sexual selection drives the evolution of exaggerated male ornaments in
 many animal species. Female ornamentation is now acknowledged also to be
 common but is generally less well understood. One example is the recently
 documented red female throat coloration in some threespine stickleback
 (Gasterosteus aculeatus) populations. Although female sticklebacks often
 exhibit a preference for red male throat coloration, the possibility of
 sexual selection on female coloration has been little studied. Using
 sequential and simultaneous mate choice trials, we examined male mate
 preferences for female throat color, as well as pelvic spine color and
 standard length, using wild-captured threespine sticklebacks from the
 Little Campbell River, British Columbia. In a multivariate analysis, we
 found no evidence for a population-level mate preference in males,
 suggesting the absence of directional sexual selection on these traits
 arising from male mate choice. Significant variation was detected among
 males in their preference functions, but this appeared to arise from
 differences in their mean responsiveness across mating trials and not from
 variation in the strength (i.e., slope) of their preference, suggesting
 the absence of individual-level preferences as well. When presented with
 conspecific intruder males, male response decreased as intruder red throat
 coloration increased, suggesting that males can discriminate color and
 other aspects of phenotype in our experiment and that males may use these
 traits in intrasexual interactions. The results presented here are the
 first to explicitly address male preference for female throat color in
 threespine sticklebacks.
description: Combined
 dataCombined data set for
 sequential and simultaneous choice trials. File includes all behavioral
 counts and all recorded fish measurements (including color measures). Data
 separated into sequential choice trials, simultaneous choice trials, and
 con-specific male sequential choice trials.Wrightetal.2015_Combined.xlsxRaw Throat Relfectance MeasuresRaw values of throat reflectance measures of all fish used. Data are separated into 2010 and 2011 year categories, for both male and female fish. Male ID (numbers) correspond to that year's trials, and not to male ID in the combined data set. For the combined data set, males are numbered 1-63, starting with the first male in 2010 and continuing sequentially through the end of the 2011 year. Con-specific or intruder males used in the con-specific male sequential choice trials are indicated with an 'I' (for example M7-I is the con-specific male presented to subject male 7)Raw Spec Values.xlsx
DOI: 10.5061/dryad.s7193
title: Data from: A novel respiratory architecture in the Silurian mollusc Acaenoplax

description: Extant aplacophorans, a group of shell-less vermiform molluscs, respire
 through appendages within or projecting from a posterior cavity.
 Respiratory structures differ between the subclasses Caudofoveata
 (ctenidia within the cavity) and Solenogastres (folds of the mantle
 itself). Acaenoplax hayae, a Silurian vermiform mollusc from the
 Herefordshire Lagerstätte, England, exhibits characteristics of both these
 groups. While recent work places it within the crown group Aplacophora,
 near the caudofoveates, initial observations suggested that its
 respiratory structures were closer to those of the solenogastres. Here, we
 present new reconstructions of the posterior of Acaenoplax prepared with
 the aim of resolving features obscured when prior studies were undertaken.
 These reconstructions detail a novel posterior architecture, not closely
 comparable to that of either extant aplacophoran group, in which
 respiratory projections arise from a membrane that partly encloses a
 central posterior cavity. The posterior membrane is flanked by small
 spherical projections; both membrane and spherical projections are
 apparently unique within the Aplacophora. The existence of this previously
 undocumented respiratory system underlines the diversity of the
 aplacophoran clade during the Palaeozoic.
description: OUMC29529Acaenoplax hayae posterior VAMXL files for specimen OUM C.29529OUMC29531Acaenoplax hayae posterior VAMXL file for specimen OUM C.29531OUMC29691Acaenoplax hayae posterior VAMXL file for specimen OUM C.29691OUMC29692Acaenoplax hayae posterior VAMXL file for specimen OUM C.29692
DOI: 10.7927/ywdg-ya18
title: IPCC AR6 Synthesis Report SPM.5 (b): Net global CO2 emissions

description: Development of global CO2 emissions pathways consistent with implemented policies and mitigation strategies. The figure shows pathways with colored ranges denoting the 5th to 95th percentiles across models. The red range represents emissions pathways assuming policies that were implemented by the end of 2020, as well as the Nationally Determined Contributions (NDCs). The green range shows pathways limiting global warming to 2°C (&gt;67%), while the blue range shows pathways limiting warming to 1.5°C (&gt;50%) with no or limited overshoot. The black line depicts past emissions (2000–2015). The error bar in 2015 indicates the 5th to 95th percentile uncertainty range of non-harmonized emissions across pathways. The figure also includes a "net zero" line indicating the long-term goal for methane emissions reduction.
DOI: 10.5061/dryad.p70r4
title: Data from: Spatial variation in age structure among populations of a colonial marine snake: the influence of ectothermy

description: 1. Several tetrapod lineages that have evolved to exploit marine
 environments (e.g. seals, seabirds, sea kraits) continue to rely upon land
 for reproduction and, thus, form dense colonies on suitable islands. 2. In
 birds and mammals (endotherms), the offspring cannot survive without their
 parents. Terrestrial colonies contain all age classes. In reptiles
 (ectotherms), this constraint is relaxed, because offspring are
 independent from birth. Hence, each age class has the potential to select
 sites with characteristics that favour them. 3. Our studies of sea snakes
 (sea kraits) in the lagoon of New Caledonia reveal marked spatial
 heterogeneity in age structure among colonies. 4. Sea krait colonies
 exhibit the endothermic ‘seal–seabird’ pattern (mixed-age classes within
 populations) only where the lagoon is narrow. Where the lagoon is wide,
 most snake colonies are comprised primarily of a single age cohort.
 Nurseries are located near the coast, adult colonies offshore and mixed
 colonies in-between. 5. We suggest that ectothermy allows individuals to
 utilize habitats that are best suited to their own ecological
 requirements, a flexibility not available to endothermic marine taxa with
 obligate parental care.
description: Nov POp Function JAE
 data base
DOI: 10.5061/dryad.38600
title: Data from: Visual modelling suggests a weak relationship between the evolution of ultraviolet vision and plumage colouration in birds

description: Birds have sophisticated colour vision mediated by four cones types that
 cover a wide visual spectrum including ultraviolet (UV) wavelengths. Many
 birds have modest UV-sensitivity provided by violet-sensitive (VS) cones
 with sensitivity maxima between 400-425 nm. However, some birds have
 evolved higher UV-sensitivity and a larger visual spectrum given by
 UV-sensitive (UVS) cones maximally sensitive at 360-370 nm. The reasons
 for VS-UVS transitions and their relationship to visual ecology remain
 unclear. It has been hypothesized that the evolution of UVS-cone vision is
 linked to plumage colours so that visual sensitivity and feather
 colouration are “matched”. This leads to the specific prediction that
 UVS-cone vision enhance the discrimination of plumage colours of UVS-birds
 while such an advantage is absent or less pronounced for VS-bird
 colouration. We test this hypothesis using knowledge of the complex
 distribution of UVS-cones among birds combined with mathematical modelling
 of colour discrimination during different viewing conditions. We find no
 support for the hypothesis, which, combined with previous studies suggests
 only a weak relationship between UVS-cone vision and plumage colour
 evolution. Instead we suggest that UVS-cone vision generally favours
 colour discrimination, which creates a non-specific selection pressure for
 the evolution of UVS-cones.
description: Contrast Gain for UVS
 birdsThe excel file contains
 contrast gain data that are reported in figures 3 and 4 in the main
 article. Data are tabulated for background (bg) and intra-plumage (intra)
 contrast during different viewing conditionas as shown in figure
 2.ContrastGain_UVSbirds.xlsContrastGain_VSbirdsThe excel file contains contrast gain data that are reported in figures 3 and 4 in the main article. Data are tabulated for background (bg) and intra-plumage (intra) contrast during different viewing conditionas as shown in figure 2.
DOI: 10.15468/dl.42bw4d
title: Occurrence Download

description: A dataset containing 3103 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Continent is Africa",
 "OccurrenceStatus is Present",
 "TaxonKey is Spodoptera frugiperda"
 ]
}

 The dataset includes 3103 records from 12 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001625-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.32ms0
title: Data from: Convergence of soil nitrogen isotopes across global climate gradients

description: Quantifying global patterns of terrestrial nitrogen (N) cycling is central
 to predicting future patterns of primary productivity, carbon
 sequestration, nutrient fluxes to aquatic systems, and climate forcing.
 With limited direct measures of soil N cycling at the global scale,
 syntheses of the 15N:14N ratio of soil organic matter across climate
 gradients provide key insights into understanding global patterns of N
 cycling. In synthesizing data from over 6000 soil samples, we show strong
 global relationships among soil N isotopes, mean annual temperature (MAT),
 mean annual precipitation (MAP), and the concentrations of organic carbon
 and clay in soil. In both hot ecosystems and dry ecosystems, soil organic
 matter was more enriched in 15N than in corresponding cold ecosystems or
 wet ecosystems. Below a MAT of 9.8°C, soil δ15N was invariant with MAT. At
 the global scale, soil organic C concentrations also declined with
 increasing MAT and decreasing MAP. After standardizing for variation among
 mineral soils in soil C and clay concentrations, soil δ15N showed no
 consistent trends across global climate and latitudinal gradients. Our
 analyses could place new constraints on interpretations of patterns of
 ecosystem N cycling and global budgets of gaseous N loss.
description: Unsummarized soil 15N
 datasoil 15N data for
 individual samples. not summarized. includes excluded data for further
 reference.CraineSoil15N.csvData Sourcesdata sources for soil 15N dataReferences.csv15NDataSummarizedMineral soil 15N data summarized to 0.1° latitude and longitude
DOI: 10.15468/dl.we2b9w
title: Occurrence Download

description: A dataset containing 682 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry MULTIPOLYGON(((0.06344 45.6935,0.06299 45.69381,0.06251 45.6941,0.06201 45.69436,0.06148 45.69461,0.06094 45.69482,0.06037 45.69502,0.05978 45.69518,0.05919 45.69532,0.05858 45.69543,0.05796 45.69551,0.05733 45.69557,0.0567 45.6956,0.05607 45.69559,0.05544 45.69556,0.05482 45.6955,0.0542 45.69541,0.05359 45.69529,0.053 45.69515,0.05242 45.69497,0.05185 45.69478,0.05131 45.69455,0.05079 45.6943,0.05029 45.69403,0.04982 45.69374,0.04938 45.69342,0.04896 45.69309,0.04858 45.69274,0.04824 45.69237,0.04793 45.69198,0.04765 45.69159,0.04742 45.69118,0.04722 45.69076,0.04706 45.69033,0.04694 45.6899,0.04686 45.68946,0.04683 45.68902,0.04683 45.68857,0.04688 45.68813,0.04696 45.6877,0.04709 45.68726,0.04726 45.68684,0.04747 45.68642,0.04771 45.68601,0.048 45.68562,0.04831 45.68524,0.04867 45.68487,0.04906 45.68452,0.04948 45.68419,0.04992 45.68388,0.0504 45.68359,0.0509 45.68333,0.05143 45.68309,0.05198 45.68287,0.05255 45.68267,0.05313 45.68251,0.05373 45.68237,0.05434 45.68226,0.05496 45.68218,0.05558 45.68212,0.05621 45.6821,0.05684 45.6821,0.05747 45.68213,0.0581 45.68219,0.05871 45.68228,0.05932 45.6824,0.05992 45.68254,0.0605 45.68272,0.06106 45.68291,0.0616 45.68314,0.06213 45.68339,0.06262 45.68366,0.06309 45.68395,0.06354 45.68427,0.06395 45.6846,0.06433 45.68495,0.06468 45.68532,0.06499 45.68571,0.06526 45.6861,0.0655 45.68651,0.0657 45.68693,0.06586 45.68736,0.06597 45.68779,0.06605 45.68823,0.06609 45.68867,0.06608 45.68912,0.06604 45.68956,0.06595 45.68999,0.06582 45.69043,0.06566 45.69085,0.06545 45.69127,0.0652 45.69168,0.06492 45.69207,0.0646 45.69245,0.06425 45.69282,0.06386 45.69317,0.06344 45.6935)))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present"
 ]
}

 The dataset includes 682 records from 5 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001623-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.