cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.wdbrv15jz
title: High-arctic family planning: earlier spring onset advances age at first reproduction in barnacle geese

description: Quantifying how key life-history traits respond to climatic change is
 fundamental in understanding and predicting long-term population
 prospects. Age at first reproduction, which affects fitness and population
 dynamics, may be influenced by environmental stochasticity but has rarely
 been directly linked to climate change. Here, we use a case study from the
 highly seasonal and stochastic environment in high-arctic Svalbard, with
 strong temporal trends in breeding conditions, to test whether rapid
 climate warming may induce changes in age at first reproduction in
 barnacle geese, Branta leucopsis. Using long-term mark-recapture and
 reproductive data (1991-2017), we developed a multi-event model to
 estimate individual age at first reproduction (i.e., goslings produced).
 The annual probability of reproducing for the first time was negatively
 affected by population density but only for two-year olds, the earliest
 age of maturity. Furthermore, advanced spring onset positively influenced
 the probability of reproducing and even more strongly the probability of
 reproducing for the first time. Thus, because climate warming has advanced
 spring onset by two weeks, this likely led to an earlier age at first
 reproduction by more than doubling the probability of reproducing at
 two-years old. This may, in turn, impact important life-history trade-offs
 and long-term population trajectories.
description: Long-term individual mark recapture, based on multiple
 observations per year from 1991-2017. Covariates used
 as predictors in the model.
description: File (1) Individual histories of female barnacle geese over a
 27-year study period (1990-2017). 2 =status breeding (observed with
 goslings), 1 = observed without goslings and 0 = not observed. Individuals
 histories were fitted with a multi-event model in E-SURGE to model the
 transitions probilities among states, the multi-event framework allows for
 estimation of state uncertainty i.e., whether a female was a pre-breeder
 (never bred before) or a non-breeder.  
 File (1) Scaled covariates, timing of spring onset (SO) and adult
 population size (POP) used as predictors in the multi-event
 model. Model implementation can be found in the
 supplementary informatoin along with the manuscript.
DOI: 10.5061/dryad.v6wwpzgrw
title: Leaf margins in a deciduous lineage from the Greater Cape Floristic Region track climate in unexpected directions

description: Premise of the study: The functional significance of leaf margins has long
 been debated. In this study we explore influences of climate, leaf lobing,
 woodiness, and shared evolutionary history on two leaf margin traits
 within the genus Pelargonium. Methods: Leaves from 454 populations of
 Pelargonium (161 species) were collected in the Greater Cape Floristic
 Region and scored for tooth presence/absence and degree of lobing. Tooth
 density (number of teeth per interior perimeter distance) was measured for
 a subset of these. We compared five hypotheses to explain tooth presence
 and density using mixed effect models. Key results: Tooth presence/absence
 was best predicted by the interaction of leaf lobing and mean annual
 temperature (MAT), but often in patterns opposite to the previous
 literature: species were more likely to be toothed with warmer
 temperatures. This was particularly the case for unlobed and highly lobed
 leaves. In contrast, tooth density was best predicted by the interaction
 of MAT and the season of most rain; density declines with temperature as
 consistent with expectations, but only in winter- rain dominated areas.
 Woody and non-woody species within Pelargonium both have similar
 associations between tooth presence/absence and MAT, contrary to the
 expectation that patterns within non-woody species would be insignificant.
 Conclusions: We conclude Pelargonium leaf margins show predictable
 responses to climate, but these responses are complex and can contradict
 those found for global patterns across plant communities.
description: Please see https://github.com/henryf6/pelargonium_margins for code associated with these datasets. See the README file.
DOI: 10.5061/dryad.2z34tmphf
title: Scale dependence of temporal biodiversity change in modern and fossil marine plankton

description: Aim Biodiversity dynamics comprise evolutionary and ecological changes on
 multiple temporal scales from millions of years to decades, but
 they are often interpreted within a single time frame. Planktonic
 foraminifera communities offer a unique opportunity for analyzing
 the dynamics of marine biodiversity over different temporal scales.
 Our study aims to provide a baseline for assessments of
 biodiversity patterns over multiple time scales, which
 is urgently needed to interpret biodiversity responses to
 increasing anthropogenic pressure. Location Global (26 sites) Time period
 Five time scales: multi-million-year (0-7 Ma), million-year (0-0.5 Ma),
 multi-millennial (0-15 thousand years), millennial (0-1100
 years), and decadal (0-32 years) Major taxa studied Planktonic
 foraminifera Methods We analysed community composition of planktonic
 foraminifera at five time scales, combining measures of standing
 diversity (richness and ENS, effective number of species) with measures of
 temporal community turnover (presence-absence-based,
 dominance-based). Observed biodiversity patterns were compared with the
 outcome of a neutral model to separate the effects of sampling
 resolution (the highest in the shortest time series)
 from biological responses. Results Richness and ENS decreased
 from multi-million-year to millennial time scale, but higher standing
 diversity was observed on the decadal scale. As predicted by the
 neutral model, turnover in species identity and dominance
 was strongest at the multi-million-year time scale and decreased
 towards millennial scale. However, contrary to the model
 predictions, modern time series show rapid decadal variation in the
 dominance structure of foraminifera communities, which is of
 comparable magnitude as over much longer time. Community turnover was
 significantly correlated with global temperature change, but not
 on the shortest time scale. Main conclusions Biodiversity patterns can be
 to some degree predicted from the scaling effects related to different
 durations of time series, but changes in the dominance structure
 observed over the last few decades reach higher magnitude,
 probably forced by anthropogenic effects, than those observed
 over much longer durations.
description: This data base contains results of time series analysis of
 planktonic foraminifera diversity. Original data on foraminifera community
 composition used in this analysis were obtained from literature and all
 data sources are listed in the Appendix S1 (Supporting Information
 Online). Please read the MarBAS file before usage.
DOI: 10.5061/dryad.kkwh70s27
title: Epiphytic bryophyte diversity and range distributions along an elevational gradient in Marojejy, Madagascar

description: Describing spatial variation in species richness and understanding its
 links to ecological mechanisms are complementary approaches for
 explaining geographical patterns of richness. The study of
 elevational gradients holds enormous potential for understanding the
 factors underlying global diversity. This paper investigates the
 pattern of species richness and range-size distribution of
 epiphytic bryophytes along an elevational gradient in Marojejy National
 Park, North-east Madagascar. The main objectives are to describe
 bryophyte species composition and endemism in Marojejy National
 Park, to describe the species richness and distribution patterns
 of epiphytic bryophytes along an elevational gradient from 250 m
 to 2050 m and to evaluate the explanatory value of environmental
 variables for the observed patterns. Bryophyte samples
 were collected following a nested design with four hierarchical
 levels: elevational belts, plots, quadrats and microplots. In
 total, 254 epiphytic bryophyte species were recorded, comprising
 157 liverworts and 97 mosses. Twenty-three of these are endemic
 to Madagascar. Species richness exhibits a hump-shaped pattern
 along the elevational gradient, peaking at 1250 m. Eighty seven percent of
 the total recorded species have a range distribution lower than 1000 m, at
 which point 36% are restricted to these single elevations. Our
 results suggest that mean temperature, relative humidity and
 vapour pressure deficit play important roles in shaping the richness
 pattern observed in this study. While the liverwort richness
 pattern did not correlate to vapour pressure deficit and
 responded only weakly to relative humidity, the richness pattern shown by
 mosses correlates well with mean temperature, relative humidity
 and vapour pressure deficit.
DOI: 10.25934/pr00012554.0
title: Available datapackage for study 'Rapid Olfactory Tools for Telemedicine-Friendly COVID-19 Screening and Survey'

description: Vivli is an independent, non-profit organization that has developed a global data-sharing and analytics platform to serve all elements of the international research community. Our mission is to promote, coordinate, and facilitate scientific sharing and reuse of clinical research data through the creation and implementation of a sustainable global data-sharing enterprise. The Vivli platform includes an independent data repository, in-depth search engine and a cloud-based, secure analytics platform.
DOI: 10.5061/dryad.r4xgxd28g
title: Comparable space use by lions between hunting concessions and national parks in West Africa

description: Spatially varied resources and threats govern the persistence of African
 lions across dynamic protected areas. An important precursor to effective
 conservation for lions requires assessing tradeoffs in space use due to
 heterogeneity in habitat, resources, and human presence between national
 parks and hunting areas, the dominant land-use classifications across
 their range. We conducted the largest camera survey in West Africa,
 encompassing 3 national parks and 11 hunting concessions in Burkina Faso
 and Niger, equating to half of the 26,500-km2 transboundary
 W-Arly-Pendjari (WAP) protected area complex. We combined occupancy and
 structural equation modeling to disentangle the relative effects of
 environmental, ecological, and anthropogenic variables influencing space
 use of Critically Endangered lions across 21,430 trap-nights from
 2016-2018. National parks are intended to serve as refuges from human
 pressures, and thus we expect higher lion occupancy in national parks
 (NPs) compared to neighboring hunting concessions (HCs). But because prey
 availability drove lion occupancy and was comparable between NPs and HCs,
 lions exhibited no spatial response to management type. Prey availability
 was primarily influenced by edge effects and natural water availability.
 Furthermore, water availability and habitat diversity were higher in HCs,
 possibly outweighing disturbances from higher human occupancy and road
 density. Synthesis and applications. We found that lions exhibited no
 avoidance hunting concessions, despite higher human occupancy than in
 neighboring national parks. This may be due to the lions’ heavy reliance
 on depleted prey populations and preferred habitat characteristics in
 hunting concessions. We provide potential management interventions to
 indirectly influence lion space use, such as enhancing water availability
 and reducing human disturbance at park edges. Our findings provide insight
 into lion habitat preferences in a system degraded by human pressures and
 prey depletion, aiding in the understanding of management’s role in the
 ecology and conservation of charismatic species such as the West African
 lion.
DOI: 10.5061/dryad.z34tmpg8z
title: Data from: Differential divergence in autosomes and sex chromosomes is associated with intra-island diversification at a very small spatial scale in a songbird lineage

description: Recently diverged taxa showing marked phenotypic and ecological diversity
 are optimal systems to understand the genetic processes underlying
 speciation. We used genome-wide markers to investigate the diversification
 of the Reunion grey white eye (Zosterops borbonicus) on the small volcanic
 island of Reunion (Mascarene archipelago), where this species complex
 exhibits four geographic forms that are parapatrically distributed across
 the island and differ strikingly in plumage colour. One form restricted to
 the highlands is separated by a steep ecological gradient from three
 distinct lowland forms which meet at narrow hybrid zones that are not
 associated with environmental variables. Analyses of genomic variation
 based on SNP data from genotyping-by-sequencing and pooled RADseq
 approaches, reveal that signatures of selection associated with elevation
 can be found at multiple regions across the genome, whereas most loci
 associated with the lowland forms are located on the Z sex chromosome. We
 identified TYRP1, a Z-linked colour gene, as a likely candidate locus
 underlying colour variation among lowland forms. Tests of demographic
 models revealed that highland and lowland forms diverged in the presence
 of gene flow, and divergence has progressed as gene flow was restricted by
 selection at loci across the genome. This system is promising to
 investigate how natural selection and reproductive isolation shape the
 genomic landscape of divergence at multiple stages of the speciation
 process.
description: The VCF files correspond to SNPs called with freebayes, then
 filtered with VCFTools, with <em>Zosterops lateralis</em> used
 as a reference. There is one VCF file for autosomes (including the
 scaffolds mapping to Zebra Finch's 4A that are actually fused to ZW
 chromosomes), and another one for Z-linked markers.
 There are also files with allele counts for each of the 13 pools
 included in the RAD-seq experiment. The file data.auto contains allele
 counts for autosomal markers, while data.Z contains data for Z-linked
 markers. At last, the file
 Orientation_Z_lateralis_scaffolds_Zebra_finch.txt contains information
 about the LASTZ alignment of <em>Z. lateralis</em> scaffolds
 on the Zebra Finch genome. Median position of alignments on the Zebra
 Finch genome and orientation are provided to order Z. lateralis scaffolds
 along Zebra Finch chromosomes.
description: For the files listing allele counts, for each pool, the number of
 reference allele is under a column named
 reference_count_<em>PoolName </em>and the total number of
 reads covering the sequenced site is under a column
 named pool_depth_<em>PoolName</em>
DOI: 10.5061/dryad.tdz08kpwh
title: Data from: Upper Toarcian (Lower Jurassic) marine gastropods from the Cleveland Basin, England: systematics, palaeobiogeography and contribution to biotic recovery from the early Toarcian extinction event

description: Here we describe a new late Toarcian (Lower Jurassic) marine gastropod
 fauna from rocks of the Cleveland Basin exposed on the North Yorkshire
 coast of England. The fossil assemblage comprises sixteen species, of
 which three are new: Katosira? bicarinata sp. nov., Turritelloidea
 stepheni sp. nov. and Striactaenonina elegans sp. nov. Four species are
 described in open nomenclature as Tricarilda? sp., Jurilda sp.,
 Cylindrobullina sp. and Cossmannina sp. The other species have previously
 been described: Coelodiscus minutus (Schübler in Zieten), Procerithium
 quadrilineatum (Römer), Pseudokatosira undulata (Benz in von Zieten),
 Palaeorissoina aff. acuminata (Gründel, 1999b), Pietteia unicarinata
 (Hudleston), Globularia cf. canina (Hudleston), Striactaeonina cf.
 richterorum Schulbert & Nützel, Striactaenonina aff. tenuistriata
 (Hudleston) and Sulcoactaeon sedgvici (Phillips). Most of these species
 are the earliest records of their respective genera and show
 palaeobiogeographical connections with contemporary gastropod associations
 from other regions of Europe and South America. The taxonomic composition
 of the late Toarcian Cleveland Basin gastropod assemblage differs
 substantially from the faunas of the late Pliensbachian and early Toarcian
 Tenuicostatum Zone, showing the strong effect of the early Toarcian mass
 extinction event on the marine gastropod communities in the basin. Only a
 few gastropod species are shared between the late Toarcian faunas and the
 much more diverse Aalenian gastropod faunas in the Cleveland Basin,
 suggesting there was a facies control on gastropod occurrences at that
 time. This is also a potential explanation for the taxonomic differences
 between the late Toarcian gastropod faunas in the Cleveland Basin and
 those in France, and Northern and Southern Germany.
DOI: 10.5061/dryad.v15dv41sq
title: Data from: Predicting fine root lifespan from plant functional traits in temperate trees

description: • Although linkages of leaf and whole-plant traits to leaf lifespan have
 been rigorously investigated, there is a limited understanding of similar
 linkages of whole-plant and fine root traits to root lifespan. In
 comparisons across species, do suites of traits found in leaves also exist
 for roots, and can these traits be used to predict root lifespan? • We
 observed the fine root lifespan of 12 temperate tree species using
 minirhizotrons in a common garden and compared their median lifespans with
 fine-root and whole-plant traits. We then determined which set of combined
 traits would be most useful in predicting patterns of root lifespan. •
 Median root lifespan ranged widely among species (95–336 d). Root
 diameter, calcium content, and tree wood density were positively related
 to root lifespan, whereas specific root length, nitrogen (N) : carbon (C)
 ratio, and plant growth rate were negatively related to root lifespan.
 Root diameter and plant growth rate, together (R2 = 0.62) or in
 combination with root N : C ratio (R2 = 0.76), were useful predictors of
 root lifespan across the 12 species. • Our results highlight linkages
 between fine root lifespan in temperate trees and plant functional traits
 that may reduce uncertainty in predictions of root lifespan or turnover
 across species at broader spatial scales.
description: See Materials and Methods in related article.
description: "PA Common Garden.txt" contains root dynamics data form
 related article in tab delinated format. "PA
 Common Garden Column Info.txt" contains description of data contained
 in the "PA Common Garden.txt".
DOI: 10.5061/dryad.47d7wm392
title: Habitat specific effects of bark on wood decomposition: influences of fragmentation, nitrogen concentration, and microbial community composition

description: 1.    Identifying the drivers of decomposition is
 critical for understanding carbon cycling dynamics in forest ecosystems.
 Woody biomass is an important pool of carbon, composed of bark and
 underlying wood that differ in structure, nutrient concentrations, and
 exposure to the environment. We hypothesized that higher nutrient
 concentrations in bark would speed the decomposition of underlying wood,
 and that this effect would be greater in streams, where nutrients are less
 available to decomposers than on land. 2.     
 Replicate branches of three tree species, with and without bark, were
 placed in streams and on land in a lowland tropical forest in Panama.
 After 3 and 11 months of decomposition, we measured mass loss and nitrogen
 (N) concentrations and sequenced the fungal and bacterial communities of
 both wood and bark tissues. 3.      While bark
 decomposed faster than the underlying wood and had higher N
 concentrations, bark presence slowed wood mass loss. Nitrogen
 concentration could account for interspecific variation in wood mass loss,
 but not bark mass loss. In contrast, bark mass loss, but not wood mass
 loss, was faster in streams than on land, suggesting fragmentation is more
 important for bark mass loss in streams. Differences in fungal and
 bacterial community composition between bark and wood substrates were
 significant but small. 4.      Our results
 indicate that bark can slow wood decomposition instead of promoting it,
 and that at least for branch wood, the primary drivers of decomposition
 differ between bark and wood. Differences in the factors driving
 decomposition rate between bark and wood suggest that the contribution of
 bark to the decomposition of woody biomass may depend on habitat.
DOI: 10.5061/dryad.wh70rxwjk
title: Scientific shortcomings in environmental impact statements internationally

description: 1. Governments around the world rely on environmental impact assessment to
 understand the environmental risks of proposed developments. 2. To examine
 the basis for these appraisals, we examine the output of environmental
 impact assessment processes in jurisdictions within seven countries,
 focusing on scope (spatial and temporal), mitigation actions, and whether
 impacts were identified as ‘significant’. 3. We find that the number of
 impacts characterized as significant is generally low. While this finding
 may indicate that environmental impact assessment is successful at
 promoting environmentally sustainable development, it may also indicate
 that the methods used to assess impact are biased against findings of
 significance. To explore the methods used, we investigate the
 environmental impact assessment process leading to significance
 determination. 4. We find that environmental Impact assessment reports
 could be more transparent with regards to the spatial scale they use to
 assess impacts to wildlife. We also find that few reports on mining
 projects consider temporal scales that are precautionary with regards to
 the effects of mines on water resources. Across our sample of reports, we
 find that few environmental impact assessments meaningfully consider the
 different ways that cumulative impacts can interact. 5. Across countries,
 we find that proposed mitigation measures are often characterized as
 effective without transparent justification, and sometimes are described
 in ways that render the mitigation measure proposal ambiguous. 6. Across
 the reports in our sample, professional judgement is overwhelmingly the
 determinant of impact significance, with little transparency around the
 reasoning process involved or input by stakeholders. 7. We argue that the
 credibility and accuracy of the environmental impact assessment process
 could be improved by adopting more rigorous assessment methodologies and
 empowering regulators to enforce their use.
description: Data was collected from Environmental Impact Statements