cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.hj029
title: Data from: Biogeography of Leptospira in wild animal communities inhabiting the insular ecosystem of the western Indian Ocean islands and neighboring Africa

description: Understanding the processes driving parasite assemblages is particularly
 important in the context of zoonotic infectious diseases. Leptospirosis is
 a widespread zoonotic bacterial infection caused by pathogenic species of
 the genus Leptospira. Despite a wide range of animal hosts, information is
 still lacking on the factors shaping Leptospira diversity in wild animal
 communities, especially in regions, such as tropical insular ecosystems,
 with high host species richness and complex biogeographical patterns.
 Using a large dataset (34 mammal species) and a multilocus approach at a
 regional scale, we analyzed the role of both host species diversity and
 geography in Leptospira genetic diversity in terrestrial small mammals
 (rodents, tenrecs and shrews) and bats from 10 different islands/countries
 in the western Indian Ocean (WIO) and neighboring Africa. At least four
 Leptospira spp. (L. interrogans, L. borgpetersenii, L. kirschneri and L.
 mayottensis) and several yet-unidentified genetic clades contributed to a
 remarkable regional Leptospira diversity, which was generally related to
 the local occurrence of the host species rather than the geography. In
 addition, the genetic structure patterns varied between Leptospira spp.,
 suggesting different evolutionary histories in the region, which might
 reflect both in situ diversification of native mammals (for L.
 borgpetersenii) and the more recent introduction of non-native host
 species (for L. interrogans). Our data also suggested that host shifts
 occurred between bats and rodents, but further investigations are needed
 to determine how host ecology may influence these events.
description: adk
 alignmentadk_align_n101+30refs_417pb.nexicdA alignmenticdA_align_n101+30refs_461pb.nexlipL41 alignmentlip41_align_n101+30refs_448pb.nexrrs2 alignmentrrs2_align_n101+30refs_453pb.nexsecY alignmentsecY_align_n101+30refs_473pb.nex
DOI: 10.5061/dryad.3rh76
title: Data from: Evidence for inbreeding depression in a species with limited opportunity for maternal effects

description: It is often assumed that mating with close relatives reduces offspring
 fitness. In such cases, reduced offspring fitness may arise from
 inbreeding depression (i.e., genetic effects of elevated homozygosity) or
 from post-mating maternal investment. This can be due to a reduction in
 female investment after mating with genetically incompatible males
 (“differential allocation”) or compensation for incompatibility
 (“reproductive compensation”). Here, we looked at the effects of mating
 with relatives on offspring fitness in mosquitofish, Gambusia holbrooki.
 In this species, females are assumed to be nonplacental and to allocate
 resources to eggs before fertilization, limiting differential allocation.
 We looked at the effects of mating with a brother or with an unrelated
 male on brood size, offspring size, gestation period, and early offspring
 growth. Mating with a relative reduced the number of offspring at birth,
 but there was no difference in the likelihood of breeding, gestation time,
 nor in the size or growth of these offspring. We suggest that due to
 limited potential for maternal effects to influence these traits that any
 reduction in offspring fitness, or lack thereof, can be explained by
 inbreeding depression rather than by maternal effects. We highlight the
 importance of considering the potential role of maternal effects when
 studying inbreeding depression and encourage further studies in other
 Poeciliid species with different degrees of placentation to test whether
 maternal effects mask or amplify any genetic effects of mating with
 relatives.
description: Vega-Trejo
 et.al.2015.Ecol and Evol.DryadEach spreadsheet shows
 the data used for analysis separately. Headers are included for each
 spreadsheet.
DOI: 10.5061/dryad.tj247
title: Data from: Male-biased sex allocation in ageing parents; a longitudinal study in a long-lived seabird

description: Optimal sex allocation is frequency-dependent, but senescence may cause
 behaviour at old age to be suboptimal. We investigated whether sex
 allocation changes with parental age, using 16 years of data comprising
 more than 2500 molecularly sexed offspring of more than 600 known-age
 parents in common terns (Sterna hirundo), slightly sexually size-dimorphic
 seabirds. We decomposed parental age effects into within-individual change
 and sex allocation-associated selective (dis)appearance. Individual
 parents did not differ consistently in sex allocation, but offspring sex
 ratios at fledging changed from female- to male-biased as parents aged.
 Sex ratios at hatching were not related to parental age, suggesting sons
 to outperform daughters after hatching in broods of old parents. Our
 results call for the integration of sex allocation theory with theory on
 ageing and demography, as a change in sex allocation with age per se will
 cause the age structure of a population to affect the frequency-dependent
 benefits and the age-specific strength of selection on sex allocation.
description: common tern sex ratio
 dataCommon tern hatchling
 and offspring sex in relation to year, parent ID, brood ID, parental age
 and parental sex. Collected between 1998 and 2013 by the Instute of Avian
 Research in Wilhelmshaven, Germanydata for
 Dryad.xlsx
DOI: 10.5061/dryad.dc1r2
title: Data from: Phylogeny, classification and evolution of ladybird beetles (Coleoptera: Coccinellidae) based on simultaneous analysis of molecular and morphological data

description: Ladybird beetles (family Coccinellidae) are a species-rich, ecologically
 diverse group of substantial agricultural significance, yet have been
 consistently problematic to classify, with evolutionary relationships
 poorly understood. In order to identify major clades within Coccinellidae,
 evaluate the current classification system, and identify likely drivers of
 diversification in this polyphagous group, we conducted the first
 simultaneous Bayesian analysis of morphological and multi-locus molecular
 data for any beetle family. Addition of morphological data significantly
 improved phylogenetic resolution and support for early diverging lineages,
 thereby better resolving evolutionary relationships than either data type
 alone. On the basis of these results, we formally recognize the
 subfamilies Microweisinae and Coccinellinae sensu Ślipiński (2007). No
 significant support was found for the subfamilies Coccidulinae, Scymninae,
 Sticholotidinae, or Ortaliinae. Our phylogenetic results suggest that the
 evolutionary success of Coccinellidae is in large part attributable to the
 exploitation of ant-tended sternorrhynchan insects as a food source,
 enabled by the key innovation of unusual defense mechanisms in larvae.
description: Coccinellidae nucleic
 acid and morphological data matrixPartitioned nexus file
 containing molecular and morphological data, used for Bayesian inference
 of coccinellid phylogeny. Includes the loci COI, COII, and
 28S.COCC_comb9.nexCoccinellidae combined dataset: consensus treeConsensus of 50K trees from Bayesian analysis, excluding 3k burnin.COCC_comb9_burnin3000.con.tre
DOI: 10.5061/dryad.kv2002g
title: Data from: Edaphic factors, successional status, and functional traits drive habitat associations of trees in naturally regenerating tropical dry forests

description: 1. Many studies have examined individual environmental drivers of tropical
 tree species distributions, but edaphic and successional gradients have
 not been considered simultaneously. Furthermore, determining how
 functional traits influence species distributions along these gradients
 may help to elucidate mechanisms behind community assembly. 2. To assess
 the influence of environmental filtering on tropical dry forest (TDF) tree
 species distributions we used forest inventory data from sites with large
 edaphic and successional gradients in NW Costa Rica. Our goals were to
 determine (1) whether edaphic or successional factors are more important
 determinants of the abundance of individual tree species in regenerating
 TDF, (2) how species-level functional traits are related to edaphic and/or
 successional niche associations of tree species, and (3) correlations
 between species-level edaphic and successional niche associations. 3. The
 distributions of 82 focal tree species were strongly driven by both
 edaphic and successional gradients. Overall, 94% of species responded to
 soil chemistry, 89% to soil texture, and 94% to stand age gradients. Some
 functional traits were correlated with the edaphic and successional niche
 associations of TDF tree species. Species that specialized on soils with
 high total nutrient concentrations had higher foliar nutrient
 concentrations (nitrogen and phosphorus) and lower leaf dry matter content
 (LDMC). Species with wider stand age niches had lower LDMC and wood
 density. There were no correlations between edaphic and successional niche
 optima of TDF tree species. 4. Our results indicate that successional and
 edaphic gradients concurrently drive community assembly in regenerating
 TDF. Moreover, our work underscores the importance of considering how the
 functional characteristics of TDF trees dictates species distributions
 across environmental gradients.
description: Species-level functional
 trait data for 82 tropical dry forest tree speciesSpeciesLevelTraits_WerdenEtAl2018_FunctionalEcology.csvTropical dry forest inventory data for 84 0.1 ha plots along a 5-100 year forest age gradientForestInventoryData_WerdenEtAl2018_FunctionalEcology.csvStand age estimates and edaphic variables for the 84 tropical dry forest inventory plotsEdaphicAndSuccessionalData_WerdenEtAl2018_FunctionalEcology.csv
DOI: 10.5061/dryad.dg483
title: Data from: Non-allelic gene conversion enables rapid evolutionary change at multiple regulatory sites encoded by transposable elements

description: Transposable elements (TEs) allow rewiring of regulatory networks, and the
 recent amplification of the ISX element dispersed 77 functional but
 suboptimal binding sites for the dosage compensation complex to a newly
 formed X chromosome in Drosophila. Here we identify two linked refining
 mutations within ISX that interact epistatically to increase binding
 affinity to the dosage compensation complex. Selection has increased the
 frequency of this derived haplotype in the population, which is fixed at
 30% of ISX insertions and polymorphic among another 41%. Sharing of this
 haplotype indicates that high levels of gene conversion among ISX elements
 allow them to ‘crowd-source’ refining mutations, and a refining mutation
 that occurs at any single ISX element can spread in two dimensions:
 horizontally across insertion sites by non-allelic gene conversion, and
 vertically through the population by natural selection. These results
 describe a novel route by which fully functional regulatory elements can
 arise rapidly from TEs and implicate non-allelic gene conversion as having
 an important role in accelerating the evolutionary fine-tuning of
 regulatory networks.
description: Multiple sequence
 alignment of ISX transposable elementsInsertions of the ISX
 transposable element on the neo-X chromosome of Drosophila miranda were
 assembled from genomic resequencing data for 23 inbred lines collected
 from the wild. The assembled 5' region of this TE is included for
 each insertion and each individual for which assembly was
 successful.assembled_ISX_elements.alignment.fasta
DOI: 10.5061/dryad.4t9f3
title: Data from: Common variants in CLDN2 and MORC4 genes confer disease susceptibility in patients with chronic pancreatitis

description: A recent genome-wide association study (GWAS) identified association with
 variants in X-linked CLDN2 and MORC4, and PRSS1-PRSS2 loci with chronic
 pancreatitis (CP) in North American patients of European ancestry. We
 selected 9 variants from the reported GWAS and replicated the association
 with CP in Indian patients by genotyping 1807 unrelated Indians of
 Indo-European ethnicity, including 519 patients with CP and 1288 controls.
 The etiology of CP was idiopathic in 83.62% and alcoholic in 16.38% of 519
 patients. Our study confirmed a significant association of 2 variants in
 CLDN2 gene (rs4409525—OR 1.71, P = 1.38 x 10-09; rs12008279—OR 1.56, P =
 1.53 x 10-04) and 2 variants in MORC4 gene (rs12688220—OR 1.72, P = 9.20 x
 10-09; rs6622126—OR 1.75, P = 4.04x10-05) in Indian patients with CP. We
 also found significant association at PRSS1-PRSS2 locus (OR 0.60; P = 9.92
 x 10-06) and SAMD12-TNFRSF11B (OR 0.49, 95% CI [0.31–0.78], P = 0.0027). A
 variant in the gene MORC4 (rs12688220) showed significant interaction with
 alcohol (OR for homozygous and heterozygous risk allele -14.62 and 1.51
 respectively, P = 0.0068) suggesting gene-environment interaction. A
 combined analysis of the genes CLDN2 and MORC4 based on an effective risk
 allele score revealed a higher percentage of individuals homozygous for
 the risk allele in CP cases with 5.09 fold enhanced risk in individuals
 with 7 or more effective risk alleles compared with individuals with 3 or
 less risk alleles (P = 1.88 x 10-14). Genetic variants in CLDN2 and MORC4
 genes were associated with CP in Indian patients.
description: Raw genotype information
 for samples for all studied SNPs*Sex chromosomal SNP For
 sex chromosomal SNP, genotype for male hemizygote has been coded as
 homozygote genotype for corresponding allele. Sex (1=Male; 2=Female),
 Pheno (1=Case, 2=Control).Additional
 file_PONE-D-15-27029R1.docx
DOI: 10.5061/dryad.q2g41
title: Data from: Asymmetric winter warming advanced plant phenology to a greater extent than symmetric warming in an alpine meadow

description: The warming of terrestrial high-latitude ecosystems, while increasing,
 will likely be asymmetric across seasons – where winter non-growing
 seasons will warm more than summer growing seasons. Asymmetric winter
 warming in temperature-sensitive ecosystems may delay spring phenological
 events by reducing the opportunity that a plants’ chilling requirement is
 met. Similarly, symmetric warming can advance spring phenology. To explore
 the impact of asymmetric warming on plant phenology, we applied a
 year-round warming and a winter warming treatment to our experimental
 plots. Over a two-year period, we monitored leaf-out and flowering
 phenology for 11 plant species. There was variation among species,
 however, both winter and year-round warming, advanced the leaf-out day and
 the first flowering day relative to the control treatment. Winter warming
 advanced leaf-out and flowering phenology by 11.1 (± 2.4) and 12.6 (± 2.9)
 days, respectively. However, year-round warming had less of an impact
 advancing leaf-out and flowering phenology by 5.1 (± 2.1) and 10.0 (± 3.0)
 days, respectively. Our study provides direct evidence that asymmetric
 winter warming has a larger impact on plant phenology than symmetric
 year-round warming. Increasing soil temperature in the winter from below
 to above freezing temperatures advanced the spring phenology of alpine
 plants. Winter warming increased soil temperature more than year-round
 warming, which explains why phenology advanced under winter warming more
 than under year-round warming. In addition, early or mid-season flowering
 plant species displayed different phenology strategies in warmer winters.
 Synthesis: Relative to other ecosystems, alpine ecosystems such as the
 Tibetan Plateau will likely respond to asymmetric warming given the higher
 amplitude of winter temperature increases due to climatic warming thus
 seasonal variation in warming should be considered when predicting and
 modelling the response of alpine ecosystems to climatic change.
description: Phenology
 dataThe leaf-out day (LOD)
 and first flowering day (FFD) of 11 alpine meadow plants on the Tibetan
 Plateau under 3 warming treatments (C: control; W: year-round warming; WW:
 winter warming) in 2 years (2013 and 2014). The 11 species belong to 3
 flowering functional groups (early: early spring flowering group; mid:
 mid-summer flowering group; late: late autumn flowering
 group).ww_data1.csvEnvironmental dataAir temperature, soil temperature (5 cm) and soil moisture (5 cm) under 3 warming treatments (C: control; W: year-round warming; WW: winter warming) from October, 2012 to December, 2014. (ng: non-growing season; g: growing season)ww_data2.csv
DOI: 10.15468/dl.zqmmy5
title: Occurrence Download

description: A dataset containing 30605 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is one of (Machine Observation, Observation, Human Observation, Living Specimen, Occurrence evidence)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "License is one of (CC0 1.0, CC-BY 4.0)",
 "OccurrenceStatus is Present",
 "TaxonKey is Amaranthus hybridus",
 "Year 2000-2026"
 ]
}

 The dataset includes 30605 records from 506 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000628-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ujf6tm
title: Occurrence Download

description: A dataset containing 245660 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Alopecurus geniculatus L.)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present"
 ]
}

 The dataset includes 245660 records from 970 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0010476-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.8jp9w2
title: Occurrence Download

description: A dataset containing 133642 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Russian Federation",
 "TaxonKey is Corvus cornix Linnaeus, 1758"
 ]
}

 The dataset includes 133642 records from 47 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002124-250424135625364/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.uvbuak
title: Occurrence Download

description: A dataset containing 420 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "or" : [
 "PublishingCountry is Canada",
 "Country is Canada"
 ]
 },
 "TaxonKey is one of (Helianthus maximiliani Schrad.)"
 ]
}

 The dataset includes 420 records from 42 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002147-250424135625364/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.57703/ce-rkcac
title: Surface Topography Challenge - Sample P65

description: The devices used for the challenge were the Whitelight Interferometer and the Keyence VR Microscope. The Keyence VR Microscope used λs at 800μm and λc at 0.8mm as the cutoff parameters. The measurements data used values up to three decimal places. This measurement device performs well with most surfaces but can have issues with measuring surfaces that are reflective. The results showed that the Ra was 0.137μm in the measured area for line roughness. 

The Whitelight Interferometer used a 2mm x 2mm area in order to obtain the surface roughness. This area is used for all specimens to ensure repeatability and consistency within the analysis. The data provided for the Whitelight Interferometer will be in an .OPDx file. The results displayed 0.828μm for the Ra.
DOI: 10.15468/dl.bvx86m
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{"type":"and","predicates":[{"type":"equals","key":"BASIS_OF_RECORD","value":"HumanObservation","matchCase":false},{"type":"within","geometry":"POLYGON((-96.52316 28.74392,-93.61951 28.74392,-93.61951 30.65475,-96.52316 30.65475,-96.52316 28.74392))"}]}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002141-250424135625364/datasets/export for details.
DOI: 10.15468/dl.3enjrt
title: Occurrence Download

description: A dataset containing 115170 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Human Observation",
 "Continent is North America",
 "Country is United States of America",
 "TaxonKey is Leuconotopicus borealis (Vieillot, 1809)",
 "Year 2000-2025"
 ]
}

 The dataset includes 115170 records from 8 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002127-250424135625364/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.7910/dvn/e40uj5
title: A85_263.jpg

description: Link to OCHRE database: &lt;a href = 'http://pi.lib.uchicago.edu/1001/org/ochre/aed20755-d73b-7a2f-834b-d47934fae263'&gt;http://pi.lib.uchicago.edu/1001/org/ochre/aed20755-d73b-7a2f-834b-d47934fae263
DOI: 10.7910/dvn/dl827m
title: A85_138a.jpg

description: Link to OCHRE database: &lt;a href = 'http://pi.lib.uchicago.edu/1001/org/ochre/fe41d2ba-c0c2-41dd-9f11-9e2d15f0ff02'&gt;http://pi.lib.uchicago.edu/1001/org/ochre/fe41d2ba-c0c2-41dd-9f11-9e2d15f0ff02
DOI: 10.7910/dvn/kusbht
title: New cane agriculture

description: Fieldnote and screenshot on the new cane agriculture.
DOI: 10.7910/dvn/dmpgcc
title: Replication package for: Coordination and Incumbency Advantage in Multi-Party Systems - Evidence from French Elections

description: This package contains the data, programs and instructions to replicate the manuscript "Coordination and Incumbency Advantage in Multi-Party Systems - Evidence from French Elections" by Kevin Dano, Francesco Ferlenga, Vincenzo Galasso, Caroline Le Pennec and Vincent Pons, published at JEEA
DOI: 10.15468/dl.2kaccj
title: Occurrence Download

description: A dataset containing 67514 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is one of (Achyranthes aspera L., Lagrezia micrantha (Baker) Schinz, Asplenium longissimum Blume, Asplenium macrophyllum Sw., Asplenium nidus L., Ipomoea violacea L., Euphorbia stoddartii Fosberg, Scaevola taccada (Gaertn.) Roxb., Canavalia cathartica Thouars, Sida pusilla Cav., Triumfetta procumbens G.Forst., Boerhavia repens L., Dactyloctenium ctenoides (Steud.) Bosser, Lepturus repens (G.Forst.) R.Br., Stenotaphrum dimidiatum (L.) Brongn., Stenotaphrum micranthum (Desv.) C.E.Hubb., Portulaca mauritiensis Poelln., Pteris tripartita Sw., Thelypteris opulenta (Kaulf.) Fosberg)"
 ]
}

 The dataset includes 67514 records from 800 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002128-250424135625364/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.7910/dvn/tmk8t7
title: Using all of the sugarcane

description: Fieldnotes from an interview with a sugarcane scientist.
DOI: 10.57703/ce-5feeg
title: Surface Topography Challenge - Sample A50

description: The devices used for the challenge were the Whitelight Interferometer and the Keyence VR Microscope.

The Keyence VR Microscope used λs at 800μm and λc at 0.8mm as the cutoff parameters. The measurements data used values up to three decimal places. This measurement device performs well with most surfaces but can have issues with measuring surfaces that are reflective. The results showed that the Ra was 0.074μm in the measured area for line roughness.

The Whitelight Interferometer used a 2mm x 2mm area in order to obtain the surface roughness. This area is used for all specimens to ensure repeatability and consistency within the analysis. The data provided for the Whitelight Interferometer will be in an .OPDx file. The results displayed 20.07nm for the Ra.