cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.7927/kgra-jt25
title: IPCC AR6 Synthesis Report SPM.5 (d): The associated timing of when GHG and CO2 emissions reach net zero

description: This panel shows the associated timing of when GHG and CO2 emissions reach net zero. Coloured ranges denote the 5th to 95th percentile across the global modelled pathways falling within a given category. Ranges of modelled pathways that limit warming to 1.5°C (&gt;50%) with no or limited overshoot are shown in light blue (category C1) and pathways that limit warming to 2°C (&gt;67%) are shown in green (category C3). Global emission pathways that would limit warming to 1.5°C (&gt;50%) with no or limited overshoot and also reach net zero GHG in the second half of the century do so between 2070-2075.
DOI: 10.5061/dryad.r5j90
title: Data from: Climatic effects on planning behavior

description: What mechanism links climate change and social change?
 Palaeoanthropological analysis of human remains suggests that abrupt
 climate change is linked to societal restructuring, but it has been
 challenging to reliably identify the exact mechanisms underlying this
 relationship. Here we identify one potential mechanism that can link
 climate to behavior change, and underpins many of the reported findings on
 social restructuring. Specifically, we show that daily weather is linked
 to human planning behavior, and this effect is moderated by climate. Our
 results demonstrate that as weather gets colder, humans increase their
 planning in cold regions and decrease planning in warm regions. Since
 planning has previously been linked to group efficiency, cooperation, and
 societal organization, our work suggests planning is one mechanism that
 can link climate change to societal restructuring.
description: Climate and website
 visit data for multiple citiesThe archive contains the
 following files: -analysis_government_sites.R: code for our analysis of
 visits to government websites -analysis_lashou.R: code for our analysis of
 the lash shopping dataset -analysis_transport_sites.R: code for our
 analysis of visits to public transport websites -data_government_sites
 (directory): contains number of daily visits to various government
 websites, as reported by Alexa. -data_transport_sites (directory):
 contains number of daily visits to various public transport websites, as
 reported by Alexa -data_weather.csv: daily weather data, analysed in
 conjunction with the shopping dataset -results_government_sites.csv: table
 summarising the results of analysing visits to government websites
 -results_transport_sites.csv: table summarising the results of analysing
 visits to public transport websitesall_data.zip
DOI: 10.5061/dryad.b8d6m
title: Data from: Extant primitively segmented spiders have recently diversified from an ancient lineage

description: Living fossils are lineages that have retained plesiomorphic traits
 through long time periods. It is expected that such lineages have both
 originated and diversified long ago. Such expectations have recently been
 challenged in some textbook examples of living fossils, notably in extant
 cycads and coelacanths. Using a phylogenetic approach, we tested the
 patterns of the origin and diversification of liphistiid spiders, a clade
 of spiders considered to be living fossils due to their retention of
 arachnid plesiomorphies and their exclusive grouping in Mesothelae, an
 ancient clade sister to all modern spiders. Facilitated by original
 sampling throughout their Asian range, we here provide the phylogenetic
 framework necessary for reconstructing liphistiid biogeographic history.
 All phylogenetic analyses support the monophyly of Liphistiidae and of
 eight genera. As the fossil evidence supports a Carboniferous Euramerican
 origin of Mesothelae, our dating analyses postulate a long eastward
 over-land dispersal towards the Asian origin of Liphistiidae during the
 Palaeogene (39–58 Ma). Contrary to expectations, diversification within
 extant liphistiid genera is relatively recent, in the Neogene and Late
 Palaeogene (4–24 Ma). While no over-water dispersal events are needed to
 explain their evolutionary history, the history of liphistiid spiders has
 the potential to play prominently in vicariant biogeographic studies.
description: Bayesian inference tree
 with full gene partition schemeBINP.treBayesian inference tree with codon partition schemeBIP.treBayesian inference tree with Gblocks and codon partition schemeBIPG.treBayesian inference tree with Gblocks and full gene partition schemeBINPG.treMaximum Likelihood tree with codon partition schemeMLP.treMaximum Likelihood tree with full gene partition schemeMLNP.treMaximum Likelihood tree with Gblocks and codon partition schemeMLPG.treMaximum Likelihood tree with Gblocks and full gene partition schemeMLNPG.treFinal DNA sequence used for phylogenetic inferenceLiphistiidae.nex
DOI: 10.5061/dryad.564sc
title: Data from: Phosphatidylthreonine and lipid-mediated control of parasite virulence

description: The major membrane phospholipid classes, described thus far, include
 phosphatidylcholine (PtdCho), phosphatidylethanolamine (PtdEtn),
 phosphatidylserine (PtdSer), and phosphatidylinositol (PtdIns). Here, we
 demonstrate the natural occurrence and genetic origin of an exclusive and
 rather abundant lipid, phosphatidylthreonine (PtdThr), in a common
 eukaryotic model parasite, Toxoplasma gondii. The parasite expresses a
 novel enzyme PtdThr synthase (TgPTS) to produce this lipid in its
 endoplasmic reticulum. Genetic disruption of TgPTS abrogates de novo
 synthesis of PtdThr and impairs the lytic cycle and virulence of T.
 gondii. The observed phenotype is caused by a reduced gliding motility,
 which blights the parasite egress and ensuing host cell invasion. Notably,
 the PTS mutant can prevent acute as well as yet-incurable chronic
 toxoplasmosis in a mouse model, which endorses its potential clinical
 utility as a metabolically attenuated vaccine. Together, the work also
 illustrates the functional speciation of two evolutionarily related
 membrane phospholipids, i.e., PtdThr and PtdSer.
description: X1_WT (Fig
 4A)X1_KO (Fig
 4BX1_compl (Fig
 4C)MS and MS2 of PtdThr in
 T. gondiiNegative ion mode MS
 (ion trap) and MS2 data collected during the elution of PtdThr. (Fig 1B
 & 1C).Fig1BC.mzXMLBase peak chromatogram (Fig1A)Base peak chromatogram (Fig1A) corresponding to the elution profile of lipids isolated from extracellular tachyzoites.Fig1A.tsvIon chromatogram of the separation of phospholipids from human fibroblasts (FigS2A)Ion chromatogram of the separation of phospholipids from human fibroblastsFigS2A.csvMass spectra recorded at the elution time of PtdThr (FigS2B)In human fibroblasts, no PtdThr related ions are detected at the retention time PtdThr from T. gondii eluted. Detected ions are PtdSer species.FigS2B.mzXMLIntracellular parasites can synthesize PtdThr using free threonine in cultures. (FigS14A)MS and MS2 data of PtdThr speciesFigS14A.mzXMLIntracellular parasites can synthesize PtdThr using free threonine in cultures. (FigS14B)MS and MS2 data showing the incorporation of U-13C Threonine incorporation into PtdThr.FigS14B.mzXML
DOI: 10.5061/dryad.s5h20
title: Data from: Specificity and strain-typing capabilities of Nanorod Array-Surface Enhanced Raman Spectroscopy for Mycoplasma pneumoniae detection

description: Mycoplasma pneumoniae is a cell wall-less bacterial pathogen of the human
 respiratory tract that accounts for &gt; 20% of all community-acquired
 pneumonia (CAP). At present the most effective means for detection and
 strain-typing is quantitative polymerase chain reaction (qPCR), which can
 exhibit excellent sensitivity and specificity but requires separate tests
 for detection and genotyping, lacks standardization between available
 tests and between labs, and has limited practicality for widespread,
 point-of-care use. We have developed and previously described a silver
 nanorod array-surface enhanced Raman Spectroscopy (NA-SERS) biosensing
 platform capable of detecting M. pneumoniae with statistically significant
 specificity and sensitivity in simulated and true clinical throat swab
 samples, and the ability to distinguish between reference strains of the
 two main genotypes of M. pneumoniae. Furthermore, we have established a
 qualitative lower endpoint of detection for NA-SERS of &lt; 1 genome
 equivalent (cell/μl) and a quantitative multivariate detection limit of
 5.3 ± 1 cells/μl. Here we demonstrate using partial least squares-
 discriminatory analysis (PLS-DA) of sample spectra that NA-SERS correctly
 identified M. pneumoniae clinical isolates from globally diverse origins
 and distinguished these from a panel of 12 other human commensal and
 pathogenic mycoplasma species with 100% cross-validated statistical
 accuracy. Furthermore, PLS-DA correctly classified by strain type all 30
 clinical isolates with 96% cross-validated accuracy for type 1 strains,
 98% cross-validated accuracy for type 2 strains, and 90% cross-validated
 accuracy for type 2V strains.
description: NA-SERS specificity
 spectraWavenumber and intensity
 values for 521 spectra of Mycoplasma pneumoniae, other mycoplasmas, and
 background controls.
DOI: 10.5061/dryad.67sj1
title: Data from: Molecular genetics of sex identification, breed ancestry and polydactyly in the Norwegian Lundehund breed

description: The Norwegian Lundehund breed of dog has undergone a severe loss of
 genetic diversity as a result of inbreeding and epizootics of canine
 distemper. As a consequence, the breed is extremely homogeneous and
 accurate sex identification is not always possible by standard screening
 of X-chromosomal loci. To improve our genetic understanding of the breed
 we genotyped 17 individuals using a genome-wide array of 170 000 single
 nucleotide polymorphisms (SNPs). Standard analyses based on expected
 homozygosity of X-chromosomal loci failed in assigning individuals to the
 correct sex, as determined initially by physical examination and confirmed
 with the Y-chromosomal marker, amelogenin. This demonstrates that
 identification of sex using standard SNP assays can be erroneous in highly
 inbred individuals.
description: Kropatsch et al 2015
 Norwegian Lundehund Y mtDNA genetic dataExcel file containing
 genotypes of three variable mitochondrial DNA (mtDNA) sites in the ATP
 synthase subunit 6 gene, a 3’portion of ATP synthase subunit 8 gene and a
 portion of D-loop sequence as well as of nine Y-chromosomal markers (five
 single nucleotide polymorphisms (SNPs) and four microsatellites) in 57
 Norwegian Lundehund individuals sorted by gender (m: male, f: female). The
 genotypes of the mtDNA sites and the Y-chromosomal SNPs show the
 nucleotide identified at the respective position. The genotypes of
 Y-chromosomal microsatellites are given as fragment lengths. For mtDNA and
 Y-chromosomal SNPs exchange positions are indicated according to the mtDNA
 reference sequence or Embl accession numbers, respectively. For
 Y-chromosomal microsatellites, simple repeat motifs are shown. Missing
 genetic data is indicated as “-“.Lundehund1.pedSingle nucleotide polymorphism (SNP) raw data files for 17 Lundehund dogs for use with the software PLINK: PED file.Lundehund1.mapSingle nucleotide polymorphism (SNP) raw data files for 17 Lundehund dogs for use with the software PLINK: MAP file.Lundehund1_informationText file with sample number (FID), individual identification (IID) and sex for 17 Lundehund dogs.
DOI: 10.82294/dvnokdvwi
title: COPUS. Territorio: Cali. Sector: Educación. Año: 2023
title: Dato. Observación estructurada con el protocolo COPUS.

description: Información recopilada durante el año 2023 a partir de observaciones estructuradas realizadas con el protocolo COPUS, dirigidas a educadores artísticos pertenecientes a programas de formación en educación artística y cultural del sector Educación (educación formal) en la ciudad de Cali.
DOI: 10.5061/dryad.pb1sb
title: Data from: Cladistic analysis of Caseidae (Caseasauria, Synapsida): using the gap-weighting method to include taxa based on incomplete specimens

description: Occupying the role of primary consumer and having an early–middle Permian
 age range, caseids (Caseasauria, Synapsida) are fundamental to the
 interpretation of the early history of terrestrial vertebrate ecosystems.
 Despite this importance, no comprehensive, species-level phylogenetic
 study of Caseidae has yet been performed. Herein, we present a
 phylogenetic analysis of the group, using gap weighting to include poorly
 known taxa. Besides the description and comments on the resultant
 topologies, some more general issues concerning cladistic methodologies
 are briefly addressed. This study highlights the importance of a
 total-evidence approach, including as many within-group taxa and
 characters as possible. Continuously varying characters, in the form of
 indices derived from measurement of individual skeletal elements, proved
 to be highly important, adding significantly to the resolution of, and
 support for, recovered trees. The utility of the postcranial skeleton in
 understanding relationships among basal synapsids is highlighted.
description: Appendix S1 - Specimens
 direct analyzed and used for the construction of morphometric
 charactersList of specimens direct
 analyzed and used for the construction of morphometric
 charactersAppendix S2-Character
 listList of characters used
 in the cladistic analysisAppendix 2-Character
 list.pdfAppendix S3- Data
 MatrixData
 MatrixAppendix S4-Analysis of
 individual nodes and cladesAnalysis of individual
 nodes and cladesAppendix S5-Morphometric
 characters considered in phylogenetic analysisMorphometric characters
 considered in phylogenetic analysisAppendix 5-Morphometric
 characters considered in phylogenetic
 analysis.pdfAppendix S6 -
 PlatesPlatesAppendix S7: analysis including Eocasea martiniAppendix S7: analysis including Eocasea martiniAppendix S7.pdfMatrix, Nexus formarMatrix, Nexus formatRomano&Nicosia.nex
DOI: 10.5061/dryad.qd87k
title: Data from: On the evolutionary interplay between dispersal and local adaptation in heterogeneous environments

description: Dispersal, whether in the form of a dandelion seed drifting on the breeze,
 or a salmon migrating upstream to breed in a non-natal stream, transports
 genes between locations. At these locations, local adaptation modifies the
 gene frequencies so their carriers are better suited to particular
 conditions, be those of newly disturbed soil or a quiet river pool. Both
 dispersal and local adaptation are major drivers of population structure;
 however, in general, their respective roles are not independent and the
 two may often be at odds with one another evolutionarily, each one
 exhibiting negative feedback on the evolution of the other. Here we
 investigate their joint evolution within a simple discrete-time,
 metapopulation model. Depending on environmental conditions, their
 evolutionary interplay leads to either a monomorphic population of highly
 dispersing generalists or a rarely dispersing, locally adapted,
 polymorphic population, each adapted to a particular habitat type. A
 critical value of environmental heterogeneity divides these two selection
 regimes and the nature of the transition between them is determined by the
 level of kin competition. When kin competition is low, at the transition
 we observe discontinuities, bistability and hysteresis in the evolved
 strategies; however, when high, kin competition moderates the evolutionary
 feedback and the transition is smooth.
description: fig_1.tarColumn 1: sigma, Column 2: time (generations), Column 3: histogram of dispersal values, in 1000 bins from 0:1, Column 4: histogram of x values, in 1000 bins from -10:10. Note that a row of -99s divides each timestep.fig_2.tarColumn 1: sigma, Column 2: time (generations), Column 3: histogram of dispersal values, in 1000 bins from 0:1, Column 4: histogram of x values, in 1000 bins from -10:10. Note that a row of -99s divides each timestep.fig_5.tarColumn 1: sigma, Column 2: time (generations), Column 3: histogram of dispersal values, in 1000 bins from 0:1, Column 4: histogram of x values, in 1000 bins from -10:10. Note that a row of -99s divides each timestep.
DOI: 10.5061/dryad.hr05m
title: Data from: Adapting environmental management to uncertain but inevitable change

description: Implementation of adaptation actions to protect biodiversity is limited by
 uncertainty about the future. One reason for this is the fear of making
 the wrong decisions caused by the myriad future scenarios presented to
 decision-makers. We propose an adaptive management (AM) method for
 optimally managing a population under uncertain and changing habitat
 conditions. Our approach incorporates multiple future scenarios and
 continually learns the best management strategy from observations, even as
 conditions change. We demonstrate the performance of our AM approach by
 applying it to the spatial management of migratory shorebird habitats on
 the East Asian–Australasian flyway, predicted to be severely impacted by
 future sea-level rise. By accounting for non-stationary dynamics, our
 solution protects 25 000 more birds per year than the current best
 stationary approach. Our approach can be applied to many ecological
 systems that require efficient adaptation strategies for an uncertain
 future.
description: gompertz_model_parametersParameters used in the Gompertz population models for each species. See supporting information S2 for further details of the model.POMDP_input_files.tarSymbolic Perseus POMDP input files for each species. See readme file for additional information.sea_level_rise_by_modelEstimated extent of sea level rise for each region and scenario with and without compensatory loss. For further details, see Iwamura, T (2012) Spatial conservation prioritisation under global threats: University of Queensland.network_capacitiesNode capacity (number of birds) for each species network model.
DOI: 10.5281/zenodo.18047278
title: VSL_BRAND1_10F_1_23C_0k_HY_single

description: Part of the Variable Temperature DataBase: Temp: 23 °C
DOI: 10.5281/zenodo.18388949
title: VSL_BRAND1_10F_1_23C_0k_HY_single

description: Part of the Variable Temperature DataBase: Temp: 23 °C
DOI: 10.5061/dryad.9fg6p
title: Data from: Under the snow: a new camera trap opens the white box of subnivean ecology

description: Snow covers the ground over large parts of the world for a substantial
 portion of the year. Yet very few methods are available to quantify biotic
 variables below the snow, with most studies of subnivean ecological
 processes relying on comparisons of data before and after the snow cover
 season. We developed a camera trap prototype to quantify subnivean small
 mammal activity. The trap consists of a camera that is attached facing
 downward from the ceiling of a box, which is designed to function as a
 snow-free tunnel. We tested it by placing nine traps with passive infrared
 sensors in a subarctic habitat where snow cover lasted for about 6 months.
 The traps were functional for the whole winter, permitting continuous data
 collection of site-specific presence and temporal activity patterns of all
 three small mammal species present (the insectivorous common shrew, Sorex
 araneus, the herbivorous tundra vole, Microtus oeconomus, and the
 carnivorous stoat, Mustela erminea) as well as abiotic conditions
 (presence/absence of snow cover and subnivean temperature). Based on their
 successful functioning (only 6% of the photographs appeared empty or were
 of poor quality, whereas ca 80% were of small mammals and the remaining of
 birds and invertebrates), we discuss how the new camera trap can enable
 subnivean studies of small mammal communities. This greatly increases the
 temporal resolution and extent of data collection and thereby provides
 unpreceded opportunities to understand population and food web dynamics in
 ecosystems with snow cover.
description: camera trap
 dataA
 dataset of collected by nine below-snow camera traps. See metadata file
 for detailed description.snow cover camera
 trapsRecords of snow cover at
 camera trap locations. See metadata file for more detailed
 description.
DOI: 10.5061/dryad.vg97f
title: Data from: The root of flowering plants and total evidence

description: Support for Amborella as the sole survivor of an evolutionary lineage that
 is sister to all other angiosperms comes from positions in DNA
 multiple-sequence alignments that have a poor fit to time-reversible
 substitution models. These sites exhibit significant levels of homoplasy,
 compositional heterogeneity, and strong heterotachy. We report
 phylogenetic analyses with observed, randomized, and simulated data which
 show there is little or no expectation that these sites provide useful
 information for understanding relationships among basal angiosperms. Their
 inclusion in phylogenetic analyses leads to a long-branch attraction
 artifact that favors Amborella as sister to other angiosperms in
 reconstructed phylogenies. Using parametric simulations, we show that
 sites in chloroplast sequences that exhibit less homoplasy between
 angiosperms and gymnosperms provide more reliable information for
 inferring basal angiosperm relationships. We confirm our earlier findings
 that the basal angiosperm Amborella is most closely related to aquatic
 herbs. Our current and previously reported (Goremykin et al. 2013)
 analyses highlight an essential aspect of the total evidence approach to
 phylogenetic inference. They suggest that data partitioning aimed at
 identifying components of the data that better fit evolutionary models is
 a more reliable approach to phylogeny reconstruction at deep taxonomic
 levels.
description: SA1 archive file
 containing all supplementary materials mentioned in the
 text.SA1.zip