cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.3dd4d
title: Data from: Integrating passive acoustic and visual data to model spatial patterns of occurrence in coastal dolphins

description: Fine-scale information on the occurrence of coastal cetaceans is required
 to support regulation of offshore energy developments and marine spatial
 planning. In particular, the EU Habitats Directive requires an
 understanding of the extent to which animals from Special Areas of
 Conservation (SAC) use adjacent waters, where survey effort is often
 sparse. Designing survey regimes that can be used to support these
 assessments is especially challenging because visual sightings are
 expected to be rare in peripheral parts of a population's range.
 Consequently, even intensive visual line-transect surveys can result in
 few encounters. Static passive acoustic monitoring (PAM) provides new
 opportunities to extend survey effort by using echolocation click
 detections to quantify levels of occurrence of coastal dolphins, but this
 does not provide information on species identity. In NE Scotland,
 assessments of proposed offshore energy developments required information
 on spatial patterns of occurrence of bottlenose dolphins in waters in and
 next to the Moray Firth SAC. Here, we illustrate how this can be achieved
 by integrating data from broad-scale PAM arrays with presence-only data
 from visual surveys. Generalized estimating equations were used with PAM
 data to model the occurrence of dolphins in relation to depth, distance to
 coast, slope, and sediment, and to predict the spatial variation in the
 cumulative occurrence of all dolphin species across a 4 × 4 km grid of the
 study area. Classification tree analysis was then applied to available
 visual sightings data to estimate the likely species identity of dolphins
 sighted in each grid cell in relation to local habitat. By multiplying
 these probabilities, it was possible to provide advice on spatial
 variation in the probability of encountering bottlenose dolphins from this
 protected population at a regional scale, complementing data from surveys
 that estimate average density or overall abundance within a region.
description: PAM
 locationsLocatsoin fo passive
 acoustic monitoring sitesPAM
 dataData on the the number
 of days that dolphins were detected at each PAM site in each of the 3
 years studiedTree_dataVisual sightings data used in classification tree to predict the liklely species identifity of dolphins detcted in different parts of the study areaModel_outputsModel outputs from the GEE and classification TREE with predictions of the likely occurrence of bottlenose dolphins in different grid squares within the study area.GEE_dataHourly PAM detections of dolphins at each site with co-variates used in the GEE to estimate spatio-temporal variability in the probability of detecting dolphinsReadmeInformation on field names used in the 5 data files
DOI: 10.5067/tsis/sim/data325
title: TSIS SIM Level 3 Solar Spectral Irradiance 12-Hour Means V13
DOI: 10.5061/dryad.s84fm
title: Data from: Pleiotropy can be effectively estimated without counting phenotypes through the rank of genotype-phenotype map

description: Though pleiotropy, the capability of a gene affecting multiple phenotypes,
 has been well-known as one of common gene properties, a quantitative
 estimation remains a great challenge, simply because of the phenotype
 complexity. Not surprisingly, it is hard for general readers to understand
 how, without counting phenotypes, gene pleiotropy can be effectively
 estimated from the genetics data. In this article we extensively discussed
 the Gu-2007-method (Genetics 175: 1813-1822) that estimated pleiotropy
 from the protein sequence analysis. We have shown that this method is
 actually to estimate the rank (K) of genotype-phenotype mapping that can
 be concisely written as K=min(r, Pmin), where Pmin is the minimum
 pleiotropy among all legitimate measures including the fitness components,
 and r is the rank of mutational effects of an amino acid site. Together,
 the 'effective gene pleiotropy' (Ke) estimated by Gu-2007-method
 has the following meanings: (i) Ke is an estimate of K=min(r, Pmin), the
 rank of genotype-phenotype map. (ii) Ke is an estimate for the minimum
 pleiotropy Pmin only if Pmin &lt; r. (iii) Gu-2007 method attempted to
 estimate the pleiotropy of amino acid sites, a conserved proxy to the true
 gene pleiotropy. (iv) With a sufficiently large phylogeny such that the
 rank of mutational effect at an amino acid site is r→19, one can estimate
 Pmin between 1 and 19. And (v) Ke is a conserved estimate of K because
 those slightly affected components in fitness have been effectively
 removed by the estimation procedure. Besides, we conclude that mutational
 pleiotropy (number of traits affected by a single mutation) cannot be
 estimated without knowing the phenotypes.
description: Ke-Estimation used in
 the articleCMPV5V8.xls
DOI: 10.5067/tsis/sim/data327
title: TSIS SIM Level 3 Solar Spectral Irradiance 12-Hour Means V14
DOI: 10.5061/dryad.14g40
title: Data from: Avoided heat-related mortality through climate adaptation in three US cities

description: Heat-related mortality in US cities is expected to more than double by the
 mid-to-late 21st century. Rising heat exposure in cities is projected to
 result from: 1) climate forcings from changing global atmospheric
 composition; and 2) local land surface characteristics responsible for the
 urban heat island effect. The extent to which heat management strategies
 designed to lessen the urban heat island effect could offset future
 heat-related mortality remains unexplored in the literature. Using coupled
 global and regional climate models with a human health effects model, we
 estimate changes in the number of heat-related deaths in 2050 resulting
 from modifications to vegetative cover and surface albedo across three
 climatically and demographically diverse US metropolitan areas: Atlanta,
 Georgia, Philadelphia, Pennsylvania, and Phoenix, Arizona. Employing
 separate health impact functions for average warm season and heat wave
 conditions in 2050, we find combinations of vegetation and albedo
 enhancement to offset projected increases in heat-related mortality by 40
 to 99% across the three metropolitan regions. These results demonstrate
 the potential for extensive land surface changes in cities to provide
 adaptive benefits to urban populations at risk for rising heat exposure
 with climate change.
description: CULE_pop2050 population projections for Atlanta, Philadelphia, and PhoenixWRF scenario outputWRF model output for each scenario, metropolitan area, and temperature metric combination.PLOSone_files.zip
DOI: 10.5061/dryad.367d0
title: Data from: Dissecting the variation of a visual trait: the proximate basis of UV-Visible reflectance in crab spiders (Thomisidae)

description: 1. The astounding diversity of animal colouration is indicative of a wide
 variety of selection pressures. Despite great interest in adaptive
 function, detailed understanding of the constituent elements of colour
 traits is lacking for many systems. Such information is important in
 allowing more accurate appraisals of colour variation and its potential
 production costs. 2. In this study, we ‘dissect’ the dorsal colour of crab
 spiders (Thomisidae) to examine the mechanistic basis of a polyphenic
 colour trait. These spiders possess the ability to alter reflectance in
 the ultraviolet (UV), violet and blue wavelengths, changing their colour
 within days. We investigate and compare the proximate mechanistic basis of
 colour production in multiple phenotypes of three species using histology
 and spectrophotometry. 3. Our analyses indicate that the spider cuticle is
 not equivalently transparent to light across the spectrum (300-700 nm) –
 as previously argued – and contributes to colour variation. UV light is
 reflected from guanine crystals, present in storage cells ventral to the
 hypodermis. The crystals are exposed through a partially UV-transmitting
 hypodermis and cuticle. Variation from white to yellow is likely mediated
 through pigments/crystals present in different oxidative stages in the
 hypodermal cells. 4. Simple mechanistic changes are therefore necessary to
 produce the observed variation, and likely underlie the evolutionary and
 ontogenetic lability of this trait. Our findings imply that either a
 UV-reflective abdomen was the ancestral state for crab spiders, or, if
 pre-dated by UV-absorbent hypodermal pigments, the evolution of
 UV-reflection has only involved the exposure of underlying guanine
 crystals through an otherwise clear hypodermis.
description: R
 FunctionsR functions for
 summarising and analysing spectral data.functions.RSpectrum filesSpectra folder contains all spectral datum files collected from spiders.spectra.zip
DOI: 10.5067/tsis/sim/data302
title: TSIS SIM Level 3 Solar Spectral Irradiance 24-Hour Means V01
DOI: 10.5067/tsis/sim/data304
title: TSIS SIM Level 3 Solar Spectral Irradiance 24-Hour Means V02
DOI: 10.5067/tsis/sim/data306
title: TSIS SIM Level 3 Solar Spectral Irradiance 24-Hour Means V03
DOI: 10.5061/dryad.bh051
title: Data from: Mapping coral and sponge habitats on a shelf-depth environment using multibeam sonar and ROV video observations: Learmonth Bank, northern British Columbia, Canada

description: Efforts to locate and map deep-water coral and sponge habitats are
 essential for the effective management and conservation of these
 vulnerable marine ecosystems. Here we test the applicability of a simple
 multibeam sonar classification method developed for fjord environments to
 map the distribution of shelf-depth substrates and gorgonian coral- and
 sponge-dominated biotopes. The studied area is a shelf-depth feature
 Learmonth Bank, northern British Columbia, Canada and the method was
 applied aiming to map primarily non-reef forming coral and sponge
 biotopes. Aside from producing high-resolution maps (5 m2 raster grid),
 biotope-substrate associations were also investigated. A multibeam sonar
 survey yielded bathymetry, acoustic backscatter strength and slope. From
 benthic video transects recorded by remotely operated vehicles (ROVs) six
 primary substrate types and twelve biotope categories were identified,
 defined by the primary sediment and dominant biological structure,
 respectively. Substrate and biotope maps were produced using a supervised
 classification mostly based on the inter-quartile range of the acoustic
 variables for each substrate type and biotope. Twenty-five percent of the
 video observations were randomly reserved for testing the classification
 accuracy. The dominant biotope-defining corals were red tree coral Primnoa
 pacifica and small styasterids, of which Stylaster parageus was common.
 Demosponges and hexactinellid sponges were frequently observed but no
 sponge reefs were observed. The substrate classification readily
 distinguished fine sediment, Sand and Bedrock from the other substrate
 types, but had greater difficulty distinguishing Bedrock from Boulders and
 Cobble. The biotope classification accurately identified Gardens (dense
 aggregations of sponges and corals) and Primnoa-dominated biotopes (67%
 accuracy), but most other biotopes had lower accuracies. There was a
 significant correspondence between Learmonth's biotopes and substrate
 types, with many biotopes strongly associated with only a single substrate
 type. This strong correspondence allowed substrate types to function as a
 surrogate for helping to map biotope distributions. Our results add new
 information on the distribution of corals and sponges at Learmonth Bank,
 which can be used to guide management at this location.
description: CHONe_MB-18_NevesB_dataSubstrate types and biotopes identified from the video analysis, with corresponding geographic coordinates, bathymetry, backscatter and slope values. A classification criteria based on the last three variables was used to produce substrate and biotope maps as seen in the article. The table includes a list of codes and the corresponding biotopes. Finally, the results from the accuracy analysis are also presented. A Canadian Healthy Oceans Network (CHONe) Marine Biodiversity Project, MB-18.
DOI: 10.5067/tsis/sim/data308
title: TSIS SIM Level 3 Solar Spectral Irradiance 24-Hour Means V04
DOI: 10.5067/tsis/sim/data310
title: TSIS SIM Level 3 Solar Spectral Irradiance 24-Hour Means V05
DOI: 10.5061/dryad.g1f95
title: Data from: Additive genetic variance and developmental plasticity in growth trajectories in a wild cooperative mammal

description: Individual variation in growth is high in cooperative breeders and may
 reflect plastic divergence in developmental trajectories leading to
 breeding vs. helping phenotypes. However, the relative importance of
 additive genetic variance and developmental plasticity in shaping growth
 trajectories is largely unknown in cooperative vertebrates. This study
 exploits weekly sequences of body mass from birth to adulthood to
 investigate sources of variance in, and covariance between, early and
 later growth in wild meerkats (Suricata suricatta), a cooperative
 mongoose. Our results indicate that (i) the correlation between early
 growth (prior to nutritional independence) and adult mass is positive but
 weak, and there are frequent changes (compensatory growth) in
 post-independence growth trajectories; (ii) among parameters describing
 growth trajectories, those describing growth rate (prior to and at
 nutritional independence) show undetectable heritability while associated
 size parameters (mass at nutritional independence and asymptotic mass) are
 moderately heritable (0.09 ≤ h2 &lt; 0.3); and (iii) additive genetic
 effects, rather than early environmental effects, mediate the covariance
 between early growth and adult mass. These results reveal that meerkat
 growth trajectories remain plastic throughout development, rather than
 showing early and irreversible divergence, and that the weak effects of
 early growth on adult mass, an important determinant of breeding success,
 are partly genetic. In contrast to most cooperative invertebrates, the
 acquisition of breeding status is often determined after sexual maturity
 and strongly impacted by chance in many cooperative vertebrates, who may
 therefore retain the ability to adjust their morphology to environmental
 changes and social opportunities arising throughout their development,
 rather than specializing early.
description: Huchard et al.
 JEB_Growth ParametersThis file provides 4
 growth parameters for each individual, estimated as described in the
 original publication, along with individual traits used in the analysis
 (sex, inbreeding coefficient, litter identity, and birth
 year).Huchard et al.
 JEB_PedigreeThis file provides the
 meerkat pedigree used in the original publication, informing paternal and
 maternal identity for each individual.Huchard et al.
 JEB_WeightsThis file provides the
 raw weight data used to calculate growth parameters, informing individual
 identity, date, individual age (in days), rainfall locally accumulated
 over 9 months prior to this date (in mm) and individual weight (in
 g).
DOI: 10.5067/tsis/sim/data312
title: TSIS SIM Level 3 Solar Spectral Irradiance 24-Hour Means V06
DOI: 10.82294/dvnkvyv7h
title: COPUS. Territorio: Cali. Sector: Cultura. Año: 2025
title: Dato. Observación estructurada con el protocolo COPUS.

description: Información recopilada durante el año 2025 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 Cultura (educación informal) en la ciudad de Cali.
DOI: 10.5061/dryad.j966f
title: Data from: Identification of ZEB1 as a central component of the adipogenic gene regulatory network

description: Adipose tissue is a key determinant of whole body metabolism and energy
 homeostasis. Unraveling the regulatory mechanisms underlying adipogenesis
 is therefore highly relevant from a biomedical perspective. Our current
 understanding of fat cell differentiation is centered on the
 transcriptional cascades driven by the C/EBP protein family and the master
 regulator PPARγ. To elucidate further components of the adipogenic gene
 regulatory network, we performed a large-scale transcription factor (TF)
 screen overexpressing 734 TFs in mouse pre-adipocytes and probed their
 effect on differentiation. We identified 23 novel pro-adipogenic TFs and
 characterized the top ranking TF, ZEB1, as being essential for
 adipogenesis both in vitro and in vivo. Moreover, its expression levels
 correlate with fat cell differentiation potential in humans. Genomic
 profiling further revealed that this TF directly targets and controls the
 expression of most early and late adipogenic regulators, identifying ZEB1
 as a central transcriptional component of fat cell differentiation.
description: Table S1 -
 TF_screenPercentage
 differentiated 3T3-L1 cells in response to transcription factor
 overexpression.Table S2 -
 RNASeq_ZEB1_KDEffect of ZEB1 knockdown
 on global gene expression in 3T3-L1 cells as measured at days 0 and
 2.Table S6 -
 MassSpectrometryMass Spectrometry
 results of ZEB1-HA pull-down with an anti-HA antibody in 3T3-L1
 cellsTable S8 -
 ClinicalDataCorrelation of Zeb1 mRNA
 level in human stromal vascular fraction of obese patients with diverse
 measures including differentiation potential, adiponectin levels and fat
 mass.
DOI: 10.5067/tsis/sim/data314
title: TSIS SIM Level 3 Solar Spectral Irradiance 24-Hour Means V07
DOI: 10.5061/dryad.31g77
title: Data from: Radiolarian biodiversity dynamics through the Triassic and Jurassic: implications for proximate causes of the end-Triassic mass extinction

description: Within a ∼60-Myr interval in the Late Triassic to Early Jurassic, a major
 mass extinction took place at the end of Triassic, and several biotic and
 environmental events of lesser magnitude have been recognized. Climate
 warming, ocean acidification, and a biocalcification crisis figure
 prominently in scenarios for the end-Triassic event and have been also
 suggested for the early Toarcian. Radiolarians, as the most abundant
 silica-secreting marine microfossils of the time, provide a control group
 against marine calcareous taxa in testing selectivity and responses to
 changing environmental parameters. We analyzed the origination and
 extinction rates of radiolarians, using data from the Paleobiology
 Database and employing sampling standardization, the recently developed
 gap-filler equations and an improved stratigraphic resolution at the
 substage level. The major end-Triassic event is well-supported by a late
 Rhaetian peak in extinction rates. Because calcifying and siliceous
 organisms appear similarly affected, we consider global warming a more
 likely proximate trigger of the extinctions than ocean acidification. The
 previously reported smaller events of radiolarian turnover fail to
 register above background levels in our analyses. The apparent early
 Norian extinction peak is not significant compared to the long-term
 trajectory, and is probably a sampling artifact. The Toarcian Oceanic
 Anoxic Event, previously also thought to have caused a significant
 radiolarian turnover, did not significantly affect the group. Radiolarian
 diversity history appears unique and complexly forced, as its trajectory
 parallels major calcareous fossil groups at some events and deviates at
 others.
description: Supplementary
 FiguresAdditional
 figuresSOM-Figures.pdfPrimary references of Palebiology database occurrence dataList of radiolarian taxonomic references from the Paleobiology Database.Kocsisetal-refs.csvRadiolarian occurence data used for the analysesOccurrence table of fossil radiolarians downloaded from the Paleobiology Database.Kocsisetal-raddata.csv
DOI: 10.5067/tsis/sim/data316
title: TSIS SIM Level 3 Solar Spectral Irradiance 24-Hour Means V08
DOI: 10.5061/dryad.sr7d5
title: Data from: Genetic composition of the Warm Springs River Chinook Salmon population maintained following eight generations of hatchery production

description: Balancing the disparate objectives of fishery augmentation and
 conservation of an endemic population presents a substantial challenge. In
 the case of Warm Springs National Fish Hatchery (Warm Springs Hatchery),
 strategies for achieving both objectives included incorporation of natural
 fish into the hatchery broodstock and restricting proportions of hatchery
 fish on the spawning grounds. The hatchery has been more successful in
 implementing the latter, however, than the former. We analyzed seventy-six
 SNP markers in Spring Chinook Salmon O. tshawytscha collected from the
 Warm Springs River in 1976 – 1977 (prior to hatchery produciton) and
 2001-2011 (post-hatchery) to examine whether the genetic characteristics
 of the endemic population had changed during that time. Pre- and post-
 hatchery collections clustered together when compared to Round Butte
 Hatchery (a nearby segregated program) and other Columbia River
 populations. The difference between pre- and post- hatchery collections
 was non-significant (AMOVA), but post hatchery samples exhibited
 significantly lower He. We observed some evidence of reduced effective
 size (Ne) and increased genetic drift in fish produced at Warm Springs
 Hatchery (relative to natural-origin fish), and even stronger evidence in
 fish produced at Round Butte Hatchery. We conclude that natural-origin
 fish returning to the Warm Springs River form a distinct group within the
 Interior Columbia Basin Spring-run lineage and have changed very little
 over the past eight generations. We further speculate that differences
 between hatchery- and natural- origin fish at Warm Springs Hatchery are
 expected to increase if hatchery operations remain static (little
 integration of natural-origin fish and incorporation of Round Butte
 Hatchery fish in broodstock).
description: Supplemental
 materialNames of SNP loci
 analyzed, raw genotype data, missing data rates for each locus by
 collection and estimates of pairwise divergence (FST) between all
 collections of Chinook Salmon.Smith et al TAFS appendices
 final.xlsx
DOI: 10.5067/tsis/sim/data318
title: TSIS SIM Level 3 Solar Spectral Irradiance 24-Hour Means V09