cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.20350/digitalcsic/14719
title: Filogenia de la flora Pirenaica a nivel de g??nero

description: [Description of methods used for collection/generation of data] We built a genus-level phylogeny using the workflow proposed by Roquet et al. (2013). We downloaded from Genbank three conserved chloroplastic regions (rbcL, matK and ndhF) plus the ITS region for a subset of families, which we aligned separately by taxonomic clustering. [Methods for processing the data] We aligned all coding sequence clusters with MACSE (Ranwez et al. 2011) and non-coding ones with MAFFT (Katoh and Standlye 2013), and trimmed all alignments with TrimAl (Capella-Guti??rrez et al. 2009). We concatenated all alignments to obtain a supermatrix. We then conducted maximum-likelihood (ML) phylogenetic inference analyses with RAxML (Stamatakis 2014), applying the most appropriate partitioning scheme and substitution model obtained with PartitionFinder (Lanfear et al. 2012) and a supertree constraint at the family-level obtained with the online software Phylomatic v.3 (tree R20120829). Specifically, we performed 100 independent tree searches and selected the best ML tree (the one with the highest probability). [Instrument- or software-specific information needed to interpret/reproduce the data] Any software for manipulation or analysis of phylogenies such as R packages ape or picante. [Standards and calibration information, if appropriate] The best ML tree was dated applying the penalized likelihood method in treePL (Smith and O'Meara,2012) and the following node calibrations: we fixed the node corresponding to the ancestor of eudicots at 125 Ma based on the earliest eudicot fossil (Hughes and McDougall 1990), and applied minimum age constraints to 15 nodes based on fossil information extracted from Smith and Beaulieu (2010) and Bell et al. (2010). 5. Environmental/experimental conditions:
DOI: 10.20350/digitalcsic/15509
title: Supporting information of: Effect of the effective refractive index on the radiative decay rate in nanoparticle thin films [Dataset]

description: In this work, we theoretically and experimentally study the influence of the optical environment on the radiative decay rate of luminescent nanoparticles forming a thin film. We use electric dipole sources in finite-difference time-domain simulations to analyze the effect of modifying the effective refractive index of transparent layers made of phosphor nanocrystals doped with rare earth cations, and propose a significant correction to previously reported analytical models for calculating the radiative decay rate. Our predictions are tested against an experimental realization of such films, in which we manage to vary the effective refractive index in a gradual and controllable manner. Our model accurately accounts for the measurements attained, allows us discriminating the radiative and non-radiative contributions to the time-resolved photoluminescence, and provides a way to rationally tune the spontaneous decay rate and hence the photoluminescence quantum yield of an ensemble of nanoparticles.
DOI: 10.20350/digitalcsic/15425
title: Supporting Information Luminescence Enhancement Effects on Nanostructured Perovskite Thin Films for Er/Yb-Doped Solar Cells
DOI: 10.20350/digitalcsic/15555
title: SPEIbase v.2.6 [Dataset]

description: The Global 0.5?? gridded SPEI dataset is made available under the Open Database License. Any rights in individual contents of the database are licensed under the Database Contents License. Users of the dataset are free to share, create and adapt under the conditions of attribution and share-alike. The Global SPEI database, SPEIbase, offers long-time, robust information on the drought conditions at the global scale, with a 0.5 degrees spatial resolution and a monthly time resolution. It has a multi-scale character, providing SPEI time-scales between 1 and 48 months. The Standardized Precipitatin-Evapotranspiration Index (SPEI) expresses, as a standardized variate (mean zero and unit variance), the deviations of the current climatic balance (precipitation minus evapotranspiration potential) with respect to the long-term balance. The reference period for the calculation, in the SPEIbase, corresponds to the whole study period. Being a standardized variate means that the SPEI condition can be compared across space and time. Calculation of the evapotranspiration potential in SPEIbase is based on the FAO-56 Penman-Monteith method. Data type: float; units: z-values (standard deviations). No land pixels are assigned a value of 1.0x10^30. In some rare cases it was not possible to achieve a good fit to the log-logistic distribution, resulting in a NAN (not a number) value in the database. Dimensions of the dataset: lon = 720; lat = 360; time = 1356. Resolution of the dataset: lon = 0.5??; lat = 0.5??; time = 1 month. Created in R using the SPEI package (http://cran.r-project.org/web/packages/SPEI).
description: Global gridded dataset of the Standardized Precipitation-Evapotranspiration Index (SPEI) at time scales between 1 and 48 months.-- Spatial resolution of 0.5?? lat/lon.-- This is an update of the SPEIbase v2.4 (http://digital.csic.es/handle/10261/128892).-- What???s new in version 2.5: 1) Data has been extended to the period 1901-2015 (it was 1901-2014 in v 2.4), based on the CRU TS3.24.01 dataset. 2) A bug on versions 2.2 to 2.4 of the dataset has been corrected that prevented correctly reading the ETo data in mm/month-- For more details on the SPEI visit http://sac.csic.es/spei.
DOI: 10.20350/digitalcsic/14692
title: Epigenetic mosaicism predicts extant and transgenerational variability of fecundity-related traits in wild lavender plants

description: The dataset consists of three comma-delimited plain text files corresponding to (i) Epigenotypic data of maternal modules, (ii) phenotypic data of maternal modules, and (iii) phenotypic data of the subprogenies obtained in the greenhouse, for different modules from adult, wild-grown, field-sampled plants of the shrub Lavandula latifolia (Lamiaceae). Five modules, each consisting of a terminal branchlet bearing one inflorescence and its subtending leaves, were collected from each of 15 wild-growing L. latifolia plants from a large population growing near Arroyo Aguaderillos in the Sierra de Cazorla (Ja??n province, southeastern Spain; geographical coordinates 37.96157 N, 2.88389 W). Each module was characterized epigenotypically by the methylation state of methylation-sensitive amplified fragment length polymorphism markers (MS-AFLP), and phenotypically by fecundity-related traits (inflorescence length, and size, number and mass of seeds produced). Seeds from the different modules were sown in the greenhouse and resulting ???subprogenies??? characterized phenotypically (germination probability and time to emergence, seedling size, susceptibility to fungal disease). For MS-AFLP data, each column refer to a specific (although anonymous) marker, identified by primer combination and size (base pairs).
description: This dataset includes three files containing (i) Epigenotypic data of maternal modules, (ii) phenotypic data of maternal modules, and (iii) phenotypic data of greenhouse subprogenies for different modules of 15 adult, wild-grown, field-sampled plants of the shrub Lavandula latifolia.
description: Five modules, each consisting of a terminal branchlet bearing one inflorescence and its subtending leaves, were collected from each of 15 wild-growing L. latifolia plants from a large population growing near Arroyo Aguaderillos in the Sierra de Cazorla (Ja??n province, southeastern Spain; geographical coordinates 37.96157 N, 2.88389 W). Each module was characterized epigenotypically by the methylation state of methylation-sensitive amplified fragment length polymorphism markers (MS-AFLP), and phenotypically by fecundity-related traits (inflorescence length, and size, number and mass of seeds produced). Seeds from the different modules were sown in the greenhouse and resulting ???subprogenies??? characterized phenotypically (germination probability and time to emergence, seedling size, susceptibility to fungal disease). For MS-AFLP data, each column refer to a specific (although anonymous) marker, identified by primer combination and size (base pairs). Further details can be obtained in Herrera, Carlos M.; Medrano, M??nica; Bazaga, Pilar; Alonso, Conchita. 2022. Ecological significance of intraplant variation: epigenetic mosaicism in Lavandula latifolia plants predicts extant and transgenerational variability of fecundity-related traits. Journal of Ecology (in press).
DOI: 10.20350/digitalcsic/14612
title: SPEIbase v.2.7 [Dataset]

description: The Global 0.5?? gridded SPEI dataset is made available under the Open Database License. Any rights in individual contents of the database are licensed under the Database Contents License. Users of the dataset are free to share, create and adapt under the conditions of attribution and share-alike. The Global SPEI database, SPEIbase, offers long-time, robust information on the drought conditions at the global scale, with a 0.5 degrees spatial resolution and a monthly time resolution. It has a multi-scale character, providing SPEI time-scales between 1 and 48 months. The Standardized Precipitatin-Evapotranspiration Index (SPEI) expresses, as a standardized variate (mean zero and unit variance), the deviations of the current climatic balance (precipitation minus evapotranspiration potential) with respect to the long-term balance. The reference period for the calculation, in the SPEIbase, corresponds to the whole study period. Being a standardized variate means that the SPEI condition can be compared across space and time. Calculation of the evapotranspiration potential in SPEIbase is based on the FAO-56 Penman-Monteith method. Data type: float; units: z-values (standard deviations). No land pixels are assigned a value of 1.0x10^30. In some rare cases it was not possible to achieve a good fit to the log-logistic distribution, resulting in a NAN (not a number) value in the database. Dimensions of the dataset: lon = 720; lat = 360; time = 1356. Resolution of the dataset: lon = 0.5??; lat = 0.5??; time = 1 month. Created in R using the SPEI package (http://cran.r-project.org/web/packages/SPEI).
description: Global gridded dataset of the Standardized Precipitation-Evapotranspiration Index (SPEI) at time scales between 1 and 48 months.-- Spatial resolution of 0.5?? lat/lon.-- This is an update of the SPEIbase v2.6 (https://digital.csic.es/handle/10261/202305).-- What???s new in version 2.7: 1) Based on the CRU TS 4.05 dataset, spanning the period between January 1901 to December 2020. Using TLMoments::PWM instead of lmomco::pwm.ub for calculating distribution parameters. For more details on the SPEI visit http://sac.csic.es/spei
DOI: 10.20350/digitalcsic/15494
title: Data from Shifts in survival and reproduction after chronic warming enhance the potential of a marine copepod to persist under extreme heat events [Dataset]

description: The study of a species' thermal tolerance and vital rate responses provides useful metrics to characterize its vulnerability to ocean warming. Under prolonged thermal stress, plastic and adaptive processes can adjust the physiology of organisms. Yet it is uncertain whether the species can expand their upper thermal limits to cope with rapid and extreme changes in environmental temperature. In this study, we reared the marine copepod Paracartia grani at control (19??C) and warmer conditions (25??C) for &gt;18 generations and assessed their survival and fecundity under short-term exposure to a range of temperatures (11-34??C). After multigenerational warming, the upper tolerance to acute exposure (24 hours) increased by 1-1.3??C, although this enhancement decreased to 0.3-0.8??C after longer thermal stress (7 days). Warm-reared copepods were smaller and produced significantly fewer offspring at the optimum temperature. No shift in the thermal breadth of the reproductive response was observed. Yet the fecundity rates of the warm-reared copepods in the upper thermal range were up to 21-fold higher than the control. Our results show that chronic warming improved tolerance to stress temperatures and fecundity of P. grani, therefore enhancing its chances to persist under extreme heat events
description: Rearing temperature, generation, exposure temperature, survival 24h, survival 7d, egg production rate, fitness index, egg diameter, female prosome length
DOI: 10.20350/digitalcsic/15265
title: Blood chemistry values of black-necked grebes Podiceps nigricollis from Odiel marshes (SW Spain) during the moulting period

description: The dataset includes a file with information relative to blood chemistry values (16 parameters), body measurementes (2 parameters), moulting stage (3 categories), body-mass index (1 parameter) and sex (2 categories) of black-necked grebes (669 individuals) during the moulting periods (late August-early December) of 2008 and 2009 at the Odiel marshes, southwestern Spain: (i) File : Blood chemistry values and body measurements of black-necked grebes according to moulting stage and sex.
DOI: 10.20350/digitalcsic/14698
title: Phage predation of Lactococcus in the presence of bacteriocins
DOI: 10.20350/digitalcsic/15675
title: Camera trapping of mammals in the Cantabrian Mountains (Spain)

description: [Description of methods used for collection/generation of data] We deployed 12 trail cameras in Monta??a Palentina (Acorn LTL5310 (Shenzhen, China) =9; Bushnell Trophy Cam HD Black Led (Kansas, USA) = 3) and 12 in Alto Sil (Acorn LTL5310 (Shenzhen, China) =9; Bushnell Trophy Cam HD Black Led (Kansas, USA) = 2, and Browning Dark OPS (Herstal, Belgium) = 1), between July and September 2023 (ca. 60 days per camera) aiming at detecting European wildcats. Inside each location, cameras were distributed within an area of roughly 2000 Has at distances of ca. 1500 m from each other, as this procedure is reliable to estimate European wildcat densities (Gil-S??nchez et al., 2015). Cameras were placed 30-50 cm above ground pointing perpendicularly at paths naturally used by wild animals and from which they were 2-3 m away. An open Eppendorf tube filled with Iberian lynx (Lynx pardinus) urine was buried in front of each camera, aiming at causing European wildcats to stop in front of the camera to optimize identification of individuals based on pelage patterns. Cameras were checked ca. every 20 days to download pictures and replace the batteries and urine (i.e. 2 reviews after deployment and finally camera retrieval). All cameras were programmed to take a burst of three pictures per trigger. Sensitivity was set to low to minimize the excess of triggers caused by sun glares or moving branches. Cameras used natural and infrared light during day and night triggers respectively.
description: [Methods for processing the data] Pictures were sorted following the methodology of R package CamtrapR (Niedballa et al. 2016) in order to extract metadata (date and time of the picture). Humans and birds were not included.
description: [EN] This dataset provides the raw results of a mammalian survey campaign using trail cameras conducted between July and September 2023 (1495 trap-nights) simultaneously in Monta??a Palentina Natural Park (Palencia, Spain) and Alto Sil (Le??n, Spain). The main objective of the survey was to detect and estimate population numbers for European wildcats (Felis silvestris), but several small and large mammal species (Carnivora, Artiodactyla, Rodentia and Lagomorpha) were detected.
description: [ES] Este conjunto de datos proporciona los resultados brutos de la campa??a de fototrampeo desarrollada entre Julio y Septiembre de 2023 (1495 noches-trampa) de forma simult??nea en el Parque Natural de Monta??a Palentina (MNPN, Palencia, Espa??a) y el Alto Sil (Le??n, Spain). El principal objetivo del muestreo era detectar y estimar n??meros poblacionales en el gato mont??s europeo (Felis silvestris), pero otras especies de mam??feros (Carnivora, Artiodactyla, Rodentia and Lagomorpha) tambi??n fueron detectadas.
DOI: 10.20350/digitalcsic/14613
title: Dataset supporting publication "Domain wall automotion in three-dimensional magnetic helical interconnectors"
DOI: 10.6084/m9.figshare.26333170
title: TranSpec

description: Details of Results.zipIncluded are the correct SMILES in the test set of QM9S dataset and the SMILES candidate produced from different models and model-fusion. The parameters of the models are provided in .pt files. <br>Details of Training-Data.zipIncluded are the files of the SMILES, IR and Raman spectra of QM9S and QM14S dataset. For the QM9S’s spectra files, the first column is SMILES and the 2nd to 3001st are spectra intensities corresponding to 0-4000cm-1. For the QM14S’s spectra files, the SMILES are not present but listed in qm14s_SMILES.txt.<br>Details of example.zipConsidering the running of TranSpec is impossible on Figshare. We randomly selected 5000 molecules from QM9S to illustrate how to run the code. <br>Details of Group-Recognition.zipFiles to calculate the accuracy of functional group recognition. All molecules containing the same groups are collected into one same folder, with the Top1 candidates produced from TranSpec.<br>Details of Isomer-Distinguish.zipFiles to calculate the accuracy of isomers distinguishment. The first column is the correct SMILES, while the second to eleventh column are the predicted Top1 to Top10 SMILES candidates. All isomers corresponding to the same elementary compositions are separated with an empty row.
DOI: 10.20350/digitalcsic/14558
title: Intraspecific virulence of entomopathogenic nematodes against the pests Frankliniella occidentalis (Thysanoptera: Thripidae) and Tuta absoluta (Lepidoptera: Gelechiidae) [Dataset]

description: Entomopathogenic nematodes (EPN) are excellent biocontrol agents against various insect pests. Novel biotechnological approaches can enhance their utility against insects above-ground, opening a new venue for selecting superior EPN against certain insects. We hypothesize that different populations of the same species but from different origins (habitat, ecoregion) will differ in their virulence. This study aimed to evaluate the virulence of various EPN populations against two pests of worldwide incidence and damage to high value crops: Frankliniella occidentalis (Thysanoptera: Thripidae) and Tuta absoluta (Lepidoptera: Gelechiidae). We tested 10 EPN populations belonging to three EPN species: Heterorhabditis bacteriophora (Koppert, MG-618b, AM-203, RM-102), Steinernema feltiae (Koppert, RS-5, AM-25, RM-107), and Steinernema carpocapsae (Koppert, MG-596a). Each EPN population was tested at two concentrations. Frankliniella occidentalis was tested at 160 and 80 IJs/cm2 and T. absoluta at 21 and 4 IJs/cm2. Control treatments followed the same experimental procedure but only adding distilled water. Overall, whenever different, higher IJs concentration resulted in lower adult emergence, higher larval mortality, and shorter time to kill the insects. Considering the low concentration, S. feltiae provided the best results for both insects and instars investigated, while H. bacteriophora and S. carpocapsae required a high concentration to reach similar or slightly better results. Differences among populations of each of the species were detected, but only the native populations of H. bacteriophora populations showed consistently higher control values against both insects/instar compared with the commercial one. Differences among S. feltiae and S. carpocapsae populations depended on the IJs concentration, insect, and instar. We consider S. feltiae a very promising species for their application against F. occidentalis and T. absoluta, with the Koppert population as the most consistent among the populations tested. Specific EPN-populations of S. carpocapsae and H. bacteriophora were good candidates against certain instar/insects at high concentrations. This study emphasized the importance of intraspecific variability for EPN virulence.
DOI: 10.20350/digitalcsic/15608
title: Full images-Main Figures of Martin et al., PLoS Genet 2023

description: [Description of methods used for collection/generation of data] Images collectd by Confocal Microscopy. See Materials and Methods of Martin et al., PLoS Genet 2023.
description: [Methods for processing the data] See Materials and Methods of Martin et al., PLoS Genet 2023.
description: This Dataset contains the full images used to compose the main Figures of the research article: Martin et al., PLoS Genet 2023 . A novel proneural function of Asense is integrated with the sequential actions of Delta-Notch, L???sc and Su(H) to promote the Neuroepithelial to Neuroblast transition. These images were acquired by confocal microscopy from dissected third instar larval brains of several Drosophila melanogaster strains after immunostaining following the Materials and Methods described in the publication. The Dataset is organized in folders identified by the name of the corresponding figure (for example, Fig 1). Within each folder, each image is labeled with the name of the Figure and panel in which the corresponding image fragment appears in the publication (for example, Fig 1B). All of them are provided as TIFF files. No images of schemes or diagrams of the figures are included in this Dataset.
DOI: 10.15468/dl.jmy4ef
title: Occurrence Download

description: A dataset containing 13925 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON ((-66.65141 10.44722, -66.49695 10.44722, -66.49695 10.49606, -66.65141 10.49606, -66.65141 10.44722))",
 "Year is greater than or equal to 2010",
 "HasGeospatialIssue is false",
 "TaxonKey is Aves",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen, Specimen)"
 ]
 }
 }
 ]
}

 The dataset includes 13925 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0036499-240906103802322/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.20350/digitalcsic/15656
title: Accumulation of Kkv and Reb [Dataset]

description: All images are super-resolution single confocal sections except B, which is a projection of super-resolution confocal sections. (A, B) In the trachea of wild-type embryos, Reb and Kkv do not colocalise, and they show a complementary pattern (A???-A??????) at the local subcellular level. (C) In salivary gland of embryos expressing Reb, the patterns of Kkv and Reb are complementary. (D) Models for the role of kkv and exp/reb in chitin deposition. Kkv oligomerises in complexes that localise to the apical membrane (as proposed in [2]). In the absence of exp/reb activity, Kkv can polymerise chitin from sugar monomers (discontinuous red lines), but it cannot translocate it because the channel is closed, and polymerised chitin remains in the cytoplasm. In addition, Kkv is not homogeneously distributed. Exp/Reb form a complex with other proteins, which localises to the apical membrane. The presence of Exp/Reb complex regulates Kkv apical distribution and activity. In model 1, we propose that a factor/s recruited by Exp/Reb (Factor X) can induce a posttranslation or conformational modification to Kkv protein that opens the channel promoting translocation of chitin fibers to the extracellular domain. In model 2, we propose that a factor/s recruited by Exp/Reb (Factor X???) can induce changes in membrane composition/curvature that will then promote a conformational change in Kkv that opens the channel to translocate chitin. These membrane changes lead to Kkv shedding extracellularly. In model 3, we propose that Exp/Reb complex can bind and relocalise Factor X???, which normally inhibits Kkv-translocating activity. This neutralises the activity of Factor X??? allowing chitin translocation. Scale bars: 5 ??m.