cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.14754866
title: Genbank Accession Numbers of Evolution, expression patterns, and distribution of novel Ribbon Worm predatory and defensive toxins

description: This dataset contains the GenBank accession numbers for BioSamples and SRA from RNA-seq raw sequences extracted from Antarctonemertes valida and Antarctonemertes riesgoae, associated with the BioProject PRJNA831820. The localities are also included.
description: Ribbon worms are active predators that use an eversible proboscis to inject venom into their prey and defend themselves with toxic epidermal secretions. Previous work on nemertean venom has largely focused on just a few species and has not investigated the different predatory and defensive secretions in detail. Consequently, our understanding of the composition and evolution of ribbon worm venoms is still very limited. Here, we present a comparative study of nemertean venom combining RNA-seq differential gene expression analyses of venom-producing tissues, tandem mass spectrometry-based proteomics of toxic secretions, and mass spectrometry imaging of proboscis sections, to shed light onto the composition and evolution of predatory and defensive toxic secretions in Antarctonemertes valida. Our analyses reveal a wide diversity of putative defensive and predatory toxins with tissue-specific gene expression patterns and restricted distributions to the mucus and proboscis proteomes respectively, suggesting that ribbon worms produce distinct toxin cocktails for predation and defense. Our results also highlight the presence of numerous lineage-specific toxins, indicating that venom evolution is highly divergent across nemerteans, producing toxin cocktails that might be finely tuned to subdue different prey. Our data also suggest that the hoplonemertean proboscis is a highly specialized predatory organ that seems to be involved in a variety of biological functions besides predation, including secretion and sensory perception. Overall, our results advance our knowledge into the diversity and evolution of nemertean venoms and highlight the importance of combining different types of data to characterize toxin composition in understudied venomous organisms.
DOI: 10.5281/zenodo.14754867
title: Genbank Accession Numbers of Evolution, expression patterns, and distribution of novel Ribbon Worm predatory and defensive toxins

description: This dataset contains the GenBank accession numbers for BioSamples and SRA from RNA-seq raw sequences extracted from Antarctonemertes valida and Antarctonemertes riesgoae, associated with the BioProject PRJNA831820. The localities are also included.
description: Ribbon worms are active predators that use an eversible proboscis to inject venom into their prey and defend themselves with toxic epidermal secretions. Previous work on nemertean venom has largely focused on just a few species and has not investigated the different predatory and defensive secretions in detail. Consequently, our understanding of the composition and evolution of ribbon worm venoms is still very limited. Here, we present a comparative study of nemertean venom combining RNA-seq differential gene expression analyses of venom-producing tissues, tandem mass spectrometry-based proteomics of toxic secretions, and mass spectrometry imaging of proboscis sections, to shed light onto the composition and evolution of predatory and defensive toxic secretions in Antarctonemertes valida. Our analyses reveal a wide diversity of putative defensive and predatory toxins with tissue-specific gene expression patterns and restricted distributions to the mucus and proboscis proteomes respectively, suggesting that ribbon worms produce distinct toxin cocktails for predation and defense. Our results also highlight the presence of numerous lineage-specific toxins, indicating that venom evolution is highly divergent across nemerteans, producing toxin cocktails that might be finely tuned to subdue different prey. Our data also suggest that the hoplonemertean proboscis is a highly specialized predatory organ that seems to be involved in a variety of biological functions besides predation, including secretion and sensory perception. Overall, our results advance our knowledge into the diversity and evolution of nemertean venoms and highlight the importance of combining different types of data to characterize toxin composition in understudied venomous organisms.
DOI: 10.17632/9zxj8b56y9.1
title: LBsegmentation

description: Lattice Boltzmann segmentation of Database X-ray coronary angiograms (DCA1)
DOI: 10.5281/zenodo.14592070
title: PILOT TESTS AND EVALUATION LOGS: DEVELOPMENT OF SUITE OF PROMOT PROTOCOLS  FOR SCAFFOLDING CT.SVD.REL

description: This document contains information on the pilot tests with internal and external users for the development of a scaffolding framework for Complex Thinking and its calibration for the Dimension of Structural Complexity and the properties of Structural Variety and Dimensionality and Relationality

 

Recommended citation: Melo, A. T., Renault, L., Caves, L., Garnett, P., Lopes, P. D., Ribeiro, R., Santos, F. (2024). Development documents and tests for the development and calibration of an evaluation framework for Complex Thinking on the dimension of Structural Complexity and the property of Structural Variety and Dimensionality. Coimbra: Centre for Social Studies. This document was produced as part of the project COMPLEX THINKING & AI, Funded by Stefan Pernar
DOI: 10.5281/zenodo.14592071
title: PILOT TESTS AND EVALUATION LOGS: DEVELOPMENT OF SUITE OF PROMOT PROTOCOLS  FOR SCAFFOLDING CT.SVD.REL

description: This document contains information on the pilot tests with internal and external users for the development of a scaffolding framework for Complex Thinking and its calibration for the Dimension of Structural Complexity and the properties of Structural Variety and Dimensionality and Relationality

 

Recommended citation: Melo, A. T., Renault, L., Caves, L., Garnett, P., Lopes, P. D., Ribeiro, R., Santos, F. (2024). Development documents and tests for the development and calibration of an evaluation framework for Complex Thinking on the dimension of Structural Complexity and the property of Structural Variety and Dimensionality. Coimbra: Centre for Social Studies. This document was produced as part of the project COMPLEX THINKING & AI, Funded by Stefan Pernar
DOI: 10.17632/7bs9kg8hyp.1
title: Thermal programmed desorption of hydrogen from a QP1180 AHSS

description: Thermal Programmed Desorption tests carried out on an sample of a QP 1180 advanced high strength steel, where hydrogen was previously introduced via cathodic charging. 

Test were carried out by using a Temperature Programmed Desorption Workstation (Hiden Analytical).

Financed by the European Union - NextGenerationEU (National Sustainable Mobility Center CN00000023, Italian Ministry of University and Research Decree n. 1033 - 17/06/2022, Spoke 11 - Innovative Materials & Lightweighting). The opinions expressed are those of the authors only and should not be considered as representative of the European Union or the European Commission’s official position. Neither the European Union nor the European Commission can be held responsible for them. 

The activity was carried out within the framework of the Closed “Call for Scalability” (3rd ed.) project "Multiphase high strength steel forming and testing for robust Automotive lightweight DEsign" (MADE).

Keywords: Spoke11 - CNMS MOST, Ferrous alloys, MADE
DOI: 10.17632/56wrm65xwj.1
title: LINF_040013800

description: Protein of unknown function - conserved; Leishmania infantum (strain JPCM5)
DOI: 10.17632/nrr7khkwph.1
title: LINF_040014000

description: Protein of unknown function - conserved; Leishmania infantum (strain JPCM5)
DOI: 10.17632/2s745sm699.1
title: LINF_040014100

description: Protein of unknown function - conserved; Leishmania infantum (strain JPCM5)
DOI: 10.5281/zenodo.14756049
title: Genbank Accession Numbers of Contrasting Patterns of Genetic Diversity and Divergence Between Landlocked and Migratory Populations of Fish Galaxias maculatus, Evaluated Through Mitochondrial DNA Sequencing and Nuclear DNA Microsatellites

description: This dataset contains GenBank accession numbers for 35 D-loop sequences obtained from Galaxias maculatus. Information on isolate, locality, latitude, and longitude is also included.
description: Galaxias species are interesting biogeographic models due to their distribution and different types of life cycles, with migratory and landlocked populations. To obtain a better understanding of the genetic consequences of the Quaternary glacial cycles in Galaxias maculatus, in this work we compared landlocked and migratory populations collected in areas that were differentially affected by ice advances and retreats. We included nine populations of G. maculatus, four collected from lakes (landlocked) and five from their associated estuaries/rivers (migratory) in three estuary-lake systems across southern Chile. Genetic analyses were performed using the mitochondrial control region and nine microsatellite loci. Genetic diversity measured with both markers was significantly higher in migratory than in landlocked populations across the study area. The levels of genetic differentiation showed higher differentiation among lakes than estuaries. Genetic diversity was higher in migratory populations located in areas that were less impacted by ice during Quaternary glacial processes. These results may be the consequence of recent recolonization of small freshwater bodies following the Last Glacial Maximum (LGM). Finally, the greatest differentiation was observed in populations that were exposed to continental ice advances and retreats during the LGM. Thus, in the present work we corroborate a pattern of differentiation between lakes and estuaries, using mtDNA sequences and microsatellite nuclear markers. This pattern may be due to a combination of biological factors, i.e., resident non-migratory behaviour or landlocking and natal homing-in, as well as geological factors, i.e., Expansion-Contraction Quaternary glacial biogeographic processes.
DOI: 10.5281/zenodo.14756050
title: Genbank Accession Numbers of Contrasting Patterns of Genetic Diversity and Divergence Between Landlocked and Migratory Populations of Fish Galaxias maculatus, Evaluated Through Mitochondrial DNA Sequencing and Nuclear DNA Microsatellites

description: This dataset contains GenBank accession numbers for 35 D-loop sequences obtained from Galaxias maculatus. Information on isolate, locality, latitude, and longitude is also included.
description: Galaxias species are interesting biogeographic models due to their distribution and different types of life cycles, with migratory and landlocked populations. To obtain a better understanding of the genetic consequences of the Quaternary glacial cycles in Galaxias maculatus, in this work we compared landlocked and migratory populations collected in areas that were differentially affected by ice advances and retreats. We included nine populations of G. maculatus, four collected from lakes (landlocked) and five from their associated estuaries/rivers (migratory) in three estuary-lake systems across southern Chile. Genetic analyses were performed using the mitochondrial control region and nine microsatellite loci. Genetic diversity measured with both markers was significantly higher in migratory than in landlocked populations across the study area. The levels of genetic differentiation showed higher differentiation among lakes than estuaries. Genetic diversity was higher in migratory populations located in areas that were less impacted by ice during Quaternary glacial processes. These results may be the consequence of recent recolonization of small freshwater bodies following the Last Glacial Maximum (LGM). Finally, the greatest differentiation was observed in populations that were exposed to continental ice advances and retreats during the LGM. Thus, in the present work we corroborate a pattern of differentiation between lakes and estuaries, using mtDNA sequences and microsatellite nuclear markers. This pattern may be due to a combination of biological factors, i.e., resident non-migratory behaviour or landlocking and natal homing-in, as well as geological factors, i.e., Expansion-Contraction Quaternary glacial biogeographic processes.
DOI: 10.5281/zenodo.14592051
title: DEVELOPMENT DATA FOR THE EVALUATION FRAMEWORK FOR SCAFFOLDING CT

description: This document contains development documents (tests, earlier versions of the evaluation framework) and chat logs)used and created during the process of developing an evaluation framework for Complex Thinking and its calibration for the Dimension of Structural Complexity and the properties of Structural Variety and Dimensionality

Recommended citation: Melo, A. T., Renault, L., Lopes, P. D., Ribeiro, R. (2024). Development documents and tests for the development and calibration of an evaluation framework for Complex Thinking on the dimension of Structural Complexity and the property of Structural Variety and Dimensionality. Coimbra: Centre for Social Studies. This document was produced as part of the project COMPLEX THINKING & AI, Funded by Stefan Pernar
DOI: 10.5281/zenodo.14592050
title: DEVELOPMENT DATA FOR THE EVALUATION FRAMEWORK FOR SCAFFOLDING CT

description: This document contains development documents (tests, earlier versions of the evaluation framework) and chat logs)used and created during the process of developing an evaluation framework for Complex Thinking and its calibration for the Dimension of Structural Complexity and the properties of Structural Variety and Dimensionality

Recommended citation: Melo, A. T., Renault, L., Lopes, P. D., Ribeiro, R. (2024). Development documents and tests for the development and calibration of an evaluation framework for Complex Thinking on the dimension of Structural Complexity and the property of Structural Variety and Dimensionality. Coimbra: Centre for Social Studies. This document was produced as part of the project COMPLEX THINKING & AI, Funded by Stefan Pernar
DOI: 10.17632/8c2gt9bkwd.1
title: LINF_040014200

description: Protein of unknown function - conserved; Leishmania infantum (strain JPCM5)
DOI: 10.17632/vfxhrhj66b.1
title: Lactuca aff. indica

description: Raw data obtained from the evaluation of three morphotypes of Lactuca aff. indica
DOI: 10.17632/j6vbb7jvx7.1
title: Data for: Referential alarm calls in cooperatively breeding white-winged choughs communicate about predator type and urgency

description: Data for: Referential alarm calls in cooperatively breeding white-winged choughs communicate about predator type and urgency
DOI: 10.17632/wm2c85k8t5
title: RNASeq - 3D Organoids Reveal Cellular and Molecular Mechanisms of Synovial Tissue Formation 3/4
DOI: 10.17632/2w9f5fbkcn
title: Identification and validation of novel endogenous controls for qPCR normalization: an in-depth study in SkBr3 breast cancer cell line
DOI: 10.17632/2jy5pxznw4
title: Raw GC-HRTOF-MS data of sorghum and ting metabolites

description: Raw GC-HRTOF-MS data of sorghum and fermented products (ting). Raw (unfermented whole grain sorghum, n=3); 3424 (spontaneously fermented ting samples at 34 oC for 24 h, n =3); 3424 (3165) (ting fermented with Lactobacillus fermentum FUA 3165, n=3); 3424 (3321) (ting fermented with Lactobacillus fermentum FUA 3321, n=3); 3424 (3165+3321) (ting fermented with a combination of Lactobacillus fermentum FUA 3165 and Lactobacillus fermentum FUA 3321).
DOI: 10.17632/ks8c66myft.2
title: Alignment Within Groups is Facilitated by Interbrain Synchrony

description: The "Data and Analyses Folder.zip" folder includes raw neural and behavioral data and R scripts used to run data analyses. 
"Channels_SCI.xlsx" includes a supplementary Excel file reporting scalp coupling index (SCI) values.
DOI: 10.5281/zenodo.14767178
title: Genbank Accession Numbers of From Settlers to Subspecies: Genetic Differentiation in Commerson's Dolphins Between South America and the Kerguelen Islands

description: This dataset contains the Genbank accession numbers for 41 mtDNA sequences obteined from Cephalorhynchus commersonii. Information on isolate and locality are also included.
description: Commerson’s dolphins (Cephalorhynchus commersonii) are separated into the subspecies C. c. commersonii, found along southern South America (SA) and the Falkland Islands/Islas Malvinas (FI/IM), and C. c. kerguelenensis, restricted to the subantarctic Kerguelen Islands (KI). Following the dispersal model proposed for the genus, the latter is thought to have originated from SA after a long-distance dispersal event. To evaluate this biogeographic scenario, a distribution-wide, balanced sampling of mitochondrial DNA (mtDNA) control region sequences was designed. New tissue samples from southern Chile, Argentina, FI/IM, and KI were added to published sequences from SA and KI, for a total of 256 samples. Genetic diversity indices, genetic and phylogeographic structure, and migration rates were calculated. One haplotype was shared between subspecies, with which all haplotypes of C. c. kerguelenensis formed a distinct group in the haplotype network. A new haplotype for C. c. kerguelenensis is reported. Differentiation in haplotype frequencies was found among localities within the distribution of C. c. commersonii, yet the phylogeographic signal was only statistically significant between subspecies. Coalescent-based historical gene flow estimations indicated migration between the northern and southern portions of the species’ range in SA as well as between SA and the FI/IM, but not between these and the KI. The net nucleotide divergence between dolphins from SA and the FI/IM was lower than the recommended threshold value suggested for delimiting subspecies, unlike that found between C. c. commersonii and C. c. kerguelenensis. The results are consistent with the model of post-glacial colonization of KI by South American C. commersonii, followed by an ongoing divergence process and subspecies status. Thus, C. c. kerguelenensis may represent the most recent diversification step of Cephalorhynchus, where isolation from their source population is driving a process of incipient speciation.
description: This study is also funding by the Réserve Naturelle Nationale des Terres Australes Françaises
DOI: 10.5281/zenodo.14767179
title: Genbank Accession Numbers of From Settlers to Subspecies: Genetic Differentiation in Commerson's Dolphins Between South America and the Kerguelen Islands

description: This dataset contains the Genbank accession numbers for 41 mtDNA sequences obteined from Cephalorhynchus commersonii. Information on isolate and locality are also included.
description: Commerson’s dolphins (Cephalorhynchus commersonii) are separated into the subspecies C. c. commersonii, found along southern South America (SA) and the Falkland Islands/Islas Malvinas (FI/IM), and C. c. kerguelenensis, restricted to the subantarctic Kerguelen Islands (KI). Following the dispersal model proposed for the genus, the latter is thought to have originated from SA after a long-distance dispersal event. To evaluate this biogeographic scenario, a distribution-wide, balanced sampling of mitochondrial DNA (mtDNA) control region sequences was designed. New tissue samples from southern Chile, Argentina, FI/IM, and KI were added to published sequences from SA and KI, for a total of 256 samples. Genetic diversity indices, genetic and phylogeographic structure, and migration rates were calculated. One haplotype was shared between subspecies, with which all haplotypes of C. c. kerguelenensis formed a distinct group in the haplotype network. A new haplotype for C. c. kerguelenensis is reported. Differentiation in haplotype frequencies was found among localities within the distribution of C. c. commersonii, yet the phylogeographic signal was only statistically significant between subspecies. Coalescent-based historical gene flow estimations indicated migration between the northern and southern portions of the species’ range in SA as well as between SA and the FI/IM, but not between these and the KI. The net nucleotide divergence between dolphins from SA and the FI/IM was lower than the recommended threshold value suggested for delimiting subspecies, unlike that found between C. c. commersonii and C. c. kerguelenensis. The results are consistent with the model of post-glacial colonization of KI by South American C. commersonii, followed by an ongoing divergence process and subspecies status. Thus, C. c. kerguelenensis may represent the most recent diversification step of Cephalorhynchus, where isolation from their source population is driving a process of incipient speciation.
description: This study is also funding by the Réserve Naturelle Nationale des Terres Australes Françaises
DOI: 10.5281/zenodo.14773710
title: Dataset VNT50 - Booster dose of BNT162b2 after two doses of CoronaVac improves neutralization of SARS-CoV-2 Omicron variant

description: Results from viral microneutralization assay in adults vaccinated with CoronaVac and BNT162b2 booster dose against SARS-CoV-2 Omicron variant.
DOI: 10.5281/zenodo.14773711
title: Dataset VNT50 - Booster dose of BNT162b2 after two doses of CoronaVac improves neutralization of SARS-CoV-2 Omicron variant

description: Results from viral microneutralization assay in adults vaccinated with CoronaVac and BNT162b2 booster dose against SARS-CoV-2 Omicron variant.
DOI: 10.17632/sr2nvrtrgc
title: RNASeq - 3D Organoids Reveal Cellular and Molecular Mechanisms of Synovial Tissue Formation 4/4
DOI: 10.17632/t4r7td6h8g.1
title: LINF_040013700

description: Protein of unknown function - conserved; Leishmania infantum (strain JPCM5)
DOI: 10.15468/dl.ay4cac
title: Occurrence Download

description: A dataset containing 3201 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Drosophila suzukii (Matsumura, 1931)",
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present"
 ]
}

 The dataset includes 3201 records from 65 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0005370-250127130748423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/kmrcv4
title: Bonaire Estafette Expedition 2022/2023 - Orthopteroids

description: Contains data on Orthoptera, Dermaptera, Blattodea collected during the inventory of the terrestrial invertebrates of Bonaire (Bonaire Estafette Expeditie 8 October 2022 to 2 March 2023). Published in: Luc Willemse, Roy Kleukers, Baudewijn Odé, Jan Wieringa, Wijnand Heitmans (2025). Grasshoppers and allied insects from Bonaire (Orthoptera, Dermaptera, Blattodea) Nederlandse Faunistische Mededelingen 64.
DOI: 10.14768/87980409-6fcd-4e20-bb21-17a7cfb59908
title: The scientific interests of the CLIMERI-France community during CMIP6: A review of the literature produced with IPSL and CNRM CMIP6 simulations.

description: This report provides a synthesis of the scientific literature produced within the CLIMERI-France community, based on simulations performed at IPSL and CNRM with CMIP6 model versions. These include CMIP6 simulations, as well as further simulations expanding upon the scope of CMIP6. The aim of this report is to quantify the advances in scientific knowledge resulting from these major modelling efforts, and to guide the future CMIP7 exercise, thanks to a clearer picture of the precise scientific interests of the CLIMERI-France community.