cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.4970738.v1
title: Diversity and welfare state legitimacy in Europe. The challenge of intra-EU migration

description: It has convincingly been argued that in the United States, immigration is detrimental to welfare state support. In Europe, on the other hand, there is little evidence for such a negative relationship. This article examines whether a particular type of immigration – rapidly escalating intra-European Union (EU) immigration – reduces public support for the welfare state. We argue that because EU states cannot discriminate against resident EU nationals from other countries in the field of social security, intra-EU immigration will negatively affect attitudes towards welfare spending. To test this expectation, we use data from the European Social Survey of 2008, among other sources. The results of our multilevel analyses document a negative relationship between intra-EU immigration and welfare state support, supporting our hypothesis.
DOI: 10.6084/m9.figshare.4970741.v1
title: Picure Island Lower Petroglyph Panel

description: This dataset contains solely the output of photogrammetric processing of aerial imagery captured in the Atures Rapids, Amazonas state, Venezuela in 2016. This model is of the western section of the upper panel on Picure Island.<br>A full contextualisation of this data and accompanying discussion is published in Antiquity:<br><br><br>The archive contains a Wavefront Object, which can be viewed in Blender. Alternative formats are available upon request. The input data is available in the archive "Atures Rock Art photography" as part of this collection.<br><br>The data was processed in Agisoft Photoscan Pro 1.3.1 with default settings, except for output texture size, which was set at 8196x2. There are no benchmark photographs for this panel, and so the units are arbitrary. The double C-scrolls are approximately 30 x 30 cm, for reference.<br>
DOI: 10.6084/m9.figshare.4970762.v3
title: The Complete Mitochondrial Genome of the Grooved Carpet Shell, Ruditapes decussatus (Bivalvia, Veneridae).

description: Supplementary files of the article entitled: "<b>The Complete Mitochondrial Genome of the Grooved Carpet Shell, Ruditapes decussatus (Bivalvia, Veneridae)</b>".<br><br><b>Abstract</b>Despite the large number of animal complete mitochondrial genomes currently available in public databases, knowledge about mitochondrial genomics in invertebrates is uneven. This paper reports, for the first time, the complete mitochondrial genome of the grooved carpet shell, <i>Ruditapes decussatus</i>, also known as the European clam. <i>R. decussatus</i> is morphologically and ecologically similar to the Manila clam <i>Ruditapes philippinarum</i>, which has been recently introduced for aquaculture in the very same habitats of <i>R. decussatus</i>, and that is replacing the native species. Currently the production of the European clam is almost insignificant, nonetheless it is considered a high value product, and therefore it is an economically important species, especially in Portugal, Spain and Italy.In this work we: <i>i)</i> assembled <i>R. decussatus</i> mitochondrial genome from RNA-Seq data, and validated it by Sanger sequencing, <i>ii)</i> analyzed and characterized the <i>R. decussatus</i> mitochondrial genome, comparing its features with those of other venerid bivalves; <i>iii)</i> assessed mitochondrial sequence polymorphism (SP) and copy number variation (CNV) of tandem repeats across 26 samples.Despite using high-throughput approaches we did not find evidence for the presence of two sex-linked mitochondrial genomes, typical of the Doubly Uniparental Inheritance of mitochondria, a phenomenon known in ~100 bivalve species. According to our analyses, <i>R. decussatus</i> is more genetically similar to species of the Genus Paphia than to the congeneric <i>R. philippinarum</i>, a finding that bolsters the already-proposed need of a taxonomic revision. We also found a quite low genetic variability across the examined samples, with few SPs and little variability of the sequences flanking the control region (Largest Unassigned Regions, LURs). Strikingly, although we found low nucleotide variability along the entire mitochondrial genome, we observed high levels of length polymorphism in the LUR due to CNV of tandem repeats, and even a LUR length heteroplasmy in two samples. It is not clear if the lack of genetic variability in the mitochondrial genome of <i>R. decussatus</i> is a cause or an effect of the ongoing replacement of <i>R. decussatus</i> with the invasive <i>R. philippinarum</i>, and more analyses, especially on nuclear sequences, are required to assess this point.<br><br><br>
DOI: 10.6084/m9.figshare.4970723.v1
title: A Systematic Review on Harmful Alcohol Use Among Civilian Populations Affected by Armed Conflict in Low- and Middle-Income Countries

description: <i>Background</i>: There are currently over 55 million refugees and internally displaced persons due to armed conflict. In addition, there are around 150 million more conflict-affected residents who remain in their home communities. Armed conflict poses a number of potential risks for harmful alcohol use. <i>Objective</i>: The objective of the study was to systematically examine evidence on harmful alcohol use among conflict-affected populations in low- and middle-income countries. <i>Methods</i>: A systematic review methodology was used following PRISMA guidelines. Quantitative studies were selected with outcomes relating to harmful alcohol use among conflict-affected populations in low- and middle-income countries. Seven bibliographic databases and a range of gray literature sources were searched. Descriptive analysis was applied and a quality assessment conducted using the Newcastle-Ottawa Quality Assessment Scale. <i>Results</i>: The search yielded 10,037 references of which 22 studies met inclusion criteria. Twenty-one of the studies used a cross-sectional design, and 1 used a case series design. Evidence on risk factors for harmful alcohol use was weak overall. Factors associated with harmful alcohol use were male gender, older age, cumulative trauma event exposure, and depression. There were no studies on the effectiveness of interventions for harmful alcohol use. The strength of evidence was also limited by the generally moderate quality of the studies. <i>Conclusions</i>: Substantially more evidence is required to understand the scale of conflict-associated harmful alcohol use, key risk factors, association of alcohol use with physical and mental disorders, and effectiveness of interventions to address harmful alcohol use in conflict-affected populations.
DOI: 10.6084/m9.figshare.4970762.v2
title: The Complete Mitochondrial Genome of the Grooved Carpet Shell, Ruditapes decussatus (Bivalvia, Veneridae).

description: Supplementary files of the article entitled: "<b>The Complete Mitochondrial Genome of the Grooved Carpet Shell, Ruditapes decussatus (Bivalvia, Veneridae)</b>".<br><br><b>Abstract</b>Despite the large number of animal complete mitochondrial genomes currently available in public databases, knowledge about mitochondrial genomics in invertebrates is uneven. This paper reports, for the first time, the complete mitochondrial genome of the grooved carpet shell, <i>Ruditapes decussatus</i>, also known as the European clam. <i>R. decussatus</i> is morphologically and ecologically similar to the Manila clam <i>Ruditapes philippinarum</i>, which has been recently introduced for aquaculture in the very same habitats of <i>R. decussatus</i>, and that is replacing the native species. Currently the production of the European clam is almost insignificant, nonetheless it is considered a high value product, and therefore it is an economically important species, especially in Portugal, Spain and Italy.In this work we: <i>i)</i> assembled <i>R. decussatus</i> mitochondrial genome from RNA-Seq data, and validated it by Sanger sequencing, <i>ii)</i> analyzed and characterized the <i>R. decussatus</i> mitochondrial genome, comparing its features with those of other venerid bivalves; <i>iii)</i> assessed mitochondrial sequence polymorphism (SP) and copy number variation (CNV) of tandem repeats across 26 samples.Despite using high-throughput approaches we did not find evidence for the presence of two sex-linked mitochondrial genomes, typical of the Doubly Uniparental Inheritance of mitochondria, a phenomenon known in ~100 bivalve species. According to our analyses, <i>R. decussatus</i> is more genetically similar to species of the Genus Paphia than to the congeneric <i>R. philippinarum</i>, a finding that bolsters the already-proposed need of a taxonomic revision. We also found a quite low genetic variability across the examined samples, with few SPs and little variability of the sequences flanking the control region (Largest Unassigned Regions, LURs). Strikingly, although we found low nucleotide variability along the entire mitochondrial genome, we observed high levels of length polymorphism in the LUR due to CNV of tandem repeats, and even a LUR length heteroplasmy in two samples. It is not clear if the lack of genetic variability in the mitochondrial genome of <i>R. decussatus</i> is a cause or an effect of the ongoing replacement of <i>R. decussatus</i> with the invasive <i>R. philippinarum</i>, and more analyses, especially on nuclear sequences, are required to assess this point.<br><br><br>
DOI: 10.6084/m9.figshare.4970690
title: genera OTU table

description: OTU table at genus level<br>
DOI: 10.6084/m9.figshare.4970693
title: Metadata file

description: Metadata of the mice included in the study<br>
DOI: 10.6084/m9.figshare.4970699
title: Taxonomy table

description: taxonomy table used for this project<br>
DOI: 10.6084/m9.figshare.4970693.v2
title: Metadata file

description: Metadata of the mice included in the study<br>
DOI: 10.6084/m9.figshare.4970633
title: Dataset for: Myocardial Apoptosis and Mesenchymal Stem Cells with Acute Exercise

description: Background. Aerobic exercise confers many health benefits. However, numerous reports have shown that acute aerobic exercise can injure the heart. We tested the general hypothesis that acute moderate intensity exercise in rodents induces cardiomyocyte damage and stimulates mesenchymal stem cells (MSCs) to increase paracrine-mediated protective effects on cardiomyocytes. Methods and Results. A single session of treadmill running (13 m/min, 0% grade, for 45 min) in untrained C57BL/6 male mice (n=18) increased cleaved poly ADP-ribose polymerase (PARP), a marker of apoptosis, in the myocardium 24 hours post-exercise. Microarray analysis of mouse myocardium identified 11 relevant apoptotic genes and several shifts in matrix remodeling transcripts over the post-exercise window. Post-exercise cardiomyocyte death was recapitulated in neonatal rat cardiomyocytes (NRCMs) by culturing cells in 2% plasma harvested from exercised rats. The increased cell death observed in exercise-treated NRCMs was attenuated by β-adrenergic blockade, but not antioxidant treatment. MSC survival, proliferation, and chemotaxis showed no significant differences between sedentary and exercise plasma conditions, despite increased IL-6, TNF-α, IL-1β, and IFN-γ secretions from MSCs treated with exercise plasma. NRCM survival was increased nearly 500% when co-cultured with MSCs, but this effect was not altered under exercise plasma culture conditions. Conclusions. Our results suggest acute moderate-intensity aerobic treadmill running in exercise-naïve rodents induces temporal cardiomyocyte death due to plasma-borne factors, namely catecholaminergic stress. Even though exercise conditions prompt an inflammatory response in MSCs, the exercise milieu does not alter the MSC-protective phenotype on cardiomyocytes.
DOI: 10.6084/m9.figshare.4970690.v1
title: genera OTU table

description: OTU table at genus level<br>
DOI: 10.6084/m9.figshare.4970690.v2
title: genera OTU table

description: OTU table at genus level<br>
DOI: 10.6084/m9.figshare.4970693.v1
title: Metadata file

description: Metadata of the mice included in the study<br>
DOI: 10.6084/m9.figshare.4970633.v1
title: Dataset for: Myocardial Apoptosis and Mesenchymal Stem Cells with Acute Exercise

description: Background. Aerobic exercise confers many health benefits. However, numerous reports have shown that acute aerobic exercise can injure the heart. We tested the general hypothesis that acute moderate intensity exercise in rodents induces cardiomyocyte damage and stimulates mesenchymal stem cells (MSCs) to increase paracrine-mediated protective effects on cardiomyocytes. Methods and Results. A single session of treadmill running (13 m/min, 0% grade, for 45 min) in untrained C57BL/6 male mice (n=18) increased cleaved poly ADP-ribose polymerase (PARP), a marker of apoptosis, in the myocardium 24 hours post-exercise. Microarray analysis of mouse myocardium identified 11 relevant apoptotic genes and several shifts in matrix remodeling transcripts over the post-exercise window. Post-exercise cardiomyocyte death was recapitulated in neonatal rat cardiomyocytes (NRCMs) by culturing cells in 2% plasma harvested from exercised rats. The increased cell death observed in exercise-treated NRCMs was attenuated by β-adrenergic blockade, but not antioxidant treatment. MSC survival, proliferation, and chemotaxis showed no significant differences between sedentary and exercise plasma conditions, despite increased IL-6, TNF-α, IL-1β, and IFN-γ secretions from MSCs treated with exercise plasma. NRCM survival was increased nearly 500% when co-cultured with MSCs, but this effect was not altered under exercise plasma culture conditions. Conclusions. Our results suggest acute moderate-intensity aerobic treadmill running in exercise-naïve rodents induces temporal cardiomyocyte death due to plasma-borne factors, namely catecholaminergic stress. Even though exercise conditions prompt an inflammatory response in MSCs, the exercise milieu does not alter the MSC-protective phenotype on cardiomyocytes.
DOI: 10.6084/m9.figshare.4970573
title: Reaction textures, pressure–temperature paths and chemical dates of monazite from a new suite of sapphirine–spinel granulites from parts of the Eastern Ghats Province, India: insights into the final amalgamation of India and East Antarctica during the formation of Rodinia

description: Representative electron microprobe analyses of monazite in wt%, calculated apparent ages and ±2σ error
DOI: 10.6084/m9.figshare.4970558
title: Million Dollar List full data 2000-2012 used for PLOS ONE paper

description: Million Dollar List full data 2000-2012 used for PLOS ONE paper
DOI: 10.6084/m9.figshare.4970573.v1
title: Reaction textures, pressure–temperature paths and chemical dates of monazite from a new suite of sapphirine–spinel granulites from parts of the Eastern Ghats Province, India: insights into the final amalgamation of India and East Antarctica during the formation of Rodinia

description: Representative electron microprobe analyses of monazite in wt%, calculated apparent ages and ±2σ error
DOI: 10.6084/m9.figshare.4970525
title: Vetigastropoda and Neritimorpha from the Lower Bajocian of Luxembourg and palaeobiogeography of Aalenian–Bajocian (Middle Jurassic) gastropods of western Europe

description: Vetigastropod and neritimorph species from Lower Bajocian (Middle Jurassic) sediments of south-western Luxembourg are described. Eighteen species are recognized. Two new genera – <i>Szabotomaria</i> gen. nov. and <i>Fabercapulus</i> gen. nov. – and four new species – <i>Szabotomaria ziqquratiformis</i> sp. nov., <i>Colpomphalus thuyi</i> sp. nov., <i>Colpomphalus tigratus</i> sp. nov. and <i>Fabercapulus semisculptus</i> sp. nov. – are erected. These species, together with other species recently described from the same strata, are part of a diverse assemblage consisting of 32 species belonging to 14 genera in six families and five superfamilies, representing the richest vetigastropod-neritimorph fauna currently known from Bajocian and sub-coeval deposits of western Europe. An analysis of the palaeoecological and palaeobiogeographical relationships of this fauna and those from other areas of the western European shelf was performed using cluster analysis and by comparison of the respective taxonomic structures. The former detected a major cluster composed of two distinct branches: the faunas of the northern Paris-Wessex Basin, including Luxembourg, and those of the southern Germany basin. These faunas have similar taxonomic structures and occur mainly in facies represented by condensed iron ooid-rich marls and limestones deposited in lower offshore to upper offshore-shoreface settings. The close relationship between the Luxembourg and other faunas of the Paris-Wessex Basin reflects free faunal exchange and facies similarities. Slight differences in the sedimentary context could explain the separation of the southern German from the Anglo-Paris branch, whereas similarities between Swabian and Franconian faunas most probably reflect the geographical continuity of these areas. The Early Bajocian fauna of the East Midlands Shelf comes from sediments deposited in a shallow-water, oolitic barrier complex and is different from other western European faunas in both species composition and taxonomic structure. http://zoobank.org/urn:lsid:zoobank.org:pub:F4E70C4E-ECC3-49D9-9398-AC2C288F51A1
DOI: 10.6084/m9.figshare.4970525.v1
title: Vetigastropoda and Neritimorpha from the Lower Bajocian of Luxembourg and palaeobiogeography of Aalenian–Bajocian (Middle Jurassic) gastropods of western Europe

description: Vetigastropod and neritimorph species from Lower Bajocian (Middle Jurassic) sediments of south-western Luxembourg are described. Eighteen species are recognized. Two new genera – <i>Szabotomaria</i> gen. nov. and <i>Fabercapulus</i> gen. nov. – and four new species – <i>Szabotomaria ziqquratiformis</i> sp. nov., <i>Colpomphalus thuyi</i> sp. nov., <i>Colpomphalus tigratus</i> sp. nov. and <i>Fabercapulus semisculptus</i> sp. nov. – are erected. These species, together with other species recently described from the same strata, are part of a diverse assemblage consisting of 32 species belonging to 14 genera in six families and five superfamilies, representing the richest vetigastropod-neritimorph fauna currently known from Bajocian and sub-coeval deposits of western Europe. An analysis of the palaeoecological and palaeobiogeographical relationships of this fauna and those from other areas of the western European shelf was performed using cluster analysis and by comparison of the respective taxonomic structures. The former detected a major cluster composed of two distinct branches: the faunas of the northern Paris-Wessex Basin, including Luxembourg, and those of the southern Germany basin. These faunas have similar taxonomic structures and occur mainly in facies represented by condensed iron ooid-rich marls and limestones deposited in lower offshore to upper offshore-shoreface settings. The close relationship between the Luxembourg and other faunas of the Paris-Wessex Basin reflects free faunal exchange and facies similarities. Slight differences in the sedimentary context could explain the separation of the southern German from the Anglo-Paris branch, whereas similarities between Swabian and Franconian faunas most probably reflect the geographical continuity of these areas. The Early Bajocian fauna of the East Midlands Shelf comes from sediments deposited in a shallow-water, oolitic barrier complex and is different from other western European faunas in both species composition and taxonomic structure. http://zoobank.org/urn:lsid:zoobank.org:pub:F4E70C4E-ECC3-49D9-9398-AC2C288F51A1
DOI: 10.6084/m9.figshare.4970489
title: Supplementary Material for: Complement C3 Expression Is Decreased in Autism Spectrum Disorder Subjects and Contributes to Behavioral Deficits in Rodents

description: Autism spectrum disorder (ASD) is a neurodevelopmental disorder with hallmark symptoms including social deficits, communication deficits and repetitive behaviors. Accumulating evidence suggests a potential role of the immune system in the pathophysiology of ASD. The complement system represents one of the major effector mechanisms of the innate immune system, and regulates inflammation, and orchestrates defense against pathogens. However, the role of CNS complement system in ASD is not well understood. In the present study, we found a significant increase in C2, C5, and MASP1, but a decrease in C1q, C3, and C4 mRNA levels in the middle frontal gyrus of ASD subjects compared to controls. Significant decreases in the mRNA levels of 2 key proinflammatory cytokines, IL-17 and IL-23 were observed in ASD subjects. Our study further demonstrated a strong association of complement genes with IL-17 and IL-23, suggesting a possible role of the complement system in immune dysregulation in ASD. We observed significant associations between complement components and abnormality of development scores in subjects with ASD. In rodents, C3 knockdown in the prefrontal cortex induced social interaction deficits and repetitive behavior in mice. Together, these studies suggest a potential role of C3 in the pathophysiology of ASD.
DOI: 10.6084/m9.figshare.4970438
title: Owner assessment of the outcome of TPLO without meniscal evaluation

description: Data available for my study published in JSAP
DOI: 10.6084/m9.figshare.4970357
title: Supplemtary Table S1

description: The total number and rate (bracket) of uniquely mapped and counted read pairs for each 17 samples for the final data (mapped with STAR, untrimmed)
DOI: 10.6084/m9.figshare.4970372
title: Dataset_PTSD.xls

description: PTSD in Veterans
DOI: 10.6084/m9.figshare.4970357.v1
title: Supplemtary Table S1

description: The total number and rate (bracket) of uniquely mapped and counted read pairs for each 17 samples for the final data (mapped with STAR, untrimmed)
DOI: 10.6084/m9.figshare.4970261
title: Supplementary_Information_Table S4.xlsx

description: <br>
DOI: 10.6084/m9.figshare.4970372.v1
title: Dataset_PTSD.xls

description: PTSD in Veterans
DOI: 10.6084/m9.figshare.4970258
title: Supplementary_Information_Table_S2.xlsx

description: Short-term dynamics of marine protists communities
DOI: 10.6084/m9.figshare.4970261.v1
title: Supplementary_Information_Table S4.xlsx

description: <br>
DOI: 10.6084/m9.figshare.4970258.v1
title: Supplementary_Information_Table_S2.xlsx

description: Short-term dynamics of marine protists communities
DOI: 10.6084/m9.figshare.4970222
title: HELCATS LOWCAT

description: Under the EU FP7 HELCATS (helcats-fp7.eu) project, an automated back propagation algorithm has been developed to associate CMEs to solar flare events and their solar surface sources. CME kinematics are compared to active region magnetic field properties. The algorithm has been run on the HELCATS HICAT catalogue of over 2,000 events observed by STEREO/SECCHI-HI between 2007 and 2017, creating the LOWCAT catalogue. A more detailed description of the algorithm will follow with a publication currently under preparation.The LOWCAT catalogue can be downloaded here in several formats; .json, .txt., or an IDL .sav containing a structure. Also included is a property description file as well as a more in depth description of the algorithm.<br>The paper associated with this catalogue is Murray et al, 2018, ''Connecting Coronal Mass Ejections to their Solar Active Region Sources: Combining Results from the HELCATS and FLARECAST Projects", Solar Physics, doi:10.1007/s11207-018-1287-4 (https://arxiv.org/abs/1803.06529).<br>Note that the code used to create this catalogue, originally developed by P. Zucca can be found on GitHub (https://github.com/sophiemurray/lowcat), as well as the code used to analyse the results from the associated paper (https://github.com/sophiemurray/helcats-flarecast).