cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.17913863.v10
title: A unique hydrogenase operon observed in the thioautotrophic symbiont of Bathymodiolus mussel in the East Pacific Rise

description: The mytilid mussel <em>Bathymodiolus thermophilus</em> lives in the deep-sea hydrothermal vent regions due to its symbiotic relationship with chemosynthetic Gammaproteobacteria species which reside inside specialized gill cells. It is well established that symbionts in the gill bacteriocytes utilize sulfur, methane and hydrogen available in the vent environment. However, some symbiont genomes of mussels either possess or lack genes for hydrogen metabolism within the single-ribotype population as well as host mussel species level. Here, we observed a unique hydrogenase operon consisting of additional H2-sensing hydrogenase subunits from a complete genome of <em>B. thermophilus</em> gill symbiont sampled from an individual mussel from the East Pacific Rise (EPR9N). Also, we found methylated regions sparsely distributed throughout the EPR9N genome, mainly in the transposases regions and densely present in the rRNA gene regions. CRISPR diversity analysis confirmed this genome originated from a single symbiont strain. Comparative analysis revealed that 2,554 core gene clusters were shared with other <em>B. thermophilus</em> thiotrophic gill symbiont genomes, whereas 125 were unique to this EPR9N strain. Variation in genome size, gene content, and genome re-arrangements across individual hosts suggest multiple symbiont strains can associate with <em>B. thermophilus</em>. This complete mussel symbiont genome will be invaluable for further comparative genomic analyses studying structural genome evolution, symbiont population diversity, and adaptive evolution of symbionts in deep-sea chemosynthetic environments.
DOI: 10.6084/m9.figshare.19865446
title: Quartzitic Sandstones in the Namurian and Lower Westphalian succession of the Southern North Sea: a new High-Permeability Carboniferous Reservoir Type.

description: Sedimentological core logs, petrographic data and well correlation panels providing underlying data for this project aimed at understanding and predicting the distribution of high-permeability quartzitic gas reservoirs within the Carboniferous of the Southern North Sea Basin
DOI: 10.6084/m9.figshare.19865446.v2
title: Quartzitic Sandstones in the Namurian and Lower Westphalian succession of the Southern North Sea: a new High-Permeability Carboniferous Reservoir Type.

description: Sedimentological core logs, petrographic data and well correlation panels providing underlying data for this project aimed at understanding and predicting the distribution of high-permeability quartzitic gas reservoirs within the Carboniferous of the Southern North Sea Basin
DOI: 10.6084/m9.figshare.19865446.v1
title: Quartzitic Sandstones in the Namurian and Lower Westphalian succession of the Southern North Sea: a new High-Permeability Carboniferous Reservoir Type.

description: Sedimentological core logs, petrographic data and well correlation panels providing underlying data for this project aimed at understanding and predicting the distribution of high-permeability quartzitic gas reservoirs within the Carboniferous of the Southern North Sea Basin
DOI: 10.34740/kaggle/dsv/4290078
title: US Board on Geographic Names
DOI: 10.5281/zenodo.7152367
title: Dataset of measurements of the soil CO2 flux and soil brightness temperature at Le Biancane (geothermal field of Larderello-Travale, Tuscany, Italy) in the May-June 2021 period.

description: Dataset of measurements of the soil CO<sub>2</sub> flux and soil brightness temperature at Le Biancane (geothermal field of Larderello-Travale, Tuscany, Italy) in the period May-June 2021. The dataset is structured as follows: Column A is the progressive number of the point (#); Column B is the Longitude of the point, datum WGS 1984; Column C is the Latitude of the point, datum WGS 1984; Column D is the Universal Transverse Mercator (UTM) Longitude coordinate, datum WGS 1984, zone 32N; Column E is the Universal Transverse Mercator (UTM) Latitude coordinate, datum WGS 1984, zone 32N; Column F is the soil brightness temperature, in °C; Column G is the soil CO<sub>2</sub> flux in grams of CO<sub>2</sub> per square meter, per day (g m<sup>-2</sup> day<sup>-1</sup>)
DOI: 10.5281/zenodo.7152366
title: Dataset of measurements of the soil CO2 flux and soil brightness temperature at Le Biancane (geothermal field of Larderello-Travale, Tuscany, Italy) in the May-June 2021 period.

description: Dataset of measurements of the soil CO<sub>2</sub> flux and soil brightness temperature at Le Biancane (geothermal field of Larderello-Travale, Tuscany, Italy) in the period May-June 2021. The dataset is structured as follows: Column A is the progressive number of the point (#); Column B is the Longitude of the point, datum WGS 1984; Column C is the Latitude of the point, datum WGS 1984; Column D is the Universal Transverse Mercator (UTM) Longitude coordinate, datum WGS 1984, zone 32N; Column E is the Universal Transverse Mercator (UTM) Latitude coordinate, datum WGS 1984, zone 32N; Column F is the soil brightness temperature, in °C; Column G is the soil CO<sub>2</sub> flux in grams of CO<sub>2</sub> per square meter, per day (g m<sup>-2</sup> day<sup>-1</sup>)
DOI: 10.5281/zenodo.5543428
title: Quadrant plant diversity Germany 2021

description: Plant records, list of plants, flowers and heterogeneity in 5-10 quadrants in plots from the Biodiversity Exploratories in Germany 2021
DOI: 10.5281/zenodo.5543429
title: Quadrant plant diversity Germany 2021

description: Plant records, list of plants, flowers and heterogeneity in 5-10 quadrants in plots from the Biodiversity Exploratories in Germany 2021
DOI: 10.5281/zenodo.7152460
title: Quadrant plant diversity Germany 2021

description: Plant records, list of plants, flowers and heterogeneity in 5-10 quadrants in plots from the Biodiversity Exploratories in Germany 2021
DOI: 10.6084/m9.figshare.21286398
title: Tremella fuciformis polysaccharide reduces obesity in high-fat diet-fed mice by modulation of gut microbiota

description: This dataset contains raw_reads of faecal microbiota 16S sequence.
DOI: 10.6084/m9.figshare.21286398.v1
title: Tremella fuciformis polysaccharide reduces obesity in high-fat diet-fed mice by modulation of gut microbiota

description: This dataset contains raw_reads of faecal microbiota 16S sequence.
DOI: 10.6084/m9.figshare.20749141
title: Data_Reproductive_Senescence_in_Polar_Bears_in_a_Variable_Environment

description: These files contain all the data necessary to run the logistic regression of litter production and litter size, and the multievent CR model presented in Naciri M, Aars J, Blanchet M-A, Gimenez O and Cubaynes S (2022) Reproductive senescence in polar bears in a variable environment. Front. Ecol. Evol. 10:920481. doi: 10.3389/fevo.2022.920481. <br> The code to produce the results and the figures presented in the main text of the article are available on GitHub. Logistic regressions <strong>CR_f_lone_or_w_coys.csv</strong>: includes all females captured alone or with cubs-of-the-year between 2000 and 2022. unique_ID: unique ID of the capture (ID of the bear and date of capture) date: date of capture year: year of capture day_number: day of year of capture (with 1 corresponding to January 1) ID_NR: ID of the bear lat: latitude (decimal degrees) lon: longitude (decimal degrees) age: age at capture s_length: straight line body length cub_status: reproductive status at capture, "n" = no cubs, "c" = with cubs of the year cub_number: number of cubs accompanying the female at capture <strong>CR_f_w_coys.csv</strong>: includes all females captured with cubs-of-the-year between 1992 and 2022 unique_ID: unique ID of the capture (ID of the bear and date of capture) date: date of capture year: year of capture day_number: day of year of capture (with 1 corresponding to January 1) ID_NR: ID of the bear lat: latitude (decimal degrees) lon: longitude (decimal degrees) age: age at capture s_length: straight line body length cub_status: reproductive status at capture, "n" = no cubs, "c" = with cubs of the year cub_number: number of cubs accompanying the female at capture sea <strong>sea_ice_data</strong>: contains the sea ice-related metrics DateBreakUp: day of year (with 1 corresponding to January 1) of sea-ice break-up. DateFreezeUp: day of year (with 1 corresponding to January 1) of sea-ice freeze-up. Values superior to 365 (or 366) indicate that freeze-up occured in the following year. <strong>AO_data</strong>: contains the Arctic Oscillation-related metrics winter_AO: three-month (Jan, Feb, Mar) average of the AO index for year t prior_winter_AO: three-month (Jan, Feb, Mar) average of the AO index for year t-1 prior_spring_AO: three-month (Apr, May, Jun) average of the AO index for year t-1 <br> Multievent CR model <strong>CRlocalbears</strong>: Matrix of capture histories. <strong>agereallocalbears</strong>: Matrix of the age of each bear at each capture occasion <strong>daylocalbears</strong>: Matrix of the day of capture (day of year, 1 = January 1) <strong>initstatelocalbears</strong>: Matrix of initial state for each bear at each capture occasion <strong>dataweaning</strong>: Data required to run the logistic regression of the probability of two-year-old cubs having departed from their mother, against the day of year.
DOI: 10.6084/m9.figshare.20749141.v2
title: Data_Reproductive_Senescence_in_Polar_Bears_in_a_Variable_Environment

description: These files contain all the data necessary to run the logistic regression of litter production and litter size, and the multievent CR model presented in Naciri M, Aars J, Blanchet M-A, Gimenez O and Cubaynes S (2022) Reproductive senescence in polar bears in a variable environment. Front. Ecol. Evol. 10:920481. doi: 10.3389/fevo.2022.920481. <br> The code to produce the results and the figures presented in the main text of the article are available on GitHub. Logistic regressions <strong>CR_f_lone_or_w_coys.csv</strong>: includes all females captured alone or with cubs-of-the-year between 2000 and 2022. unique_ID: unique ID of the capture (ID of the bear and date of capture) date: date of capture year: year of capture day_number: day of year of capture (with 1 corresponding to January 1) ID_NR: ID of the bear lat: latitude (decimal degrees) lon: longitude (decimal degrees) age: age at capture s_length: straight line body length cub_status: reproductive status at capture, "n" = no cubs, "c" = with cubs of the year cub_number: number of cubs accompanying the female at capture <strong>CR_f_w_coys.csv</strong>: includes all females captured with cubs-of-the-year between 1992 and 2022 unique_ID: unique ID of the capture (ID of the bear and date of capture) date: date of capture year: year of capture day_number: day of year of capture (with 1 corresponding to January 1) ID_NR: ID of the bear lat: latitude (decimal degrees) lon: longitude (decimal degrees) age: age at capture s_length: straight line body length cub_status: reproductive status at capture, "n" = no cubs, "c" = with cubs of the year cub_number: number of cubs accompanying the female at capture sea <strong>sea_ice_data</strong>: contains the sea ice-related metrics DateBreakUp: day of year (with 1 corresponding to January 1) of sea-ice break-up. DateFreezeUp: day of year (with 1 corresponding to January 1) of sea-ice freeze-up. Values superior to 365 (or 366) indicate that freeze-up occured in the following year. <strong>AO_data</strong>: contains the Arctic Oscillation-related metrics winter_AO: three-month (Jan, Feb, Mar) average of the AO index for year t prior_winter_AO: three-month (Jan, Feb, Mar) average of the AO index for year t-1 prior_spring_AO: three-month (Apr, May, Jun) average of the AO index for year t-1 <br> Multievent CR model <strong>CRlocalbears</strong>: Matrix of capture histories. <strong>agereallocalbears</strong>: Matrix of the age of each bear at each capture occasion <strong>daylocalbears</strong>: Matrix of the day of capture (day of year, 1 = January 1) <strong>initstatelocalbears</strong>: Matrix of initial state for each bear at each capture occasion <strong>dataweaning</strong>: Data required to run the logistic regression of the probability of two-year-old cubs having departed from their mother, against the day of year.
DOI: 10.6084/m9.figshare.20749141.v1
title: Data_CR_model_Reproductive Senescence in Polar Bears in a Variable Environment

description: These RData files contain all the data necessary to run the multievent CR model. See Cubaynes et al. 2021 for details about the model. <strong>CRlocalbears</strong>: Matrix of capture histories. <strong>agereallocalbears</strong>.RData: Matrix of the age of each bear at each capture occasion <strong>daylocalbears</strong>: Matrix of the day of capture (day of year, 1 = January 1) <strong>initstatelocalbears</strong>: Matrix of initial state for each bear at each capture occasion <strong>dataweaning</strong>: Data required to run the logistic regression of the probability of two-year-old cubs having departed from their mother, against the day of year.
DOI: 10.5517/ccdc.csd.cc1zpr2h
title: CCDC 1838147: Experimental Crystal Structure Determination

description: Related Article: Xiangrui Meng, Weisi Guo, Guangming Nan, Ming Li|2022|Org.Biomol.Chem.|20|7609|doi:10.1039/D2OB01506D
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2c3v7l
title: CCDC 2178439: Experimental Crystal Structure Determination

description: Related Article: Jing Xiang, Li-Xin Wang, Xu Zhang, De-Sheng Zhu, Lei Wang, Lu-Lu Liu, Chi-Fai Leung, Jing Xiang|2022|RSC Advances|12|27267|doi:10.1039/D2RA04684A
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5287/bodleian:7jgr2jzkp
title: Role of Political Institutions on Economic Growth: Empirical Evidence
DOI: 10.5281/zenodo.7152149
title: Simulated data for MetaGT publication

description: The datasets contains metagenomic and metatranscriptomic Illumina reads simulated for 3 different sets of Bacteria: - Simple7<br> 7 bacterial species, inlcuding 2 members of the genus Corynebacterium.<br> - Medium20<br> 20 bacterial species, including 2 members of the genus Corynebacterium.<br> - Complex32<br> 32 bacterial species, including 2 strains Escherichia coli, 3 members of the genus Shigella,2 members of the Salmonella, 4 members of the Lactobacillus, 2 members of the Corynebacterium, 2 members of the Desulfosporosinus.
DOI: 10.5281/zenodo.7152148
title: Simulated data for MetaGT publication

description: The datasets contains metagenomic and metatranscriptomic Illumina reads simulated for 3 different sets of Bacteria: - Simple7<br> 7 bacterial species, inlcuding 2 members of the genus Corynebacterium.<br> - Medium20<br> 20 bacterial species, including 2 members of the genus Corynebacterium.<br> - Complex32<br> 32 bacterial species, including 2 strains Escherichia coli, 3 members of the genus Shigella,2 members of the Salmonella, 4 members of the Lactobacillus, 2 members of the Corynebacterium, 2 members of the Desulfosporosinus.
DOI: 10.3886/e119629v1-128700
title: Political and personal reactions to COVID-19 during initial weeks of social distancing in the United States

description: Survey data collected for the paper below. <br><br>Political and personal reactions to COVID-19 during initial weeks of social distancing in the United States <br><br><b>Objective:</b> To examine perceptions, behaviors, and impacts surrounding COVID-19 early in the pandemic response. <b>Materials and Methods: </b>A cross-sectional survey of 1,030 U.S. adults was administered on March 31st, 2020. This survey examined attitudes toward media, government, and community responses to COVID-19 by political ideology and sociodemographic factors. Knowledge, anxieties, and impacts of COVID-19 were also assessed. <b>Results:</b> Conservatives were more likely to report that COVID-19 was receiving too much media coverage and people were generally overreacting; liberals were more likely to report the government had not done enough in response to the pandemic. Females and those with lower income experienced more COVID-19 related economic anxieties. Those working and with children at home reported higher social, home, and work disruption. Social distancing behaviors were more common among liberals and were associated with increases in depressive symptoms. <b>Conclusions:</b> Public health experts should consider the political climate in crafting messaging that appeals to the values of those across the political spectrum. Research on the COVID-19 pandemic should continue to monitor the effects of social distancing on mental health and among vulnerable populations.
description: Persons 18 years or older residing in the U.S.
DOI: 10.7910/dvn/yq5qyg
title: Replication Data for: Development and validation of diagnostic SNP markers for quality control genotyping in a collection of four rice (Oryza) species

description: Morphological identification of closely related rice species, particularly those in the Oryza AA genome group, presents major challenges and often results in cases of misidentification. Recent work by this group identified diagnostic single nucleotide polymorphic (SNP) markers specific for several rice species and subspecies based on DArTseq next-generation sequencing technology (“DArTseq”). These SNPs can be used for quality control (QC) analysis in rice breeding and germplasm maintenance programs. Here, we present the DArTseq-based diagnostic SNPs converted into Kompetitive allele-specific PCR (KASPar or KASP) assays and validation data for a subset of them; these can be used for low-cost routine genotyping quality control (QC) analysis. Of the 224 species/subspecies’ diagnostic SNPs tested, 158 of them produced working KASP assays, a conversion success rate of 70%. Two validation experiments were run with 87 of the 158 SNP markers to ensure that the assays amplified, were polymorphic, and distinguished the five species/subspecies tested. Based on these validation test results, we recommend a panel of 36 SNP markers that clearly delineate O. barthii, O. glaberrima, O. longistaminata, O. sativa spp. indica and japonica. The KASP assays provide a flexible, rapid turnaround and cost-effective tool to facilitate germplasm curation and management of these four Oryza AA genome species across multiple genebanks.
DOI: 10.7910/dvn/bnpm0l
title: Replication Data for: Mapping chromosomal regions associated with anther indehiscence with exerted stigmas in CRI-48 and Jasmine 85 cross of rice (Oryza sativa L)

description: Anther indehiscence in certain wide crosses combines male sterility with stigma exertion, a phenomenon that is desirable for hybrid rice seed production. This study sought to identify chromosomal region(s) that combine anther indehiscence with exerted stigmas. A mapping population consisting of 189 BC1F1 plants was derived from a cross between CRI-48 and Jasmine 85 and backcrossing the resulting F1 to Jasmine 85. Contrary to the three complementary genes mode of inheritance reported earlier, a single locus (AI6-1) was mapped on chromosome 6 at 27.4 cM for anther indehiscence with exerted stigmas through a mixed model-based composite interval mapping (MCIM). This locus was flanked by two single nucleotide polymorphism (SNP) markers, K_ID6002884 and K_ID6003341 within a range of 23.1–28.9 cM. The allele at the locus was contributed by the CRI-48 parent which has Oryza glaberrima ancestry. This locus is suggested to control anther indehiscence and stigma exertion through pleiotropic gene action or cluster of genes.
DOI: 10.6084/m9.figshare.16419226
title: Serum activity of matrix metalloproteinase-2 and -9 is increased in chronic post-stroke individuals: a cross-sectional exploratory study

description: High concentrations of matrix metalloproteinase-2 (MMP-2) and −9 (MMP-9) are associated with inflammation early after stroke. In chronic stages, the elevation of some cytokines is related to the presence of co-morbid conditions in these individuals. In addition to this, some characteristics such as sensorimotor impairment, atrophy, and sedentary lifestyle predispose the system to an inflammatory response. To quantify MMP-2 and −9 serum activity in chronic post-stroke individuals and correlate it with variables of physical activity level, body composition, functional and walking capacity, and with inflammatory biomarkers. Additionally, gelatinase activity was characterized according to motor impairment. Fourteen patients with stroke onset &gt;6 months and seven healthy individuals were enrolled in this study. The clinical assessment included: body composition, measure by bioelectrical impedance analyzer; Fugl-Meyer Motor Assessment Scale; six-minute and ten-meter walk tests, and physical activity level assessed by the StepWatch® Activity Monitor. Blood samples were collected from antecubital vein and serum MMP-2 and −9 activity was analyzed using gelatin Zymography, and the TNFα, IL-6, IL-1β, IL-10 biomarkers using ELISA kits. Chronic post-stroke individuals presented an increased activity of MMP-2 and −9 compared to healthy individuals. Positive correlations with time and steps in low cadence and negative ones with medium cadence and peak activity index were observed. According to the motor impairment, the MMP-2 activity was increased in the mild-moderate group compared to the control group. Increased gelatinases in chronic post-stroke individuals could describe an inflammation process related to the limited capacity of walking in high intensities.
DOI: 10.6084/m9.figshare.16419226.v3
title: Serum activity of matrix metalloproteinase-2 and -9 is increased in chronic post-stroke individuals: a cross-sectional exploratory study

description: High concentrations of matrix metalloproteinase-2 (MMP-2) and −9 (MMP-9) are associated with inflammation early after stroke. In chronic stages, the elevation of some cytokines is related to the presence of co-morbid conditions in these individuals. In addition to this, some characteristics such as sensorimotor impairment, atrophy, and sedentary lifestyle predispose the system to an inflammatory response. To quantify MMP-2 and −9 serum activity in chronic post-stroke individuals and correlate it with variables of physical activity level, body composition, functional and walking capacity, and with inflammatory biomarkers. Additionally, gelatinase activity was characterized according to motor impairment. Fourteen patients with stroke onset &gt;6 months and seven healthy individuals were enrolled in this study. The clinical assessment included: body composition, measure by bioelectrical impedance analyzer; Fugl-Meyer Motor Assessment Scale; six-minute and ten-meter walk tests, and physical activity level assessed by the StepWatch® Activity Monitor. Blood samples were collected from antecubital vein and serum MMP-2 and −9 activity was analyzed using gelatin Zymography, and the TNFα, IL-6, IL-1β, IL-10 biomarkers using ELISA kits. Chronic post-stroke individuals presented an increased activity of MMP-2 and −9 compared to healthy individuals. Positive correlations with time and steps in low cadence and negative ones with medium cadence and peak activity index were observed. According to the motor impairment, the MMP-2 activity was increased in the mild-moderate group compared to the control group. Increased gelatinases in chronic post-stroke individuals could describe an inflammation process related to the limited capacity of walking in high intensities.