cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.5080756.v1
title: Molecular evidence of the presence of <i>Dictyota dichotoma</i> (Dictyotales: Phaeophyceae) in Argentina based on sequences from mtDNA and cpDNA and a discussion of its possible origin

description: <i>Dictyota</i> is a brown algae genus inhabiting tropical to warm temperate environments where it is an important food source, shelter and substrate to several species of invertebrates and other algae. The taxonomy of this genus is troublesome, with poor species delimitation and doubtful records in the literature. <i>Dictyota dichotoma</i>, the type species of the genus, was commonly accepted as a cosmopolitan species because of the inaccurate geographical distributional range as a consequence of misidentification in several parts of the world. Recent studies with molecular data revealed new species and a new understanding of the evolution and biogeography of the genus <i>Dictyota</i>. These studies confined natural populations of <i>D. dichotoma</i> to Europe (Atlantic and Mediterranean coasts) and Macaronesian islands (Azores, Madeira and Canary archipelagos). Also, they confirmed its presence in South Africa, but whether the species was native or introduced in South Africa could not be verified. In the present study two regions of cpDNA (<i>psb</i>A, <i>rbc</i>L) and one region of mtDNA (<i>nad</i>1) from Argentinian samples, identified morphologically as <i>D. dichotoma</i>, were analysed and compared to other <i>Dictyota</i> species. The identity of these samples as <i>D. dichotoma</i> was confirmed. A haplotype network analysis using all available <i>psb</i>A sequences distinguished seven haplotypes divided into two geographic groups: Atlantic–Mediterranean and Canarian. In Argentina and South Africa only the most common haplotype of the Atlantic–Mediterranean group was observed. According to the paleoceanographic currents and the presence of a European haplotype, the introduced nature of <i>D. dichotoma</i> is indicated.
DOI: 10.6084/m9.figshare.5080111
title: Synthetic intensity inhomogeneous images

description: Synthetic intensity inhomogeneous images for segmentationIt contains synthetic images and some of their ground truths used in our experiments.
DOI: 10.6084/m9.figshare.5080111.v1
title: Synthetic intensity inhomogeneous images

description: Synthetic intensity inhomogeneous images for segmentationIt contains synthetic images and some of their ground truths used in our experiments.
DOI: 10.6084/m9.figshare.5080006
title: IL17A augments autophagy in <i>Mycobacterium tuberculosis</i>-infected monocytes from patients with active tuberculosis in association with the severity of the disease

description: During mycobacterial infection, macroautophagy/autophagy, a process modulated by cytokines, is essential for mounting successful host responses. Autophagy collaborates with human immune responses against <i>Mycobacterium tuberculosis (Mt)</i> in association with specific IFNG secreted against the pathogen. However, IFNG alone is not sufficient to the complete bacterial eradication, and other cytokines might be required. Actually, induction of Th1 and Th17 immune responses are required for protection against <i>Mt</i>. Accordingly, we showed that IL17A and IFNG expression in lymphocytes from tuberculosis patients correlates with disease severity. Here we investigate the role of IFNG and IL17A during autophagy in monocytes infected with <i>Mt</i> H37Rv or the mutant <i>Mt</i>ΔRD1. Patients with active disease were classified as high responder (HR) or low responder (LR) according to their T cell responses against <i>Mt</i>. IL17A augmented autophagy in infected monocytes from HR patients through a mechanism that activated MAPK1/ERK2-MAPK3/ERK1 but, during infection of monocytes from LR patients, IL17A had no effect on the autophagic response. In contrast, addition of IFNG to infected monocytes, increased autophagy by activating MAPK14/p38 α both in HR and LR patients. Interestingly, proteins codified in the RD1 region did not interfere with IFNG and IL17A autophagy induction. Therefore, in severe tuberculosis patients' monocytes, IL17A was unable to augment autophagy because of a defect in the MAPK1/3 signaling pathway. In contrast, both IFNG and IL17A increased autophagy levels in patients with strong immunity to <i>Mt</i>, promoting mycobacterial killing. Our findings might contribute to recognize new targets for the development of novel therapeutic tools to fight the pathogen.
DOI: 10.6084/m9.figshare.5079763
title: Carmen Gratulatorium, Translated and Annotated

description: This is a poem written by William Cecil and presented to Queen Elizabeth. The poem itself, which is included in it's original form as well as transcribed, is in Latin. Also included, however, is my translation, as well as annotations and an introduction explaining the piece.
DOI: 10.6084/m9.figshare.5080006.v1
title: IL17A augments autophagy in <i>Mycobacterium tuberculosis</i>-infected monocytes from patients with active tuberculosis in association with the severity of the disease

description: During mycobacterial infection, macroautophagy/autophagy, a process modulated by cytokines, is essential for mounting successful host responses. Autophagy collaborates with human immune responses against <i>Mycobacterium tuberculosis (Mt)</i> in association with specific IFNG secreted against the pathogen. However, IFNG alone is not sufficient to the complete bacterial eradication, and other cytokines might be required. Actually, induction of Th1 and Th17 immune responses are required for protection against <i>Mt</i>. Accordingly, we showed that IL17A and IFNG expression in lymphocytes from tuberculosis patients correlates with disease severity. Here we investigate the role of IFNG and IL17A during autophagy in monocytes infected with <i>Mt</i> H37Rv or the mutant <i>Mt</i>ΔRD1. Patients with active disease were classified as high responder (HR) or low responder (LR) according to their T cell responses against <i>Mt</i>. IL17A augmented autophagy in infected monocytes from HR patients through a mechanism that activated MAPK1/ERK2-MAPK3/ERK1 but, during infection of monocytes from LR patients, IL17A had no effect on the autophagic response. In contrast, addition of IFNG to infected monocytes, increased autophagy by activating MAPK14/p38 α both in HR and LR patients. Interestingly, proteins codified in the RD1 region did not interfere with IFNG and IL17A autophagy induction. Therefore, in severe tuberculosis patients' monocytes, IL17A was unable to augment autophagy because of a defect in the MAPK1/3 signaling pathway. In contrast, both IFNG and IL17A increased autophagy levels in patients with strong immunity to <i>Mt</i>, promoting mycobacterial killing. Our findings might contribute to recognize new targets for the development of novel therapeutic tools to fight the pathogen.
DOI: 10.6084/m9.figshare.5077843
title: Additional files for: Genome size in North American fireflies: Substantial variation likely driven by neutral processes

description: Three supplementary data files for: <br>Sarah Sander Lower, J. Spencer Johnston, Kathrin Stanger-Hall, Carl E. Hjelmen, Shawn J. Hanrahan, Katharine Korunes, David Hall; Genome size in North American fireflies: Substantial variation likely driven by neutral processes. Genome Biol Evol 2017 evx097. doi: 10.1093/gbe/evx097 <br>Contents: <br>1) Phylogeny used in PGLS analysis (newick format) <br>2) Traits used in PGLS analysis (excel spreadsheet, key to column names on 2nd sheet) <br>3) RepeatExplorer output for (a) entire dataset and (b) uniform 0.01x subsampled dataset (.zip file)
DOI: 10.6084/m9.figshare.5079763.v1
title: Carmen Gratulatorium, Translated and Annotated

description: This is a poem written by William Cecil and presented to Queen Elizabeth. The poem itself, which is included in it's original form as well as transcribed, is in Latin. Also included, however, is my translation, as well as annotations and an introduction explaining the piece.
DOI: 10.6084/m9.figshare.5077822
title: Sagebrush herbivory data and analysis

description: This dataset includes 4 cvs files, and an R script<br>2014.ALL.DAMAGE.DATA.csv - 2014 sagebrush herbivory data<br>Day.Night.Induction.2013.csv - 2013 sagebrush herbivory data<br>Sagebrush.Damage.Data.2012.csv - 2012 sagebrush herbivory data<br>sagehen_temp.csv - temperature data for all years<br>SagebrushDamageAllYears.R - analysis and data summary<br>This script was used to perform analyses for:<br>McMunn 2017, Ecology, The timing of leaf damage affects future herbivory in mountain sagebrush (Artemisia tridentata)<br>It was written by Marshall McMunn, mmcmunn@gmail.com<br>It has no warranty, and can be used freely or altered by anyone
DOI: 10.6084/m9.figshare.5077822.v1
title: Sagebrush herbivory data and analysis

description: This dataset includes 4 cvs files, and an R script<br>2014.ALL.DAMAGE.DATA.csv - 2014 sagebrush herbivory data<br>Day.Night.Induction.2013.csv - 2013 sagebrush herbivory data<br>Sagebrush.Damage.Data.2012.csv - 2012 sagebrush herbivory data<br>sagehen_temp.csv - temperature data for all years<br>SagebrushDamageAllYears.R - analysis and data summary<br>This script was used to perform analyses for:<br>McMunn 2017, Ecology, The timing of leaf damage affects future herbivory in mountain sagebrush (Artemisia tridentata)<br>It was written by Marshall McMunn, mmcmunn@gmail.com<br>It has no warranty, and can be used freely or altered by anyone
DOI: 10.6084/m9.figshare.5077663
title: Analysis code for poster on triacylglycerol DNL on components of the Metabolic Syndrome in PROMISE

description: Analysis code for a poster for the American Diabetes Association Scientific Sessions in 2017
DOI: 10.6084/m9.figshare.5077624
title: UA

description: This folder included the data and processing code for manuscript "Multispectral imaging and unmanned aerial systems for cotton plant phenotyping"<br>Each subfolder was orgnized as follows:crop.m -- matlab script to read uav images and seperate into plotsdem.tif -- digital elevetion model of the field generated by the PhotoScangct_crop.mat -- matlab varible scores the position of the GCT in the ortho-mosaic/demgct_height.txt -- maunal measurement of the GCTgeo.tif -- ortho-mosaic of the field generated by the PhotoScanheight.txt -- manual measurement of the plant height for each plot<br><br>The processing code is UAVHeight.m. This code was tested in Matlab R2016a<br>
DOI: 10.6084/m9.figshare.5077663.v1
title: Analysis code for poster on triacylglycerol DNL on components of the Metabolic Syndrome in PROMISE

description: Analysis code for a poster for the American Diabetes Association Scientific Sessions in 2017
DOI: 10.6084/m9.figshare.5077597
title: How far did the Cadomian ʽterranesʼ travel from Gondwana during early Palaeozoic? A critical reappraisal based on detrital zircon geochronology

description: In this paper, laser ablation ICP-MS U–Pb detrital zircon ages are used to discuss provenance and early Palaeozoic palaeogeography of continental fragments that originated in the Cadomian–Avalonian active margin of Gondwana at the end of Precambrian, were subsequently extended during late Cambrian to Early Ordovician opening of the Rheic Ocean, and finally were incorporated into and reworked within the European Variscan belt. The U–Pb detrital zircon age spectra in the analysed samples, taken across a late Neproterozoic (Ediacaran) to Early/Middle Devonian metasedimentary succession of the southeastern Teplá–Barrandian unit, Bohemian Massif, are almost identical and exhibit a bimodal age distribution with significant peaks at about 2.1–1.9 Ga and 650–550 Ma. We interpret the source area as an active margin comprising a cratonic (Eburnean) hinterland rimmed by Cadomian volcanic arcs and we suggest that this source was available at all times during deposition. The new detrital zircon ages also corroborate the West African provenance of the Teplá–Barrandian and correlative Saxothuringian and Moldanubian units, questioned in some palaeogeographic reconstructions. Finally, at variance with the still popular concept of the Cadomian basement units as far-travelled terranes, we propose that early Palaeozoic basins, developed upon the Cadomian active margin, were always part of a wide Gondwana shelf and drifted northwards together before involvement in the Variscan collisional belt.
DOI: 10.6084/m9.figshare.5077624.v1
title: UAVmultispectral.zip

description: Folder 0918, 0930, 1007, 1016, 1019, 1023, 1030 stored the ortho-mosaic and DEM.The folder name indicates the data collection dateEach folder contains - crop.m : matlab code to separate each plot. - dem.tif : DEM - grf_crop.mat : cropped DEM and ortho-mosaic for GRF height calculation - grf_height.txt : manual measurement of the GRF height. - height.txt : manual measurement of the plant height (in cm) in each plot. The first collumn is the plot number. 0 means no plant there. - msi.mat : ortho-mosaic of the multispectral images stored in matlab data file calculate_traits.m : matlab code to caculate maximum height, canopy cover and ndvi from ortho-mosaic and DEMget_gcp_height.m : matlab code to caculate GRF height.
DOI: 10.6084/m9.figshare.5074459
title: Lobbying Data

description: Stata dataset of 2,118 Lobbying Disclosure Act reports from 574 organizations active on the 2014 Farm Bill. Data originally collected and coded by the Center for Responsive Politics. Includes name of organization, dollar amount of reported expenses, number of lobbyists, lobbyists with previous government experiences (revolving door), description of issue, sector and industry of organization, and topic codes (created by author).<br>The Excel file includes lobbying scores for each organization in the data set (n=574). Scores are based on a Principal Components Analysis of resources devoted to lobbying. There are separate worksheets for the overall ranking and by topic.<br><br>The associated Stata do-file includes commands to replicate the ranking of organizations (overall and by topic).
DOI: 10.6084/m9.figshare.5077525
title: Data from "Simulated climate change affects how biocrusts modulate water gains and desiccation dynamics after rainfall events" Ecohydrology, doi: 10.1002/eco.1935

description: Data from the article: Lafuente, A., M. Berdugo, M. Ladrón de Guevara, B. Gozalo and F. T. Maestre. 2017. Simulated climate change affects how biocrusts modulate water gains and desiccation dynamics after rainfall events. Ecohydrology. 2018. e 1935 https://doi.org/10.1002/eco.1935<br>There are five spreadsheets with data. The spreadsheets "Wetting Events" and "Drying Events" contain all the information about the drying and wetting events analysed in the article, respectively. The "Precipitation" spreadsheet contains raw precipitation data during the study period. The "Soil Moisture" spreadsheet contains the raw soil moisture data. The "BSC cover" spreadsheet contains the biocrust cover data. After each data spreadsheet there is a spreadsheet with the associated metadata, where a description of all the variables and units can be found.<br>
DOI: 10.6084/m9.figshare.5074465
title: Decision model for an early economic evaluation of testing for treatment guidance in COPD exacerbations.

description: An early decision model developed to evaluate the potential cost-effectiveness of a test. The test aims to stratify patients to the most appropriate treatment for a COPD exacerbation managed in the primary care setting in the English NHS. <br>
DOI: 10.6084/m9.figshare.5074465.v1
title: Decision model for an early economic evaluation of testing for treatment guidance in COPD exacerbations.

description: An early decision model developed to evaluate the potential cost-effectiveness of a test. The test aims to stratify patients to the most appropriate treatment for a COPD exacerbation managed in the primary care setting in the English NHS. <br>
DOI: 10.6084/m9.figshare.5074459.v1
title: Lobbying Data

description: Stata dataset of 2,118 Lobbying Disclosure Act reports from 574 organizations active on the 2014 Farm Bill. Data originally collected and coded by the Center for Responsive Politics. Includes name of organization, dollar amount of reported expenses, number of lobbyists, lobbyists with previous government experiences (revolving door), description of issue, sector and industry of organization, and topic codes (created by author).
DOI: 10.6084/m9.figshare.5077525.v2
title: Data from "Simulated climate change affects how biocrusts modulate water gains and desiccation dynamics after rainfall events" Ecohydrology, doi: 10.1002/eco.1935

description: Data from the article: Lafuente, A., M. Berdugo, M. Ladrón de Guevara, B. Gozalo and F. T. Maestre. 2017. Simulated climate change affects how biocrusts modulate water gains and desiccation dynamics after rainfall events. Ecohydrology. 2018. e 1935 https://doi.org/10.1002/eco.1935<br>There are five spreadsheets with data. The spreadsheets "Wetting Events" and "Drying Events" contain all the information about the drying and wetting events analysed in the article, respectively. The "Precipitation" spreadsheet contains raw precipitation data during the study period. The "Soil Moisture" spreadsheet contains the raw soil moisture data. The "BSC cover" spreadsheet contains the biocrust cover data. After each data spreadsheet there is a spreadsheet with the associated metadata, where a description of all the variables and units can be found.<br>
DOI: 10.6084/m9.figshare.5077525.v1
title: Data from "Simulated Climate Change Affects How Biocrusts Modulate Infiltration And Desiccation Dynamics"

description: Data from the article: Lafuente, A., M. Berdugo, M. Ladrón de Guevara, B. Gozalo and F. T. Maestre. 2017. Simulated climate change affects how biocrusts modulate infiltration and desiccation dynamics. bioRxiv. https://doi.org/10.1101/145318<br>There are five spreadsheets with data. The spreadsheets "Wetting Events" and "Drying Events" contain all the information about the drying and wetting events analysed in the article, respectively. The "Precipitation" spreadsheet contains raw precipitation data during the study period. The "Soil Moisture" spreadsheet contains the raw soil moisture data. The "BSC cover" spreadsheet contains the biocrust cover data. After each data spreadsheet there is a spreadsheet with the associated metadata, where a description of all the variables and units can be found.<br>
DOI: 10.6084/m9.figshare.5074339
title: Dataset for: Regional Septal Hinge-Point Injury Contributes to Adverse Biventricular Interactions in Pulmonary Hypertension

description: Background: Death and morbidity in pulmonary arterial hypertension (PAH) are often due to right ventricular (RV) failure and associated left ventricular (LV) dysfunction. We investigated regional myocardial remodeling and function as the basis for adverse ventricular-ventricular interactions in experimental chronic RV pressure overload. Methods and Results: Two distinct animal models were studied: A) A rabbit model of increased RV pressure-load through progressive pulmonary artery banding B) A rat model of monocrotaline (MCT)-induced pulmonary arterial hypertension (PAH). Regional myocardial function was assessed by speckle-tracking strain echocardiography and ventricular pressures measured by catheterization before termination. Regional RV and LV myocardium was analyzed for collagen content, apoptosis and pro-fibrotic signaling gene and protein expression. Although the RV developed more fibrosis than the LV; in both models the LV was substantially affected. In both ventricles, particularly the LV, fibrosis developed predominantly at the septal hinge-point regions in association with decreased regional and global circumferential strain, reduced global RV and LV function and up-regulation of regional transforming growth factor-β1 (TGFβ1) and apoptosis signaling. A group of PAH rats who received the TGFβ blocker SB431542 showed improved RV function and reduced regional hinge-point myocardial fibrosis. Conclusion: RV pressure-loading and PAH lead to biventricular TGFβ1 signaling, fibrosis and apoptosis, predominantly at the septal hinge-point regions, in association with regional myocardial dysfunction. This suggests that altered geometry and wall stress lead to adverse RV-LV interactions through the septal hinge-points to induce LV fibrosis and dysfunction.
DOI: 10.6084/m9.figshare.5074339.v1
title: Dataset for: Regional Septal Hinge-Point Injury Contributes to Adverse Biventricular Interactions in Pulmonary Hypertension

description: Background: Death and morbidity in pulmonary arterial hypertension (PAH) are often due to right ventricular (RV) failure and associated left ventricular (LV) dysfunction. We investigated regional myocardial remodeling and function as the basis for adverse ventricular-ventricular interactions in experimental chronic RV pressure overload. Methods and Results: Two distinct animal models were studied: A) A rabbit model of increased RV pressure-load through progressive pulmonary artery banding B) A rat model of monocrotaline (MCT)-induced pulmonary arterial hypertension (PAH). Regional myocardial function was assessed by speckle-tracking strain echocardiography and ventricular pressures measured by catheterization before termination. Regional RV and LV myocardium was analyzed for collagen content, apoptosis and pro-fibrotic signaling gene and protein expression. Although the RV developed more fibrosis than the LV; in both models the LV was substantially affected. In both ventricles, particularly the LV, fibrosis developed predominantly at the septal hinge-point regions in association with decreased regional and global circumferential strain, reduced global RV and LV function and up-regulation of regional transforming growth factor-β1 (TGFβ1) and apoptosis signaling. A group of PAH rats who received the TGFβ blocker SB431542 showed improved RV function and reduced regional hinge-point myocardial fibrosis. Conclusion: RV pressure-loading and PAH lead to biventricular TGFβ1 signaling, fibrosis and apoptosis, predominantly at the septal hinge-point regions, in association with regional myocardial dysfunction. This suggests that altered geometry and wall stress lead to adverse RV-LV interactions through the septal hinge-points to induce LV fibrosis and dysfunction.
DOI: 10.6084/m9.figshare.5074267
title: Lack of ovarian skew in an allodapine bee and the evolution of casteless social behaviour

description: Facultatively social species exhibit varying degrees of reproductive skew that provide valuable insights into the possible evolutionary forces shaping the origins of obligate eusocial colony organisation, wherein the majority of individuals (workers) forgo direct reproduction. Here we report aspects of the nesting biology of a semi-arid population of the allodapine bee <i>Exoneurella setosa</i>, which forms social colonies that lack reproductive hierarchies and are therefore ‘casteless’; an intriguing discovery given that a congeneric eusocial species exhibits the greatest morphological distinction between queen and worker castes in the entire subfamily Xylocopinae (Apidae). <i>Exoneurella setosa</i> exhibited a modal colony size of two females per nest and we analysed nest-mate differentiation in ovarian development, body size and wing wear (a proxy for foraging activity). We then contrasted empirical results with Monte Carlo-simulated colonies to ascertain that multifemale nests lack evidence for reproductive skew. Our results suggest that nest-site limitation is a key driver for eusocial organisation within the Xylocopinae and that the absence of such environmental limitations, combined with minor benefits for group nesting, can select for casteless social organisation.