cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.16800052
title: Cucurbita_ficifolia_S0_L000_R1_001.fastq.gz

description: The complete chloroplast genome sequence of Cucurbita ficifolia
DOI: 10.6084/m9.figshare.16782700.v5
title: Forb-pollinator connections in Tan Phu ward, District 7, Ho Chi Minh city, Vietnam.

description: This data is part of a field experiment done in BIOL 3250 (Experimental Design) - a course of York University, Canada. Read attached metadata for more information regarding methodology.
DOI: 10.6084/m9.figshare.7856765
title: Oxidative potential of particulate matter in spring 2016 in Fukuoka, Japan

description: This is data of the oxidative potential and the concentrations of chemical components of size-segregated particulate matter (fine and coarse particles) in Fukuoka, Japan, which is presented by Nishita-Hara et al. (2019).
DOI: 10.6084/m9.figshare.7856765.v1
title: Oxidative potential of particulate matter in spring 2016 in Fukuoka, Japan

description: This is data of the oxidative potential and the concentrations of chemical components of size-segregated particulate matter (fine and coarse particles) in Fukuoka, Japan, which is presented by Nishita-Hara et al. (2019).
DOI: 10.6084/m9.figshare.16637008.v23
title: hCoV-19 / North America / USA / Florida

description: COVID-19 DELTA MUTATION North America / USA / Florida<br>Variant Submissions - Mu GH (B.1.621 + B.1.621.1) North America / USA / FloridaFor Dates:20SEP2021 21SEP202122SEP2021<br>23SEP2021 A.M. & P.M06OCT202108OCT2021<br>Variant Submissions - Delta GK/478K.V1 (B.1.617.2+AY.x) North America / USA / FloridaFor Dates:23SEP2021 - 28SEP202129SEP2021 - 01OCT2021 02OCT2021 - 05OCT202106OCT2021 - 07OCT2021REFERENCE: GISAID. I would like to Gratefully acknowledge all data contributors, i.e. the Authors, the Originating laboratories responsible for obtaining the specimens, and the Submitting laboratories for generating the genetic sequence and metadata and sharing via the GISAID Initiative, on which this research is based.<br>
DOI: 10.5281/zenodo.5514950
title: ChinaCroplandSM1km: 1km-gridded daily Soil Moisture for Crop drylands across China

description: ChinaCroplandSM1km provides 1km-gridded daily Soil Moisture for Crop drylands across China over 1993–2010, which contains four daily datasets separately by crop type and soil depth (crop-type <sub>soil-depth</sub>). This dataset is wheat<sub>10-20.</sub> *** The data file is in “.tif" format *** Spatial extent: wheat drylands across China *** Soil depth: 10-20cm *** Temporal Resolution: Daily *** Pixel size: 1000 m *** Projection information: GCS_WGS_1984 *** Filename convention: Year_DOY.tif *** Year: Values from 1993 to 2010
DOI: 10.5281/zenodo.5514952
title: ChinaCroplandSM1km: 1km-gridded daily Soil Moisture for Crop drylands across China

description: ChinaCroplandSM1km provides 1km-gridded daily Soil Moisture for Crop drylands across China over 1993–2010, which contains four daily datasets separately by crop type and soil depth (crop-type <sub>soil-depth</sub>). This dataset is maize<sub>10-20.</sub> *** The data file is in “.tif" format *** Spatial extent: maize drylands across China *** Soil depth: 10-20cm *** Temporal Resolution: Daily *** Pixel size: 1000 m *** Projection information: GCS_WGS_1984 *** Filename convention: Year_DOY.tif *** Year: Values from 1993 to 2010
DOI: 10.5281/zenodo.3245788
title: Yerrida Basin 3D 'Noddy' geological and forward models

description: This dataset contains an archive for kinematic 3D geological models of the Yerrida Basin, southern Capricorn region, Western Australia. These models were used to investigate the influence of adding high density material (the mafic Killara Formation) on the calculated gravitational response. <strong><em>Yerrida_Basin_3D_Noddy.zip </em></strong>is a set of three dimensional 'Noddy' geological models. 1. <strong>Yerrida_gravity_response_noKillara.his </strong>A model with no Killara Formation. 2. <strong>Yerrida_gravity_response-500mKillara.his</strong> A model with 500 m thick Killara Formation. 3. <strong>Yerrida_gravity_response-2000mKillara.his</strong> A model with 2000 m thick Killara Formation. Corresponding gravity responses (*.grv) files are supplied. A Noddy executable installation file in Windows format is supplied in this archive or can be downloaded from http://tectonique.net/noddy/ This is a companion dataset for the paper submitted to the scientific journal Solid Earth: Mapping undercover: integrated geoscientific interpretation and 3D modelling of a Proterozoic basin.<em> </em>Mark D Lindsay, Sandra Occhipinti, Crystal LaFlamme, Alan Aitken, Lara Ramos.
description: The Geological Survey of Western Australia, Minerals Research Institute of Western Australia and the Australian Research Council (DE190100431) are thanked for their support. Funding for this work was also provided by the Western Australian Government Exploration Incentive Scheme grant awarded to UWA by the Geological Survey of Western Australia and the 'Distal Footprints of Giant Ore Systems - UNCOVER Australia', CSIRO Science & Industry Endowment Fund (SIEF).
DOI: 10.5281/zenodo.3245787
title: Yerrida Basin 3D 'Noddy' geological and forward models

description: This dataset contains an archive for kinematic 3D geological models of the Yerrida Basin, southern Capricorn region, Western Australia. These models were used to investigate the influence of adding high density material (the mafic Killara Formation) on the calculated gravitational response. <strong><em>Yerrida_Basin_3D_Noddy.zip </em></strong>is a set of three dimensional 'Noddy' geological models. 1. <strong>Yerrida_gravity_response_noKillara.his </strong>A model with no Killara Formation. 2. <strong>Yerrida_gravity_response-500mKillara.his</strong> A model with 500 m thick Killara Formation. 3. <strong>Yerrida_gravity_response-2000mKillara.his</strong> A model with 2000 m thick Killara Formation. Corresponding gravity responses (*.grv) files are supplied. A Noddy executable installation file in Windows format is supplied in this archive or can be downloaded from http://tectonique.net/noddy/ This is a companion dataset for the paper submitted to the scientific journal Solid Earth: Mapping undercover: integrated geoscientific interpretation and 3D modelling of a Proterozoic basin.<em> </em>Mark D Lindsay, Sandra Occhipinti, Crystal LaFlamme, Alan Aitken, Lara Ramos.
description: The Geological Survey of Western Australia, Minerals Research Institute of Western Australia and the Australian Research Council (DE190100431) are thanked for their support. Funding for this work was also provided by the Western Australian Government Exploration Incentive Scheme grant awarded to UWA by the Geological Survey of Western Australia and the 'Distal Footprints of Giant Ore Systems - UNCOVER Australia', CSIRO Science & Industry Endowment Fund (SIEF).
DOI: 10.5281/zenodo.3245772
title: Yerrida Basin 3D geological model and gravity inversion results

description: This dataset contains an archive for an implicit 3D geological model of the Yerrida Basin, southern Capricorn region, Western Australia. <strong><em>Yerrida_Basin_3D.zip </em></strong>is a GeoModeller three dimensional geological model. Also included are 2D and 3D voxets resulting from inversion of gravity data using the geological model as a constraint. Geomodeller software is available from here: https://www.intrepid-geophysics.com/ig/index.php?page=downloads This is a companion dataset for the paper submitted to the scientific journal Solid Earth: Mapping undercover: integrated geoscientific interpretation and 3D modelling of a Proterozoic basin.<em> </em>Mark D Lindsay, Sandra Occhipinti, Crystal LaFlamme, Alan Aitken, Lara Ramos.
description: The Geological Survey of Western Australia, Minerals Research Institute of Western Australia and the Australian Research Council (DE190100431) are thanked for their support. Funding for this work was also provided by the Western Australian Government Exploration Incentive Scheme grant awarded to UWA by the Geological Survey of Western Australia and the 'Distal Footprints of Giant Ore Systems - UNCOVER Australia', CSIRO Science & Industry Endowment Fund (SIEF).
DOI: 10.5281/zenodo.3245771
title: Yerrida Basin 3D geological model and gravity inversion results

description: This dataset contains an archive for an implicit 3D geological model of the Yerrida Basin, southern Capricorn region, Western Australia. <strong><em>Yerrida_Basin_3D.zip </em></strong>is a GeoModeller three dimensional geological model. Also included are 2D and 3D voxets resulting from inversion of gravity data using the geological model as a constraint. Geomodeller software is available from here: https://www.intrepid-geophysics.com/ig/index.php?page=downloads This is a companion dataset for the paper submitted to the scientific journal Solid Earth: Mapping undercover: integrated geoscientific interpretation and 3D modelling of a Proterozoic basin.<em> </em>Mark D Lindsay, Sandra Occhipinti, Crystal LaFlamme, Alan Aitken, Lara Ramos.
description: The Geological Survey of Western Australia, Minerals Research Institute of Western Australia and the Australian Research Council (DE190100431) are thanked for their support. Funding for this work was also provided by the Western Australian Government Exploration Incentive Scheme grant awarded to UWA by the Geological Survey of Western Australia and the 'Distal Footprints of Giant Ore Systems - UNCOVER Australia', CSIRO Science & Industry Endowment Fund (SIEF).
DOI: 10.5517/ccdc.csd.cc25jkz8
title: CCDC 2011930: Experimental Crystal Structure Determination

description: Related Article: Cheng Zeng, Yujian Liu, Ning Xue, Wei Jiang, Shouke Yan, Zhaohui Wang|2021|Angew.Chem.,Int.Ed.|60|19018|doi:10.1002/anie.202105044
DOI: 10.5517/ccdc.csd.cc25jl0b
title: CCDC 2011931: Experimental Crystal Structure Determination

description: Related Article: Cheng Zeng, Yujian Liu, Ning Xue, Wei Jiang, Shouke Yan, Zhaohui Wang|2021|Angew.Chem.,Int.Ed.|60|19018|doi:10.1002/anie.202105044
DOI: 10.5517/ccdc.csd.cc27jg7h
title: CCDC 2071396: Experimental Crystal Structure Determination

description: Related Article: Veronika Heinl, Monika Schmidt, Maria Eckhardt, Miriam Eberl, Andreas E. Seitz, Gábor Balázs, Michael Seidl, Manfred Scheer|2021|Chem.-Eur.J.|27|11649|doi:10.1002/chem.202101119
DOI: 10.5517/ccdc.csd.cc27jhbm
title: CCDC 2071430: Experimental Crystal Structure Determination

description: Related Article: Veronika Heinl, Monika Schmidt, Maria Eckhardt, Miriam Eberl, Andreas E. Seitz, Gábor Balázs, Michael Seidl, Manfred Scheer|2021|Chem.-Eur.J.|27|11649|doi:10.1002/chem.202101119
DOI: 10.5517/ccdc.csd.cc27jhcn
title: CCDC 2071431: Experimental Crystal Structure Determination

description: Related Article: Veronika Heinl, Monika Schmidt, Maria Eckhardt, Miriam Eberl, Andreas E. Seitz, Gábor Balázs, Michael Seidl, Manfred Scheer|2021|Chem.-Eur.J.|27|11649|doi:10.1002/chem.202101119
DOI: 10.6084/m9.figshare.16800067
title: Cucurbita_ficifolia_S0_L000_R2_001.fastq.gz

description: <b>The complete chloroplast genome sequence of <i>Cucurbita ficifolia</i> </b>
DOI: 10.6084/m9.figshare.16800067.v1
title: Cucurbita_ficifolia_S0_L000_R2_001.fastq.gz

description: <b>The complete chloroplast genome sequence of <i>Cucurbita ficifolia</i> </b>
DOI: 10.25451/flinders.16735177
title: EK Mather Thesis 2021 SI 1-7 supplementary files

description: This dataset is comprised of 7 files. The title and short description below correspond to the files attached above.<br><br><b>EK Mather Thesis 2021 SI 1 Morphological character data matrix</b><br>A data matrix of 300 morphological characters for selected fossil accipitrids, living Accipitridae, Pandionidae, Sagittariidae, Cathartidae, and two outgroup species in Ciconiiformes. Data gathered through scoring of specimens from all institutions mentioned in thesis. Can be used for reference or data in future phylogenetic analyses. Applies to Chapters 2, 3 and 4.<br><br><b>EK Mather Thesis 2021 SI 2 Archaehierax parsimony analysis file</b><br>Command line input for a PAUP parsimony analysis of the fossil species Archaehierax sylvestris compared to living Accipitriformes. Can be used as a reference or base for future phylogenetic nexus command files. Applies to Chapter 2.<br><br><b>EK Mather Thesis 2021 SI 3 Archaehierax Bayesian infile</b><br>A Nexus command file for Bayesian analysis (using Mr Bayes) of Archaehierax sylvestris compared to living Accipitriformes and selected outgroup taxa. Can be used as a reference or base for future phylogenetic nexus command files. Applies to Chapter 2. <br><br><b>EK Mather Thesis 2021 SI 4 Taphaetus lacertosus lectotype 3D image<br></b>STL model of the lectotype distal humerus of "Taphaetus"/Nov Gen lacertosus QM F5507. Can be used by researchers interested in looking at the morphology of this specimen. Please notify Queensland Museum if it is used for research and publications. Applies to Chapter 3.<br><b><br></b><b>EK Mather Thesis 2021 SI 5 Nov Gen parsimony analysis file</b>Command line input file for parsimony analyses of "Taphaetus"/Nov Gen lacertosus compared to living Accipitriformes and selected outgroup species using PAUP. Can be used as a reference or base for future phylogenetic nexus command files. Applies to Chapter 3.<br><br><b>EK Mather Thesis 2021 SI 6 Accipitrid GWC_VFC parsimony analysis file</b><br>Command input file for parsimony analyses of the accipitrid GWC/VFC taxon compared to living Accipitriformes, "Taphaetus" lacertosus, and selected outgroups using PAUP. Can be used as a reference or base for future phylogenetic nexus command files. Applies to Chapter 4.<br><br><b>EK Mather Thesis 2021 SI 7 Accipitrid GWC_VFC Bayesian infile</b><br>Command line nexus file for Bayesian analyses (using Mr Bayes) of accipitrid GWC/VFC compared to living Accipitriformes, "Taphaetus" lacertosus and selected outgroups. Can be used as a reference or base for future phylogenetic nexus command files. Applies to Chapter 4.<br>
DOI: 10.5281/zenodo.5565632
title: Extracellular vesicles from Fusarium graminearum contain protein effectors expressed during infection of corn

description: <em>Fusarium</em> <em>graminearum</em> (<em>Fgr</em>) is a devastating filamentous fungal pathogen that causes diseases in cereals, while producing mycotoxins that are toxic for humans and animals, and render grains unusable. Low efficiency in managing <em>Fgr</em> poses a constant need for identifying novel control mechanisms. Evidence that fungal extracellular vesicles (EVs) from pathogenic yeast have a role in human disease led us to question whether this is also true for fungal plant pathogens. We separated EVs from <em>Fgr</em> and performed a proteomic analysis to determine if EVs carry proteins with potential roles in pathogenesis. We revealed that protein effectors, which are crucial for fungal virulence, were detected in EV preparations and some of them did not contain predicted secretion signals. Furthermore, a transcriptomic analysis of corn (<em>Zea</em> <em>mays</em>) plants infected by <em>Fgr</em> revealed that the genes of some of the effectors were highly expressed in vivo, suggesting that the <em>Fgr</em> EVs are a mechanism for the unconventional secretion of effectors and virulence factors. Our results expand the knowledge on fungal EVs in plant pathogenesis and cross-kingdom communication, and may contribute to the discovery of new antifungals. The following are available online at www.mdpi.com/xxx/s1, Figure S1. Controls for the separation of EVs from <em>Fusarium</em> <em>graminearum</em> (<em>Fgr</em>) by SEC. Figure S2. The superoxide dismutase [Cu-Zn] (SOD1) from F. <em>graminearum</em> (<em>Fgr</em>) contains a diacidic amino acid motif implicated in unconventional secretion. Figure S3. Sequence alignment of the chitinase GH18 domain. Figure S4. Computational prediction of effector candidates detected in EV samples from <em>Fusarium</em> <em>graminearum</em> (<em>Fgr</em>). Table S1. List of proteins detected in EVs from <em>Fusarium</em> <em>graminearum</em> (<em>Fgr</em>). Table S2. List of proteins employed in the computational effector prediction analysis. Table S3. Proteins identified in the secretome from <em>Fusarium</em> <em>graminearum</em> (<em>Fgr</em>). Table S4. List of transcripts identified in corn (<em>Zea</em> <em>mays</em>) infected by <em>Fusarium</em> <em>graminearum</em> (<em>Fgr</em>). Table S5. Gene expression values per biological replicate.
DOI: 10.5281/zenodo.5565631
title: Extracellular vesicles from Fusarium graminearum contain protein effectors expressed during infection of corn

description: <em>Fusarium</em> <em>graminearum</em> (<em>Fgr</em>) is a devastating filamentous fungal pathogen that causes diseases in cereals, while producing mycotoxins that are toxic for humans and animals, and render grains unusable. Low efficiency in managing <em>Fgr</em> poses a constant need for identifying novel control mechanisms. Evidence that fungal extracellular vesicles (EVs) from pathogenic yeast have a role in human disease led us to question whether this is also true for fungal plant pathogens. We separated EVs from <em>Fgr</em> and performed a proteomic analysis to determine if EVs carry proteins with potential roles in pathogenesis. We revealed that protein effectors, which are crucial for fungal virulence, were detected in EV preparations and some of them did not contain predicted secretion signals. Furthermore, a transcriptomic analysis of corn (<em>Zea</em> <em>mays</em>) plants infected by <em>Fgr</em> revealed that the genes of some of the effectors were highly expressed in vivo, suggesting that the <em>Fgr</em> EVs are a mechanism for the unconventional secretion of effectors and virulence factors. Our results expand the knowledge on fungal EVs in plant pathogenesis and cross-kingdom communication, and may contribute to the discovery of new antifungals. The following are available online at www.mdpi.com/xxx/s1, Figure S1. Controls for the separation of EVs from <em>Fusarium</em> <em>graminearum</em> (<em>Fgr</em>) by SEC. Figure S2. The superoxide dismutase [Cu-Zn] (SOD1) from F. <em>graminearum</em> (<em>Fgr</em>) contains a diacidic amino acid motif implicated in unconventional secretion. Figure S3. Sequence alignment of the chitinase GH18 domain. Figure S4. Computational prediction of effector candidates detected in EV samples from <em>Fusarium</em> <em>graminearum</em> (<em>Fgr</em>). Table S1. List of proteins detected in EVs from <em>Fusarium</em> <em>graminearum</em> (<em>Fgr</em>). Table S2. List of proteins employed in the computational effector prediction analysis. Table S3. Proteins identified in the secretome from <em>Fusarium</em> <em>graminearum</em> (<em>Fgr</em>). Table S4. List of transcripts identified in corn (<em>Zea</em> <em>mays</em>) infected by <em>Fusarium</em> <em>graminearum</em> (<em>Fgr</em>). Table S5. Gene expression values per biological replicate.
DOI: 10.6084/m9.figshare.16800095
title: Additional file 1 of RNA-Seq reveals different responses to drought in Neotropical trees from savannas and seasonally dry forests

description: Additional file 1 Supplementary Tables with summary of sequence data analysis and results of functional annotation and enrichment analysis, acronyms and Transcription Factor Families among differentially expressed genes (DEGs), including Tables S1 to S7. Table S1 Summary of sequence data for each library before and after filtering. % loss is the percentage of reads removed after filtering; Table S2 Alignment of RNA-seq reads of each library in the reference genome of Handroanthus impetiginosus, using the software STAR. % mapping is the percentage of reads mapped to one contig of the reference genome; % multiple is the percentage of reads mapped to more than one contig; % non-alignment is the percentage of reads not aligned to the reference genome; % MAPQ &gt; = 30 is the percentage of reads with mapping alignment &gt; = 30; Table S3 Functional enrichment of GO terms for up- and down-regulated genes in Tabebuia aurea, based on the Fisher exact test with a false discord rate (FDR)
DOI: 10.6084/m9.figshare.16800095.v1
title: Additional file 1 of RNA-Seq reveals different responses to drought in Neotropical trees from savannas and seasonally dry forests

description: Additional file 1 Supplementary Tables with summary of sequence data analysis and results of functional annotation and enrichment analysis, acronyms and Transcription Factor Families among differentially expressed genes (DEGs), including Tables S1 to S7. Table S1 Summary of sequence data for each library before and after filtering. % loss is the percentage of reads removed after filtering; Table S2 Alignment of RNA-seq reads of each library in the reference genome of Handroanthus impetiginosus, using the software STAR. % mapping is the percentage of reads mapped to one contig of the reference genome; % multiple is the percentage of reads mapped to more than one contig; % non-alignment is the percentage of reads not aligned to the reference genome; % MAPQ &gt; = 30 is the percentage of reads with mapping alignment &gt; = 30; Table S3 Functional enrichment of GO terms for up- and down-regulated genes in Tabebuia aurea, based on the Fisher exact test with a false discord rate (FDR)
DOI: 10.6084/m9.figshare.16800115
title: Additional file 3 of CirPred, the first structure modeling and linker design system for circularly permuted proteins

description: Additional file 3: Data S2. The CP pair dataset.
DOI: 10.6084/m9.figshare.16800115.v1
title: Additional file 3 of CirPred, the first structure modeling and linker design system for circularly permuted proteins

description: Additional file 3: Data S2. The CP pair dataset.
DOI: 10.6084/m9.figshare.16800124
title: Additional file 6 of CirPred, the first structure modeling and linker design system for circularly permuted proteins

description: Additional file 6: Data S3. The CPDB linker dataset. A full list of termini linkers of all circular permutants from the CP pair dataset (Additional file 3).
DOI: 10.6084/m9.figshare.16800124.v1
title: Additional file 6 of CirPred, the first structure modeling and linker design system for circularly permuted proteins

description: Additional file 6: Data S3. The CPDB linker dataset. A full list of termini linkers of all circular permutants from the CP pair dataset (Additional file 3).
DOI: 10.6084/m9.figshare.16800125
title: Additional file 1 of Investigation of astrovirus, coronavirus and paramyxovirus co-infections in bats in the western Indian Ocean

description: Additional file 1. List and origin of samples, day roost sites, and result of the molecular screening.
DOI: 10.6084/m9.figshare.16800125.v1
title: Additional file 1 of Investigation of astrovirus, coronavirus and paramyxovirus co-infections in bats in the western Indian Ocean

description: Additional file 1. List and origin of samples, day roost sites, and result of the molecular screening.
DOI: 10.6084/m9.figshare.16800127
title: Additional file 7 of CirPred, the first structure modeling and linker design system for circularly permuted proteins

description: Additional file 7: Data S4. The training datasets, independent datasets, and results of the 500-round independent test for the linker design protocol of CirPred.
DOI: 10.6084/m9.figshare.16800127.v1
title: Additional file 7 of CirPred, the first structure modeling and linker design system for circularly permuted proteins

description: Additional file 7: Data S4. The training datasets, independent datasets, and results of the 500-round independent test for the linker design protocol of CirPred.
DOI: 10.6084/m9.figshare.16800128
title: Additional file 2 of Investigation of astrovirus, coronavirus and paramyxovirus co-infections in bats in the western Indian Ocean

description: Additional file 2. Number of tested and positive samples, per location, bat family, species, samples types, and collection year.
DOI: 10.6084/m9.figshare.16800128.v1
title: Additional file 2 of Investigation of astrovirus, coronavirus and paramyxovirus co-infections in bats in the western Indian Ocean

description: Additional file 2. Number of tested and positive samples, per location, bat family, species, samples types, and collection year.