cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.14222997
title: <i>In situ</i> morphometric survey elucidates the evolutionary systematics of the orchid genus <i>Gymnadenia</i> in the British Isles

description: Circumscriptions of both the genus <i>Gymnadenia</i> and the 11–27 species that it contains are highly controversial. These Eurasian terrestrial orchids are nectar-rewarding and pollinated primarily by Lepidoptera. Opinions expressed on the number of species occurring in the British Isles range from one to four, though there exists broad agreement that at least three recognizable, ecologically differentiated taxa are widespread. Here, we use a large-scale morphometric survey of these supposedly ‘cryptic’ taxa to determine whether phenotypic differentiation exists alongside their documented genotypic and ecological differentiation, seeking the most diagnostic morphological characters. Ten <i>Gymnadenia</i> plants were measured in each of 29 populations that encompassed the entire taxonomic range and geographic distribution of the genus within the British Isles. Results were subjected to detailed multivariate and univariate analyses, and interpreted in the context of molecular phylogenies, including a bespoke Europe-wide nrITS phylogeny that includes 17 plants sampled across Britain and Ireland. Floral micromorphology was investigated through scanning electron microscopy. Ecotypes occurring respectively in calcareous grasslands (<i>G. conopsea</i> s.s.), acid heaths (<i>G. borealis</i>) and calcareous to neutral marshes (<i>G. densiflora</i>) are subtly but reliably distinct, both morphologically and molecularly, though locally their morphological distinctiveness is somewhat weakened by the occurrence of infrequent populations in dune slacks and chalk downs that are intermediate in phenotype between the grassland and marsh ecotypes ('subsp. cf. <i>friesica</i>'). A polythetic taxonomic key emphasizes the characters and character-state ranges that are demonstrably the most diagnostic. Given that they are reliably genetically differentiable, and individuals can be distinguished with ∼85% confidence using morphological characters such as flower dimensions, depth of flower colour, and leaf number and size, we uphold our previous arguments that the three ecotypes merit species-level recognition. In the continued absence of field sequencing devices, identification is best attempted through quantitative examination of morphology focused at the population level, rejecting records of isolated plants. Despite their strong morphological similarity, genus-wide molecular data show that the British species are not each other's closest relatives. <i>Gymnadenia borealis</i> remains one of only three orchid species putatively endemic to the British Isles.
DOI: 10.6084/m9.figshare.14222997.v1
title: <i>In situ</i> morphometric survey elucidates the evolutionary systematics of the orchid genus <i>Gymnadenia</i> in the British Isles

description: Circumscriptions of both the genus <i>Gymnadenia</i> and the 11–27 species that it contains are highly controversial. These Eurasian terrestrial orchids are nectar-rewarding and pollinated primarily by Lepidoptera. Opinions expressed on the number of species occurring in the British Isles range from one to four, though there exists broad agreement that at least three recognizable, ecologically differentiated taxa are widespread. Here, we use a large-scale morphometric survey of these supposedly ‘cryptic’ taxa to determine whether phenotypic differentiation exists alongside their documented genotypic and ecological differentiation, seeking the most diagnostic morphological characters. Ten <i>Gymnadenia</i> plants were measured in each of 29 populations that encompassed the entire taxonomic range and geographic distribution of the genus within the British Isles. Results were subjected to detailed multivariate and univariate analyses, and interpreted in the context of molecular phylogenies, including a bespoke Europe-wide nrITS phylogeny that includes 17 plants sampled across Britain and Ireland. Floral micromorphology was investigated through scanning electron microscopy. Ecotypes occurring respectively in calcareous grasslands (<i>G. conopsea</i> s.s.), acid heaths (<i>G. borealis</i>) and calcareous to neutral marshes (<i>G. densiflora</i>) are subtly but reliably distinct, both morphologically and molecularly, though locally their morphological distinctiveness is somewhat weakened by the occurrence of infrequent populations in dune slacks and chalk downs that are intermediate in phenotype between the grassland and marsh ecotypes ('subsp. cf. <i>friesica</i>'). A polythetic taxonomic key emphasizes the characters and character-state ranges that are demonstrably the most diagnostic. Given that they are reliably genetically differentiable, and individuals can be distinguished with ∼85% confidence using morphological characters such as flower dimensions, depth of flower colour, and leaf number and size, we uphold our previous arguments that the three ecotypes merit species-level recognition. In the continued absence of field sequencing devices, identification is best attempted through quantitative examination of morphology focused at the population level, rejecting records of isolated plants. Despite their strong morphological similarity, genus-wide molecular data show that the British species are not each other's closest relatives. <i>Gymnadenia borealis</i> remains one of only three orchid species putatively endemic to the British Isles.
DOI: 10.5281/zenodo.4607842
title: Data and scripts from: The role of introductory alarm calls for song discrimination in Ficedula flycatchers

description: Data and R code from the publication: The role of introductory alarm calls for song discrimination in Ficedula flycatchers.
description: The R code and datasets can be used to reproduce the analyses and figures from the article. See the README file for more information on the datasets.
DOI: 10.5281/zenodo.4607841
title: Data and scripts from: The role of introductory alarm calls for song discrimination in Ficedula flycatchers

description: Data and R code from the publication: The role of introductory alarm calls for song discrimination in Ficedula flycatchers.
description: The R code and datasets can be used to reproduce the analyses and figures from the article. See the README file for more information on the datasets.
DOI: 10.5519/qd.zdw3voue
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (4770145 records)
DOI: 10.6084/m9.figshare.14223014
title: Dataset_IJERPH_2021

description: This was a seven-year prospective study (baseline: 2009 to 2012; follow-up: 2016 to 2019) in older women (<i>n </i>= 178, baseline age = 62.8 ± 4.1 years). Baseline and follow-up adiposity (bioelectrical impedance) and baseline physical activity, sedentary behavior (accelerometers), and intrapersonal and built environment (Neighborhood Environment Walkability Scale questionnaire) variables were included.
DOI: 10.25398/rd.northumbria.12292796
title: Twitter Data for Analysing User Engagement Behaviours

description: These files include relevant tweet IDs and user IDs analysed as part of research into analysing social media users' engagement behaviours.<br>Only tweet and user IDs are released, in accordance with Twitter's terms and conditions. These IDs can then be used with the Twitter API in order to retrieve fully 'hydrated' data objects for each tweet or user.<br>In accordance with Twitter's terms and conditions these IDs are provided for non-commercial, research purposes only.
DOI: 10.25398/rd.northumbria.12292796.v1
title: Twitter Data for Analysing User Engagement Behaviours

description: These files include relevant tweet IDs and user IDs analysed as part of research into analysing social media users' engagement behaviours.<br>Only tweet and user IDs are released, in accordance with Twitter's terms and conditions. These IDs can then be used with the Twitter API in order to retrieve fully 'hydrated' data objects for each tweet or user.<br>In accordance with Twitter's terms and conditions these IDs are provided for non-commercial, research purposes only.
DOI: 10.6084/m9.figshare.14222924.v1
title: 19502427.fastq.gz

description: WGS of canine stool microbiome
DOI: 10.6084/m9.figshare.14222924
title: 19502427.fastq.gz

description: WGS of canine stool microbiome
DOI: 10.14278/rodare.884
title: SPX Benchmark Part I: Results of Static neutronics -- HZDR results

description: DYN3D and Serpent calculations (inputs and results) of the SPX Benchmark Part I: Results of Static neutronics.
DOI: 10.14278/rodare.883
title: SPX Benchmark Part I: Results of Static neutronics -- HZDR results

description: DYN3D and Serpent calculations (inputs and results) of the SPX Benchmark Part I: Results of Static neutronics.
DOI: 10.15468/jq4y7e
title: Description of Dysdera zonsteini n. sp. (Arachnida: Araneae: Dysderidae) from Turkmenistan

description: This dataset contains the digitized treatments in Plazi based on the original journal article Dimitrov, Dragomir (2021): Description of Dysdera zonsteini n. sp. (Arachnida: Araneae: Dysderidae) from Turkmenistan. Zootaxa 4938 (5): 588-594, DOI: https://doi.org/10.11646/zootaxa.4938.5.6
DOI: 10.6084/m9.figshare.13344227
title: Phylogenomic dataset files for: Gregarine single-cell transcriptomics reveals differential mitochondrial remodeling and adaptation in apicomplexans

description: Datasets for phylogenomic analyses. The directory for each gene includes the all candidate sequences (including paralogs) that were initially considered, and the final dataset for each gene that was utilized in phylogenomic analyses.
DOI: 10.5281/zenodo.4607389
title: Muro de la Cartuja Vall de Cristo, Altura, Castellón, Comunitat Valenciana, España, Europa │Proyecto geomático

description: Proyecto geomático realizado por <strong>AD&D 4D</strong> para la Diputación de Castellón. <br> Sistema de referencia geodésico: <strong>ETRS-89. </strong>Proyección <strong>UTM-30 N </strong>(<strong>EPSG::25830</strong>) . Altitudes<br> Ortométricas referidas al nivel medio del mar de Alicante. Modelo de Geoide<br> <strong>EGM08</strong> con sobrecorreción de nivelación. Intrasdós Nube de puntos densa (Cloud Point) GeoRef 22 Millones de puntos 2019-06-05AlturaCartujaVCMuroIntrasdos22M.7z Trasdós Nube de puntos densa (Cloud Point) GeoRef 27 Millones de puntos 2019-06-05AlturaCartujaVCMuroTrasdos27M.7z Intrasdós OrtofotoMapa GeoTiff 1 mm / Pix 2019-06-05AltCsCartujaVIntrasdósOrto1mm.7z Intrasdós OrtofotoMapa GeoTiff 5 mm / Pix 2019-06-05AltCsCartujaVIntrasdósOrto5mm.7z Trasdos OrtofotoMapa GeoTiff 1 mm / Pix 2019-06-05AltCsCartujaVTrasdósOrto1mm.7z Trasdos OrtofotoMapa GeoTiff 5 mm / Pix 2019-06-05AltCsCartujaVTrasdósOrto5mm.7z
DOI: 10.5281/zenodo.4607388
title: Muro de la Cartuja Vall de Cristo, Altura, Castellón, Comunitat Valenciana, España, Europa │Proyecto geomático

description: Proyecto geomático realizado por <strong>AD&D 4D</strong> para la Diputación de Castellón. <br> Sistema de referencia geodésico: <strong>ETRS-89. </strong>Proyección <strong>UTM-30 N </strong>(<strong>EPSG::25830</strong>) . Altitudes<br> Ortométricas referidas al nivel medio del mar de Alicante. Modelo de Geoide<br> <strong>EGM08</strong> con sobrecorreción de nivelación. Intrasdós Nube de puntos densa (Cloud Point) GeoRef 22 Millones de puntos 2019-06-05AlturaCartujaVCMuroIntrasdos22M.7z Trasdós Nube de puntos densa (Cloud Point) GeoRef 27 Millones de puntos 2019-06-05AlturaCartujaVCMuroTrasdos27M.7z Intrasdós OrtofotoMapa GeoTiff 1 mm / Pix 2019-06-05AltCsCartujaVIntrasdósOrto1mm.7z Intrasdós OrtofotoMapa GeoTiff 5 mm / Pix 2019-06-05AltCsCartujaVIntrasdósOrto5mm.7z Trasdos OrtofotoMapa GeoTiff 1 mm / Pix 2019-06-05AltCsCartujaVTrasdósOrto1mm.7z Trasdos OrtofotoMapa GeoTiff 5 mm / Pix 2019-06-05AltCsCartujaVTrasdósOrto5mm.7z
DOI: 10.21227/524x-qy05
title: Forecast for January 18

description: Forecast for January 18.
DOI: 10.15468/5cuz2b
title: Cyana fossi, a new species from Vietnam (Lepidoptera: Erebidae: Arctiinae Lithosiini)

description: This dataset contains the digitized treatments in Plazi based on the original journal article Volynkin, Anton V., Ivanova, Maria S. (2021): Cyana fossi, a new species from Vietnam (Lepidoptera: Erebidae: Arctiinae Lithosiini). Zootaxa 4938 (5): 595-600, DOI: https://doi.org/10.11646/zootaxa.4938.5.7
DOI: 10.6084/m9.figshare.14223057.v1
title: Phylogeny, evolution and ecological speciation analyses of <i>Imperata</i> (Poaceae: Andropogoneae) in the Neotropics

description: <i>Imperata</i> is a ubiquitous grass genus of the tribe Andropogoneae (Poaceae), distributed throughout the world. Previous systematic studies had established that the genus encompasses nine species although no phylogenetic molecular studies are available in which all the taxa have been included. The American continent has the largest number of species, encouraging research into how these taxa have evolved. Here we present a phylogenetic analysis based on three plastids (<i>ndhF</i>, <i>trnL-F,</i> and <i>atpB-rbcL</i>) and one nuclear (ITS) marker that cover the most extensive geographic distribution of the genus. We use this phylogeny to test the monophyly of <i>Imperata</i> within tribe Andropogoneae, analyze the infrageneric relationships of the genus, and estimate lineage divergence time. Additionally, ecological niche models (ENM) of the American lineages are presented to recognize the abiotic factors that constraint their potential geographic distribution and allow an understanding of the ecological drivers for species diversification. Our results yield a fully supported tree where monophyly is confirmed for the genus and exposes the existence of two clades, one encompassing five American lineages and the other encompassing those of the rest of the world. In parallel, molecular dating, ENM, and ecological speciation tests suggest that American lineages underwent speciation during the Quaternary associated with conservatism and niche divergence. Our results contribute to both the taxonomic and to the evolutionary knowledge of grasses, and also to the understanding of the biological diversity in the Neotropics.
DOI: 10.6084/m9.figshare.14223057
title: Phylogeny, evolution and ecological speciation analyses of <i>Imperata</i> (Poaceae: Andropogoneae) in the Neotropics

description: <i>Imperata</i> is a ubiquitous grass genus of the tribe Andropogoneae (Poaceae), distributed throughout the world. Previous systematic studies had established that the genus encompasses nine species although no phylogenetic molecular studies are available in which all the taxa have been included. The American continent has the largest number of species, encouraging research into how these taxa have evolved. Here we present a phylogenetic analysis based on three plastids (<i>ndhF</i>, <i>trnL-F,</i> and <i>atpB-rbcL</i>) and one nuclear (ITS) marker that cover the most extensive geographic distribution of the genus. We use this phylogeny to test the monophyly of <i>Imperata</i> within tribe Andropogoneae, analyze the infrageneric relationships of the genus, and estimate lineage divergence time. Additionally, ecological niche models (ENM) of the American lineages are presented to recognize the abiotic factors that constraint their potential geographic distribution and allow an understanding of the ecological drivers for species diversification. Our results yield a fully supported tree where monophyly is confirmed for the genus and exposes the existence of two clades, one encompassing five American lineages and the other encompassing those of the rest of the world. In parallel, molecular dating, ENM, and ecological speciation tests suggest that American lineages underwent speciation during the Quaternary associated with conservatism and niche divergence. Our results contribute to both the taxonomic and to the evolutionary knowledge of grasses, and also to the understanding of the biological diversity in the Neotropics.
DOI: 10.6084/m9.figshare.13344884
title: Protein assemblies used in: Gregarine single-cell transcriptomics reveals differential mitochondrial remodeling and adaptation in apicomplexans

description: All protein assemblies, in fasta format, used in this study for phylogenomics and/or mitochondrial metabolism analyses. Fasta headers include the original naming scheme and our abbreviated version as: "&gt;TaxonA__0@OriginalHeader"; "&gt;TaxonA__1@OriginalHeader"; etc.
DOI: 10.6084/m9.figshare.14223056
title: Tree_IQTree

description: IQTree
DOI: 10.6084/m9.figshare.14223056.v1
title: Tree_IQTree

description: IQTree
DOI: 10.6084/m9.figshare.13928252
title: Mitochondrial gene dataset files for: Gregarine single-cell transcriptomics reveals differential mitochondrial remodeling and adaptation in apicomplexans

description: Datasets and trees for inferring mitochondrial metabolism. The directory for each gene includes the initial dataset of all potential sequences considered, and the final dataset and aligned dataset used for tree reconstruction, the tree used to infer presence of the gene in each taxon, a colored version of the tree where apicomplexan homologs are highlighted, a fasta file containing all inferred apicomplexan homologs, and the results from subcellular localization analyses completed in TargetP and DeepLoc.
DOI: 10.6084/m9.figshare.13927292
title: Phylogenomic log files for: Gregarine single-cell transcriptomics reveals differential mitochondrial remodeling and adaptation in apicomplexans

description: Log Files from Phylogenomic analyses<br>
DOI: 10.6084/m9.figshare.13927292.v1
title: Phylogenomic log files for: Gregarine single-cell transcriptomics reveals differential mitochondrial remodeling and adaptation in apicomplexans

description: Log Files from Phylogenomic analyses<br>
DOI: 10.6084/m9.figshare.14223050
title: 19505220.fastq.gz

description: WGS of canine stool microbiome
DOI: 10.6084/m9.figshare.13350524
title: Raw nucleotide assemblies for: Gregarine single-cell transcriptomics reveals differential mitochondrial remodeling and adaptation in apicomplexans

description: SPAdes v13 assemblies for newly generated data in this study
DOI: 10.6084/m9.figshare.14223053
title: 19505251.fastq.gz

description: WGS of canine stool microbiome
DOI: 10.17909/t9-ksyp-na40
title: The Panchromatic Hubble Andromeda Treasury: Triangulum Extended Region ("PHATTER")

description: The team provides UV-optical-NIR photometry for 22 million stars in the central ~0.1 deg^2 of M33 for the Panchromatic Hubble Andromeda Treasury: Triangulum Extended Region ("PHATTER") survey. They use the filters F275W and F336W on the WFC3/UVIS camera, F475W and F814W on ACS/WFC, and the F110W and F160W on WFC3/IR. UVIS data reach a magnitude limit of ~25 in F275W and F336W. ACS data reach maximum depths of ~28 magnitudes in F475W and ~27 magnitudes in F814W in the uncrowded outer disk. In these same regions, WFC3/IR data reach maximum depths of ~26.5 and ~25.5 in F110W and F160W, respectively. However, the depths are crowding limited in the optical and NIR, and thus is a strong function of radius. As a result, photometry in the inner bulge fields is far shallower. The source catalogs and image mosaics from which the sources are extracted are provided by the team. The team also provides the WCS solutions for each subsection's reference image.
DOI: 10.6084/m9.figshare.14223047.v1
title: 19502649.fastq.gz

description: WGS of canine stool microbiome
DOI: 10.6084/m9.figshare.14223047
title: 19502649.fastq.gz

description: WGS of canine stool microbiome
DOI: 10.5525/gla.researchdata.1082
title: Improved transient silencing of gene expression in the mosquito female Aedes aegypti
DOI: 10.6084/m9.figshare.14222693
title: Behavioral scoring of Cacosceles newmannii

description: Scoring of different behaviours of Cacosceles newmannii adults (number of events = nb; duration of the behavior = dur (in seconds))<br>
DOI: 10.6084/m9.figshare.14222693.v1
title: Behavioral scoring of Cacosceles newmannii

description: Scoring of different behaviours of Cacosceles newmannii adults (number of events = nb; duration of the behavior = dur (in seconds))<br>
DOI: 10.25345/c5xv41
title: MassIVE MSV000087055 - Interactome characterization of DEPTOR using miniTurbo
title: MS files for the miniTurbo characterization of DEPTOR in human cells.
DOI: 10.21227/g622-pj32
title: January-18-Tang-Wenyuan.csv

description: January-18-Tang-Wenyuan.csv
DOI: 10.5281/zenodo.4608087
title: v0 model

description: v0 test model
DOI: 10.5281/zenodo.4608086
title: v0 model

description: v0 test model
DOI: 10.5285/e0df9db6-09ac-4fa3-a815-1394c1988654
title: BGS Seabed Sediments 250k version 3.0

description: The BGS Seabed Sediments 250k dataset is vector data is vector data which reflects the distribution of seabed substrate types of the UK and some of its adjacent waters at 1:250,000 scale. 
This comprehensive product provides a digital compilation of the paper maps published by BGS at the same scale, as well as, additional re-interpretations from regional geological studies.
The seabed is commonly covered by sediments that form a veneer or thicker superficial layer of unconsolidated material above the bedrock. These sediments are classified based on their grain size reflecting the environment in which were deposited. This information is important to a range of stakeholders, including marine habitat mappers, marine spatial planners, offshore industries (in particular, the dredging and aggregate industries). 
This dataset was primarily based on seabed grab samples of the top 0.1 m, combined with cores, dredge samples and sidescan sonar acquired during mapping surveys since the early 1970s. The variations in data density will be reflected in the detail of the mapping
DOI: 10.21227/jc3s-rh52
title: Provided data

description: Forecast for January 18, 2021.
DOI: 10.21223/jtzy5w
title: Breeding Progress with Vitamin A, Iron and Zinc Biofortification, Drought Tolerance, and Sweetpotato Virus Disease Resistance in Sweetpotato

description: The data was generated between 2009 and 2020 in 14 collaborating African countries using different sets of study materials to design different experiments using both introduced and local genotypes for: 1) Adapting population and variety improvement schemes designed to accelerate release of sweetpotato varieties 2) Development of a procedure to characterize germplasm for sweetpotato virus disease resistance 3) Development of a procedure to characterize drought tolerance in sub-Saharan Africa 4) Development of a procedure of breeding for high iron and zinc, and 5) Development of genomic and digital tools for sweetpotato breeding.
DOI: 10.5285/d933077d-d8af-48cd-85ba-8c31ce2a95a6
title: BGS Offshore Bedrock 250k version 3.0

description: The BGS Offshore Bedrock 250k dataset is vector data which reflects the offshore bedrock geological of the UK and some of its adjacent waters at 1:250,000 scale. 
This comprehensive product provides a digital compilation of the paper maps published by BGS at the same scale, as well as, additional re-interpretations from regional geological studies.
The composition, age and deformational history of the rocks underlying the seabed (bedrock) are important for a range of stakeholders, including marine spatial planners and offshore developers. 
The dataset is arranged in two GIS layers: Bedrock Lithostratigraphy and Bedrock Structural Geology. The polygons within the Bedrock Lithostratigraphy layer show the spatial distribution of the principal lithostratigraphical units (formations and groups). The lines within the Structural Geology layer show the location and extent of known structural features such as faults and folds. 
This broadscale dataset was derived from geophysical data (e.g. airgun, boomer, sparker, sidescan sonar, magnetometer, gravity meter) and data obtained from commercial wells and BGS shallow boreholes. The variations in data density will be reflected in the detail of the mapping.
DOI: 10.6084/m9.figshare.14223068
title: Sequence Assembly and Base composition

description: Assembly noteBase composition table
DOI: 10.6084/m9.figshare.14223068.v1
title: Sequence Assembly and Base composition

description: Assembly noteBase composition table