Find research datasets worth reusing

opencc-by-4.0Nov 2019View details →

Text-fig. 14. Scanning electron microscope (SEM) and synchrotron radiation X-ray tomographic microscopy (SRXTM) images of seeds of Gastonispermum antiquum sp. nov. (a–e) and possible fruits (f–h); Torres Vedras locality, Portugal. a–c) Lateral view of seeds (holotype figured in b) showing the hilar-micropylar area and the course of the raphe; note the close association of hilum (arrowhead) and micropyle; d) Detail of seed wall showing the undulating surface of the exotesta composed of cells with sinuous cell outlines; e) Longitudinal section (orthoslice xy0914) through the hilar-micropylar area showing the hilum (arrowhead), the thickening of the endotesta around the micropyle and the course of the raphe within the exotesta (arrow); f–h) Fruits containing in The Early Cretaceous Mesofossil Flora Of Torres Vedras (Ne Of Forte Da Forca), Portugal: A Palaeofloristic Analysis Of An Early Angiosperm Community

Text-fig. 14. Scanning electron microscope (SEM) and synchrotron radiation X-ray tomographic microscopy (SRXTM) images of seeds of Gastonispermum antiquum sp. nov. (a–e) and possible fruits (f–h); Torres Vedras locality, Portugal. a–c) Lateral view of seeds (holotype figured in b) showing the hilar-micropylar area and the course of the raphe; note the close association of hilum (arrowhead) and micropyle; d) Detail of seed wall showing the undulating surface of the exotesta composed of cells with sinuous cell outlines; e) Longitudinal section (orthoslice xy0914) through the hilar-micropylar area showing the hilum (arrowhead), the thickening of the endotesta around the micropyle and the course of the raphe within the exotesta (arrow); f–h) Fruits containing

Text-fig. 1. Geographical position and stratigraphic context of the Pleistocene sites from the Czech Republic and Slovakia containing Apodemus material analyzed in this paper. in Genus Apodemus In The Pleistocene Of Central Europe: When Did The Extant Taxa Appear?

Text-fig. 1. Geographical position and stratigraphic context of the Pleistocene sites from the Czech Republic and Slovakia containing Apodemus material analyzed in this paper.

Text-fig. 18. Barytherium sp. from Dor el Talha, Libya. a) MNHN LBE 13, right upper premolar, stereo occlusal views (scale bar 1 cm) and b) MNHN LBE 004, right mandible containing m/2 and m/3 (b1 – stereo occlusal views, b2 – lingual view) (scale bar 5 cm). in Large Mammals From The Rupelian Of Oman - Recent Finds

Text-fig. 18. Barytherium sp. from Dor el Talha, Libya. a) MNHN LBE 13, right upper premolar, stereo occlusal views (scale bar 1 cm) and b) MNHN LBE 004, right mandible containing m/2 and m/3 (b1 – stereo occlusal views, b2 – lingual view) (scale bar 5 cm).

Text-fig. 17. Upper molars of a) Barytherium sp. and b) Arcanotherium savagei from Dor el Talha, Libya. a) stereo occlusal view of MNHN LBE 002, left maxilla containing M2/ and M3/, b) stereo occlusal view of MNHN LBE 020, left M3/ (scale bar 5 cm). in Large Mammals From The Rupelian Of Oman - Recent Finds

Text-fig. 17. Upper molars of a) Barytherium sp. and b) Arcanotherium savagei from Dor el Talha, Libya. a) stereo occlusal view of MNHN LBE 002, left maxilla containing M2/ and M3/, b) stereo occlusal view of MNHN LBE 020, left M3/ (scale bar 5 cm).

Text-fig. 3. Stratigraphic section through part of the Ashawq Formation at the Omanitherium type locality, Dhofar Governorate, Oman. Beds A–D are indurated cliff-forming strata identified in the accompanying field photographs (Textfigs 4, 5). Note the increase in marine influence as one ascends through the section, the fauna in Beds A and B being dominated by freshwater molluscs and land snails, with few brackish water specimens, whereas the biota in Bed D is frankly marine with a single specimen of the freshwater snail Pila. Bed C yielded Vermetus, oysters and sponges, but also contains abundant land snails and a low diversity of freshwater gastropods. in Large Mammals From The Rupelian Of Oman - Recent Finds

Text-fig. 3. Stratigraphic section through part of the Ashawq Formation at the Omanitherium type locality, Dhofar Governorate, Oman. Beds A–D are indurated cliff-forming strata identified in the accompanying field photographs (Textfigs 4, 5). Note the increase in marine influence as one ascends through the section, the fauna in Beds A and B being dominated by freshwater molluscs and land snails, with few brackish water specimens, whereas the biota in Bed D is frankly marine with a single specimen of the freshwater snail Pila. Bed C yielded Vermetus, oysters and sponges, but also contains abundant land snails and a low diversity of freshwater gastropods.

opencc-by-4.0Aug 2019View details →

Text-fig. 7. a. Worn section through a horizontally bedded body-chamber and phragmocone, body-chamber showing oyster attached to inside of aperture as well as burrow mottling. Tape measure provides scale. b. Body-chamber and crushed phragmocone with body-chamber and phragmocone entirely filled with bioturbated matrix containing stringers of crinoid and molluscan debris. Flank of phragmocone encrusted by oysters. Tape measure for scale. c. Complex of Thallassinoides and Diplocraterion burrows associated with conch that has been eroded out by wave action. A few 'Ghostly' fragments of ammonite are also present. Original scope of the image approximately 400 mm. c. Verically embedded conch with largely intact septa and camera infilled with burrowed matrix containing crinoid debris. Tape measure for scale. in 'Cenoceras Islands' In The Blue Lias Formation (Lower Jurassic) Of West Somerset, Uk: Nautilid Dominance And Influence On Benthic Faunas

Text-fig. 7. a. Worn section through a horizontally bedded body-chamber and phragmocone, body-chamber showing oyster attached to inside of aperture as well as burrow mottling. Tape measure provides scale. b. Body-chamber and crushed phragmocone with body-chamber and phragmocone entirely filled with bioturbated matrix containing stringers of crinoid and molluscan debris. Flank of phragmocone encrusted by oysters. Tape measure for scale. c. Complex of Thallassinoides and Diplocraterion burrows associated with conch that has been eroded out by wave action. A few 'Ghostly' fragments of ammonite are also present. Original scope of the image approximately 400 mm. c. Verically embedded conch with largely intact septa and camera infilled with burrowed matrix containing crinoid debris. Tape measure for scale.

opencc-by-4.0Dec 2020View details →

Extracellular vesicles from Fusarium graminearum contain protein effectors expressed during infection of corn

Fusarium graminearum (Fgr) 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 Fgr 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 Fgr 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 (Zea mays) plants infected by Fgr revealed that the genes of some of the effectors were highly expressed in vivo, suggesting that the Fgr 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 Fusarium graminearum (Fgr) by SEC. Figure S2. The superoxide dismutase [Cu-Zn] (SOD1) from F. graminearum (Fgr) 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 Fusarium graminearum (Fgr). Table S1. List of proteins detected in EVs from Fusarium graminearum (Fgr). Table S2. List of proteins employed in the computational effector prediction analysis. Table S3. Proteins identified in the secretome from Fusarium graminearum (Fgr). Table S4. List of transcripts identified in corn (Zea mays) infected by Fusarium graminearum (Fgr). Table S5. Gene expression values per biological replicate.

opencc-by-4.0Nov 2022View details →

Mastodon project containing the cell tracks of a developing Tribolium Castaneum embryo.

Mastodon project containing the cell tracks of a developing Tribolium Castaneum embryo.  To open it in Mastodon, download both the .mastodon and the .xml files and put them in the same folder. The image data is stored on a BigDataServer in the Institut Pasteur, Paris, provided by the <a href="https://research.pasteur.fr/en/team/image-analysis-hub/">Image Analysis Hub</a>. When you open this .mastodon file with Mastodon, it will stream the image from the server without you having to download it. The mastodon file contains just the tracks and the .xml file contins the address of the server from where the image data will be streamed. Check the <a href="https://mastodon.readthedocs.io/">Mastodon scientific software</a> for information on how to open and use this file for scientific purposes. The image data is the 'TRIF' training video 02 from the <a href="http://www.celltrackingchallenge.net/">CellTrackingChallenge.net</a>, with authorization. The original dataset provider is Dr. A. Jain. Max Planck Institute of Molecular Cell Biology and Genetics, Dresden, Germany. <ul> <li>Microscope: Zeiss LightSheet LZ.1</li> <li>Objective lens: Plan-Apochromat 20x/1.0 (water)</li> <li>Voxel size (microns): 0.38 x 0.38 x 0.38</li> <li>Time step (min): 1.5</li> </ul>

opencc-by-4.0Oct 2022View details →

Shotgun metagenomic sequencing dataset of a synthetic mock community containing 20 genomes spiked-in at even and staggered concentrations.

Shotgun metagenomics (SM) sequencing is a popular method used in microbial ecology to obtain insights on microbial community structure and function potential in a given biological system without the need to cultivate microorganisms. The dataset described in this article describes technical triplicates of shotgun metagenomic sequence libraries generated from two purified and titrated mixes of 20 distinct reference bacterial genomes for which key characteristics such as genome size, sequence and spiked-in concentrations are known. In one of the genomic DNA mix, each genome is spiked-in at similar concentrations (representing an even microbial community) and in the other, genomes are spiked-in at different concentrations with some genomes highly abundant and other in low quantity, mimicking an uneven microbial community DNA extract. In order to be interpretable, SM sequencing data needs to be properly analyzed by complex analytical bioinformatic pipelines. Environments investigated with this method can range from simple to very complex. Typically, microbial communities contain microbes that are ubiquitous and some others much rarer. Analysis of rare microbes in a complex microbial community are challenging to perform as their sequencing signals get submerged by the microbial genomes that are more abundant. In this context, it is critical to have access to sequencing data of simple mock communities of mixes of well characterized genomes in order to develop and validate bioinformatic methods that aim to accurately analyze microbial communities.

Sound pressure measurements and calculation of the cavitation volume for a full-scale 3500 TEU container vessel

Supplementary material comprising measurement data and MATLAB code corresponding to the published research article.

opencc-zeroDec 2022View details →

dryad40/100

Data for: Higher floral richness promotes rarer bee communities across remnant and reconstructed tallgrass prairies, though remnants contain higher abundances of a threatened bumble bee (Bombus Latreille)

Managing and restoring tallgrass prairie ecosystem is an important form of pollinator conservation in the Midwestern United States. Prairie reconstruction has been found to enhance native bee diversity and abundance, but it is less clear if prairie reconstruction conserves species thought to be at-risk. We reanalyze a previously published dataset on the bee communities of reconstructed and remnant prairie in the US state of Minnesota to investigate how the abundance of at-risk species respond to local factors, such as floral diversity and prairie type (reconstructed or remnant), and landscape factors, in the form of surrounding agricultural production. We defined at-risk species in two ways. For bumble bees, we used the IUCN red list of bumble bees for North America. As other species in the bee community have not been systematically evaluated, we used an independent data set to calculate a community-level measure of rarity as a proxy for at-risk species. We calculated community rarity metrics using a Species Weighted Mean (SWM) approach, with species-level rarity (relative abundance and site occurrence) derived from a regional dataset comprised of over 30,000 specimens from across the US state of Minnesota. We found that the declining bumble bee Bombus fervidus had higher abundances in remnant rather than reconstructed prairies. Floral richness was associated with rarer bee communities (lower SWM values) across remnant and reconstructed prairies. We show that planting and managing prairies for floral diversity promotes bee communities with rarer species, but that remnants better support some at-risk species such as Bombus fervidus.

Text-fig. 48. Scanning electron microscope (SEM, a, b, d–i) and synchrotron radiation X-ray tomographic microscopy (SRXTM, c) images of "One-seeded fruit sp. 2" (a–c), "Unassigned, unnamed fruits" (d–f), Pazliopsis sp. (g, h) and "Follicular fruit with exotestal seeds" (i); Catefica locality, Portugal. a) Lateral view of fruit showing remains of tepals (te) and a single stamen (st); b) Detail of fruit surface showing short, scale-like, peltate trichomes (arrows); c) Transverse section (orthoslice xy0475) of fruit containing a single seed showing tepals (te) and fruit surface with peltate trichomes (arrow); note partial preservation of internal nutritive tissue; d) Fruit in lateral view showing the almost smooth epidermis with scattered openings; e) Detail of fruit surface from (d) showing the scattered openings in the epidermis interpreted as burst secretory cells (arrows); f) Dorsi-ventral view of tiny fruit with an irregular surface; g) Lateral view of exotestal seed assigned to cf. Pazliopsis sp.; h) Detail of fruit surface of seed in (g) showing faint facets of outer palisade layer with fine jigsaw-puzzle outlines of the anticlinal walls; i) Lateral view of fragmentary follicular fruit showing two exposed exotestal seeds. Specimens, Catefica 153-S174314 (a–c), Catefica 50-S170420 (d, e), Catefica 152-S174300 (f), Catefica 49-S172319 (g, h), Catefica MM158-P0272 (i). Scale bars = 300 Μm (a, c, d, f, g, i), 100 Μm (e), 50 Μm (b, h). in The Early Cretaceous Mesofossil Flora Of Catefica, Portugal: Angiosperms

Text-fig. 48. Scanning electron microscope (SEM, a, b, d–i) and synchrotron radiation X-ray tomographic microscopy (SRXTM, c) images of "One-seeded fruit sp. 2" (a–c), "Unassigned, unnamed fruits" (d–f), Pazliopsis sp. (g, h) and "Follicular fruit with exotestal seeds" (i); Catefica locality, Portugal. a) Lateral view of fruit showing remains of tepals (te) and a single stamen (st); b) Detail of fruit surface showing short, scale-like, peltate trichomes (arrows); c) Transverse section (orthoslice xy0475) of fruit containing a single seed showing tepals (te) and fruit surface with peltate trichomes (arrow); note partial preservation of internal nutritive tissue; d) Fruit in lateral view showing the almost smooth epidermis with scattered openings; e) Detail of fruit surface from (d) showing the scattered openings in the epidermis interpreted as burst secretory cells (arrows); f) Dorsi-ventral view of tiny fruit with an irregular surface; g) Lateral view of exotestal seed assigned to cf. Pazliopsis sp.; h) Detail of fruit surface of seed in (g) showing faint facets of outer palisade layer with fine jigsaw-puzzle outlines of the anticlinal walls; i) Lateral view of fragmentary follicular fruit showing two exposed exotestal seeds. Specimens, Catefica 153-S174314 (a–c), Catefica 50-S170420 (d, e), Catefica 152-S174300 (f), Catefica 49-S172319 (g, h), Catefica MM158-P0272 (i). Scale bars = 300 Μm (a, c, d, f, g, i), 100 Μm (e), 50 Μm (b, h).

Text-fig. 41. Scanning electron microscope (SEM) images of "Pollen clump with tricolpate pollen sp. 5"; Catefica locality, Portugal. a) Pollen clump, probably coprolite but containing one kind of pollen; b, c) Pollen grains from pollen clump in oblique equatorial view (b) and polar view (c) showing the three apertures with a distinct aperture margin and the coarse reticulum; d) Detail of wall of a broken pollen grain showing long straight columellae and a thin foot layer. Specimen, Catefica 50-S115858 (a–d). Scale bars = 600 Μm (a), 6 Μm (b, c), 1.5 Μm (d). in The Early Cretaceous Mesofossil Flora Of Catefica, Portugal: Angiosperms

Text-fig. 41. Scanning electron microscope (SEM) images of "Pollen clump with tricolpate pollen sp. 5"; Catefica locality, Portugal. a) Pollen clump, probably coprolite but containing one kind of pollen; b, c) Pollen grains from pollen clump in oblique equatorial view (b) and polar view (c) showing the three apertures with a distinct aperture margin and the coarse reticulum; d) Detail of wall of a broken pollen grain showing long straight columellae and a thin foot layer. Specimen, Catefica 50-S115858 (a–d). Scale bars = 600 Μm (a), 6 Μm (b, c), 1.5 Μm (d).

Text-fig. 17. Scanning electron microscope (SEM) images of fruits of Serialis communis (a) and Serialis crassitesta (b); Catefica locality, Portugal. a) Oblique lateral view of fruit showing three laterally coherent seeds from which the fruit wall has been almost completely lost showing the prominent micropylar region; b) Oblique lateral view of fruit containing three or four laterally coherent seeds with their micropylar regions oriented to the left. Specimens, Catefica MM92-P0167 (a), Catefica MM92-P0169 (b). Scale bars = 300 Μm (a, b). in The Early Cretaceous Mesofossil Flora Of Catefica, Portugal: Angiosperms

Text-fig. 17. Scanning electron microscope (SEM) images of fruits of Serialis communis (a) and Serialis crassitesta (b); Catefica locality, Portugal. a) Oblique lateral view of fruit showing three laterally coherent seeds from which the fruit wall has been almost completely lost showing the prominent micropylar region; b) Oblique lateral view of fruit containing three or four laterally coherent seeds with their micropylar regions oriented to the left. Specimens, Catefica MM92-P0167 (a), Catefica MM92-P0169 (b). Scale bars = 300 Μm (a, b).

opencc-by-4.0Jan 2023View details →

N-containing carbons derived from microporous coordination polymers for use in post-combustion flue gas capture

Datasets for the plots shown in the article entitled: N-containing carbons derived from microporous coordination polymers for use in post-combustion flue gas capture

opencc-by-4.0Feb 2023View details →

Fast Initiating Furan-Containing Hoveyda-Type Complexes: Synthesis and Applications in Metathesis Reactions

Data confirming the structure of the new compounds obtained within the project, published in Chemistry 2022, 4(3), 786-795; <a href="https://doi.org/10.3390/chemistry4030056">https://doi.org/10.3390/chemistry4030056</a> The research was performed within SONATA BIS project and was funded by National Science Centre, Poland, grant number DEC-2021/42/E/ST4/00187.

Dataset for publication Sikora P., El-Khayatt A.M., Saudi H.A., Liard M., Lootens D., Chung S.-Y., Woliński P., Abd Elrahman M. Rheological, mechanical, microstructural and radiation shielding properties of cement pastes containing magnetite (Fe3O4) nanoparticles. International Journal of Concrete Structures and Materials (2023), 17, 7

Open dataset for publication  Sikora P., El-Khayatt A.M., Saudi H.A., Liard M., Lootens D., Chung S.-Y., Woliński P., Abd Elrahman M. Rheological, mechanical, microstructural and radiation shielding properties of cement pastes containing magnetite (Fe3O4) nanoparticles. International Journal of Concrete Structures and Materials (2023), 17, 7. https://doi.org/10.1186/s40069-022-00568-y File 1 - X-ray diffractogram and particle size distribution (laser granulometry) data - *.opju (Origin) File 2 - Rheological test results - *.opju (Origin) File 5 - Mechanical peformance (early strength - ultrasounds and compressive strength) and density test results - *.opju (Origin) File 4 - Mercury intrusion porosimetry test data - *.opju (Origin)

opencc-by-4.0Nov 2022View details →

Spreadsheet containing information on earthquakes that DID / DID NOT rupture the surface

Spreadsheet containing information on earthquakes that DID / DID NOT rupture the surface Data are extracted from the ISC-GEM catalogue. Fields include: N.: identificative number, progressive Event ID: identificative number, from the ISC-GEM catalogue Date: format YYYY-MM-DD, from the ISC-GEM catalogue Lat: latitude of the epicenter, in decimal degrees Lon: longitude of the epicenter, in decimal degrees Depth, Depth unc and Depth quality: information retrieved from the ISC-GEM catalogue Mw, Mw unc and Mw quality: moment magnitude; information retrieved from the ISC-GEM catalogue Str, Dip, Rake: strike, dip and rake for the 2 nodal planes; information retrieved from the ISC-GEM catalogue Fault kin: earthquake mechanism, categorized as reverse, strike-slip, normal, transpressive, transtensive Surface faulting: categorized as YES, NO, no info, debated faulting SRL (surface rupture length in km); MD (max displacement in m); AD (average displacement in m) Reference: literature used to compile the dataset; full list is available in the .pdf file related to this document   A poster has been presented at the PATA Days 2023 in France, file available at: <a href="https://www.researchgate.net/publication/363739186_LIKELIHOOD_OF_PRIMARY_SURFACE_FAULTING_A_SEQUEL">https://www.researchgate.net/publication/363739186_LIKELIHOOD_OF_PRIMARY_SURFACE_FAULTING_A_SEQUEL</a>

opencc-zeroFeb 2023View details →

FIG. 5 in Four new species of Tephromela M.Choisy (Ascomycota, Tephromelataceae), three containing lichexanthone, from Brazil and Mexico

FIG. 5. — Habitus and UV reaction: A, B, Tephromela carassensis (Vain.) Aptroot & Lücking, comb. nov. (type material of Lecanora carassensis Vainio), thallus and apothecium margin UV+ yellow; C, D, Tephromela epichlorina (Vain) Aptroot & Lücking, comb. nov. (lectotype material of Lecanora epichlorina Vainio), thallus and apothecium margin UV+ yellow. Scale bars: 2 mm.