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FIGURES 23–28 Entomoneis tenera strain PMFEN2 in Entomoneis tenera sp. nov., a new marine planktonic diatom (Entomoneidaceae, Bacillariophyta) from the Adriatic Sea
FIGURES 23–28 Entomoneis tenera strain PMFEN2, SEM and TEM. Girdle views (Figs 26, 28), valve views (Figs 23, 24. 25, 27). (23, 24) Central part of the valve with central node and simple central raphe endings (arrowhead). (25) Simple terminal raphe ending. (26) Valve apex with simple terminal raphe ending. (27) Partial view of the valve with simple central and apical raphe endings. (28) Girdle view of cell apex showing simple apical raphe ending (arrow) Scale bars: Fig. 27=2 μm; Figs 23, 25, 28=1 μm; Figs 24, 26=300 nm.
FIGURES 12–15. Entomoneis tenera strain PMFEN2 in Entomoneis tenera sp. nov., a new marine planktonic diatom (Entomoneidaceae, Bacillariophyta) from the Adriatic Sea
FIGURES 12–15. Entomoneis tenera strain PMFEN2, SEM. Girdle view (Figs 12–14), valve view (Fig. 15). (12) Three cells attached with keels. (13) Cell twisted around the apical axis. (14) Girdle view of valve and cingulum with visible striation (costae bifurcation near the junction line indicated with an arrow). (15) Striation on the wing and valve body. Scale bars: Fig. 12=10 μm; Figs 13, 14, 15=2 μm.
FIGURES 16–22. Entomoneis tenera strain PMFEN2 in Entomoneis tenera sp. nov., a new marine planktonic diatom (Entomoneidaceae, Bacillariophyta) from the Adriatic Sea
FIGURES 16–22. Entomoneis tenera strain PMFEN2, SEM and TEM. Girdle views (Figs 18–20), valve views (Figs 16, 17, 21, 22), RF-raphe fibulae, BF-basal fibulae (junction line). (16) Valve with scalpeliform apices and junction line (arrowhead). (17) Valve with valvocopulae and sigmoid raphe-bearing keel (costae bifurcations are indicated by arrow). (18) Cell with complete girdle and indicated junction lines (arrowheads). (19, 20) Fine structure of the wing and valve body. (21) Adjacent basal fibulae fused with transverse connections (arrows). (22) Basal fibulae separating wing from valve body. Scale bars=1 μm.
FIGURE 3. Mucor pernambucoensis strain URM 7640 in Description Of Mucor Pernambucoensis (Mucorales, Mucoromycota), A New Species Isolated From The Brazilian Upland Rainforest
FIGURE 3. Mucor pernambucoensis strain URM 7640 (holotype): A. colony surface after five days at 25 ºC on MEA; B. sporangiophore repeatedly sympodially branched with globose sporangia; C. sporangiophore with globose sporangia; D. sporangiophore with sporangium and globose columella visible; E, F. sporangiophores with columellae; G. chlamydospores globose; H. sporangiospores
FIGURES 142–153. Chaetoceros lauderi culture material, strain PMFL1. Figs 142–143, 151 in The planktonic diatom genus Chaetoceros Ehrenberg (Bacillariophyta) from the Adriatic Sea
FIGURES 142–153. Chaetoceros lauderi culture material, strain PMFL1. Figs 142–143, 151: LM. Figs 144–146, 148, 150: TEM. Figs 147, 149, 152–153: SEM. 142) Complete chain showing setae orientation. 143) Intercalary cells with numerous chloroplasts. 144) Two overlapped sibling valves showing valve ornamentation. 145) Detail of the valve with central annulus and anastomosing ribs. 146) Terminal valve with slit-like rimoportula (arrow). Note the parallel ribs on the valve mantle. 147) Terminal valve with external flattened tube of the rimoportula. Note the low hyaline rim on the marginal ridge. 148) Detail of the terminal valve with the slit-like rimoportula. 149) Detail of a seta. 150) Detail of the girdle band. 151) Resting spore. Note the single ring of puncta on the advalvar margin of the secondary valve mantle (arrow). 152) Primary valve of the resting spore. 153) Secondary valve of the resting spore with the single ring of puncta on the advalvar mantle margin. Scale bars: 142=50 μm; 143=20 μm; 151–153=10 μm; 144, 146–147=5 μm; 145, 148–150=1 μm.
FIGURE 2. Mucor circinatus strain URM 90063 in Circinella simplex-a misapplied name of Mucor circinatus sp. nov.
FIGURE 2. Mucor circinatus strain URM 90063 (holotype): a–g. circinate sporangiophores; h. angular sporangiospores; i. rhizoids. Scale bars: a to g, i = 50 μm, h = 10 μm.
Stress-strain curves of elastomers with different shore hardness
<p>The dataset consists of stress-strain curves of elastomers with different shore hardness. The data could be useful to:<br>- scientists interested in modelling/simulating such materials<br>- scientists interested in designing new devices based on such materials</p> <p>Any person interested in using the data must consent to give acknowledgement to this effort by explicitly mentioning MAGNELIQ (H2020, GA #899285).</p>
AntiSMASH results of the genome sequences of four novel Endozoicomonas strains associated with the octocoral Litophyton in a long-term aquarium facility
<p>Secondary Metabolite-Encoding Biosynthetic Gene Cluster (SM-BGC) annotation files from antiSMASH bacterial version 7.1.0 for four <em>Endozoicomonas</em> strains associated with the tropical octocoral Litophyton in a long-term aquarium facility. Data corresponds to the assemblies of NE35, NE40, NE41 and NE43, available under the BioProject accession numbers <a href="https://www.ncbi.nlm.nih.gov/bioproject/1075803">PRJNA1075803</a>, <a href="https://www.ncbi.nlm.nih.gov/bioproject/1075804">PRJNA1075804</a>, <a href="https://www.ncbi.nlm.nih.gov/bioproject/1075805">PRJNA1075805</a> and <a href="https://www.ncbi.nlm.nih.gov/bioproject/1075806">PRJNA1075806</a>, respectively.<u> </u></p> <p>To easily and interactively review the results, please download the genome you wish to examine, extract the entire contents of the folder, and open the HTML file named "Results".</p> <p> </p> <p>This dataset is part of the following study:</p> <p>Marques M, da Silva DMG, Santos E, Baylina N, Peixoto R, Kyrpides NC, Woyke T, Whitman WB, Keller-Costa T, Costa R. 2024. Genome sequences of four novel <em>Endozoicomonas </em>strains associated with a tropical octocoral in a long-term aquarium facility. Microbiology Resource Announcements</p>
SST data from JAXA for "Importance of Strains in Kinetic Energy Conversion for Submesoscale Processes from an Anisotropic Perspective"
Open the record for dataset details and reuse information.
Dataset for "Identifying The Growth Phase of Magnetic Reconnection using Pressure-Strain Interaction"
<p>Simulation dataset for the "Identifying The Growth Phase of Magnetic Reconnection using Pressure-Strain Interaction"</p>
COG and Pfam annotation results of the genome sequences of four novel Endozoicomonas strains associated with the octocoral Litophyton in a long-term aquarium facility
<p>COG and Pfam annotation files from DOE-JGI Microbial Genome Annotation Pipeline (MGAP) version 4(1), for four <em>Endozoicomonas</em> strains associated with the tropical octocoral Litophyton in a long-term aquarium facility. Data correspond to the assemblies of NE35, NE40, NE41, and NE43, available under the BioProject accession numbers <a href="https://www.ncbi.nlm.nih.gov/bioproject/1075803">PRJNA1075803</a>, <a href="https://www.ncbi.nlm.nih.gov/bioproject/1075804">PRJNA1075804</a>, <a href="https://www.ncbi.nlm.nih.gov/bioproject/1075805">PRJNA1075805</a> and <a href="https://www.ncbi.nlm.nih.gov/bioproject/1075806">PRJNA1075806</a>, respectively. Results were submitted to the Integrated Microbial Genomes and Microbiomes system v7 (IMG/M) (2) for comparative analysis. The genome annotations can be interactively accessed on IMG/M (https://img.jgi.doe.gov/cgi-bin/m/main.cgi) using the following identifiers: 8036267134 (strain NE35), 8036277142 (strain NE40), 8045494135 (strain NE41); 8036272146 (strain NE43). </p> <p>This dataset is part of the following study:</p> <p>Marques M, da Silva DMG, Santos E, Baylina N, Peixoto R, Kyrpides NC, Woyke T, Whitman WB, Keller-Costa T, Costa R. 2024. Genome sequences of four novel <em>Endozoicomonas </em>strains associated with a tropical octocoral in a long-term aquarium facility. Microbiology Resource Announcements</p> <p> </p> <p>Other reference sources:</p> <p>(1) Huntemann M, Ivanova NN, Mavromatis K, James Tripp H, Paez-Espino D, Palaniappan K, Szeto E, Pillay M, Chen IMA, Pati A, Nielsen T, Markowitz VM, Kyrpides NC. 2015. The standard operating procedure of the DOE-JGI Microbial Genome Annotation Pipeline (MGAP v.4). Stand Genomic Sci 10:1–6.</p> <p>(2) Chen IMA, Chu K, Palaniappan K, Ratner A, Huang J, Huntemann M, Hajek P, Ritter SJ, Webb C, Wu D, Varghese NJ, Reddy TBK, Mukherjee S, Ovchinnikova G, Nolan M, Seshadri R, Roux S, Visel A, Woyke T, Eloe-Fadrosh EA, Kyrpides NC, Ivanova NN. 2023. The IMG/M data management and analysis system v.7: content updates and new features. Nucleic Acids Res 51:D723–D732.</p>
Stress fiber strain site dataset
<p>This dataset contains the raw Airyscan confocal microscopy data of stress fiber strain sites in zyxin-/- mouse embryonic fibroblasts (MEFs) overexpressing zyxin-mNeonGreen and F-tractin-mScarlet.</p>
Diaporthe spp. strains annotation data.
<p>This data is related to the annotation of <em>Diaporthe </em>strains associated to pod and grain rot of soybeans in Brazil. Data is related to annotation of strains UFV-DUS-20 , UFV-DUP-37, UFV-DUG-53 of <em>Diaporthe ueckeri</em> and UFV-DLS-67 of <em>Diaporthe longicolla.</em> </p>
Strain Measurements made in the blade with FBG and DFO sensors
<p>Record of Strain measurements made in the blade with FBG and DFO sensors. The blade strain measurements are collected in order to carry out monitoring activities of the structural health of the blade developed as part of the MAREWIND project.</p>
Data from: Evolutionary costs and benefits of infection with diverse strains of Spiroplasma in pea aphids
The heritable endosymbiont Spiroplasma infects many insects and has repeatedly evolved the ability to protect its hosts against different parasites. Defenses do not come for free to the host, and theory predicts that more costly symbionts need to provide stronger benefits to persist in host populations. We investigated the costs and benefits of Spiroplasma infections in pea aphids (Acyrthosiphon pisum), testing 12 bacterial strains from three different clades. Virtually all strains decreased aphid lifespan and reproduction, but only two had a (weak) protective effect against the parasitoid Aphidius ervi, an important natural enemy of pea aphids. Spiroplasma induced fitness costs were variable, with strains from the most slowly evolving clade reaching higher titers and curtailing aphid lifespan more strongly than other strains. Some Spiroplasma strains shared their host with a second endosymbiont, Regiella insecticola. Although the result of an unfortunate handling error, these co-infections proved instructive, because they showed that the cost of infection with Spiroplasma may be attenuated in the presence of Regiella. These results suggest that mechanisms other than protection against A. ervi maintain pea aphid infections with diverse strains of Spiroplasma, and that studying them in isolation will not provide a complete picture of their effects on host fitness.
Data from: Strain identification and quorum sensing inhibition characterization of marine-derived Rhizobium sp. NAO1
A novel strategy for combating pathogens is through the ongoing development and use of anti-quorum sensing (QS) treatments such as therapeutic bacteria or their anti-QS substances. Relatively little is known about the bacteria that inhabit the open ocean and of their potential anti-pathogenic attributes; thus, in an initiative to identify these types of therapeutic bacteria, planktonic microbes from the North Atlantic Ocean were collected, isolated, cultured and screened for anti-QS activity. Screening analysis identified one such strain, Rhizobium sp. NAO1. Extracts of Rhizobium sp. NAO1 were identified via ultra-performance liquid chromatography (UPLC) analysis. They were shown to contain N-acyl homoserine lactone (AHL)-based QS analogues (in particular, the N-butyryl homoserine lactone (C4-AHL) analogue) and could disrupt biofilm formation by Pseudomonas aeruginosa PAO1. QS inhibition was confirmed using confocal scanning laser microscopy and growth curves, and it was shown to occur in a dose-dependent manner without affecting bacterial growth. Secondary metabolites of Rhizobium sp. NAO1 inhibited PAO1 pathogenicity by downregulating AHL-mediated virulence factors such as elastase activity and siderophore production. Furthermore, as a result of biofilm structure damage, the secondary metabolite products of Rhizobium sp. NAO1 significantly increased the sensitivity of PAO1 to aminoglycoside antibiotics. Our results demonstrated that Rhizobium sp. strain NAO1 has the ability to disrupt P. aeruginosa PAO1 biofilm architecture, in addition to attenuating P. aeruginosa PAO1 virulence factor production and pathogenicity. Therefore, the newly identified ocean-derived Rhizobium sp. NAO1 has the potential to serve as a QS inhibitor and may be a new microbial resource for drug development.
Strain partitioning and localization due to heterogeneities in the fold - and - thrust belt 2 detachment: Analogue models of progressive arcs
<p>Although most arcuate orogens are deformed as progressive arcs–curvature is acquired during12shortening-, they have been scarcely simulated by analogue modelling. Our team work designed13a backstop that deformed in map view building up fold-and-thrust belts (FTBs) that acquire14progressively its curved shape (Jiménez-Bonilla et al., 2020); silicone and sand layers15reproduced the brittle-ductile conditions expected to be common in external tectonic wedges.16However, natural cases usually includeheterogeneities in the detachment such as diapirs,17thickness variations of the viscous layer or pinch outs. Based on the same progressive arc model18setup, we present here seven new experiments including these three types of heterogeneities.19Our results show that strain was partitioned between shortening structures whose transport20directions draw a radial pattern and normal faults and oblique strike-slip faults that21accommodate arc-lengthening. Moreover, any heterogeneity conditions the wedge evolution and22the nucleation of structures. Both diapirs and the presence of a silicone pinch-out perpendicular23to the apex movement favour that frontal deformation slows down and the wedge thickens up to24reach the supercritical angle. Interestingly, the presence of diapirs or silicone thickness25variations favour the arc-parallel stretching localization close to these heterogeneities. In26addition, silicone bands parallel to the apex movement generate different structural styles along27the FTB. More frictional detachments favour thicker wedges and less frontal propagation.28Transfer zones accommodate the differential displacement between FTB segments. These29results may be useful to investigate geometric and kinematic changes along natural progressive30arcs such as the Gibraltar, Sulaiman and Zagros cases</p>
FIGURE 87–96. Navicula cryptocephala strain LCR-S in Small diatoms (Bacillariophyta) in cultures from the Styx River, New Zealand, including descriptions of three new species
FIGURE 87–96. Navicula cryptocephala strain LCR-S:32:1, CHR618415. Scales: Fig. 87, 10 µm (use for Figs 87, 88); Fig. 89, 5 µm (use for Figs 89–93); all others 1 µm. Figs 87, 88. Live cells viewed by LM, showing paired parietal plastids close against valve margins. Figs 89–93. Cleaned frustules viewed by LM (girdle view in Fig. 93, showing curved valve faces). Figs 94–96. SEM of cleaned frustules. Fig. 94, whole frustule, showing elongated, longitudinally aligned areolae; Fig. 95, widened central area showing central raphe termini; Fig. 96, valve apex showing hooked raphe terminus and pattern of areolae.
Competitiveness prediction for nodule colonization in Sinorhizobium meliloti through combined in vitro tagged strain characterization and genome-wide association analysis
<p>Associations between leguminous plants and symbiotic nitrogen-fixing rhizobia are a classic example of mutualism between a eukaryotic host and a specific group of prokaryotic microbes. Although this symbiosis is in part species-specific, different rhizobial strains may colonise the same nodule. Some rhizobial strains are commonly known as better competitors than others, but detailed analyses that aim to predict rhizobial competitive abilities based on genomes are still scarce. Here, we performed a bacterial <em>genome-wide association (GWAS) analysis to define the </em>genomic determinants related to the competitive capabilities in the model rhizobial species <em>Sinorhizobium meliloti.</em> For this, 13 tester strains were GFP-tagged and assayed <i>vs.</i> 3 RFP-tagged reference competitor strains (<em>Rm1021, AK83, and BL225C) in a</em> <i>Medicago sativa</i> nodule occupancy test. Competition data and strain genomic sequences were employed to build a model for GWAS based on <i>k</i>-mers. Among the <i>k</i>-mers with the highest scores, 51 <i>k</i>-mers mapped on the genomes of four strains showing the highest competition phenotypes (> 60% single strain nodule occupancy; GR4, KH35c, KH46 and SM11) <i>vs.</i> BL225C. These <i>k</i>-mers were mainly located on the symbiosis-related megaplasmid pSymA, specifically on genes coding for transporters, proteins involved in the biosynthesis of cofactors and proteins related to metabolism (e.g., fatty acids). The same analysis was performed considering the sum of single and mixed nodules obtained in the competition assays <em>vs. </em>BL225C, retrieving <i>k</i>-mers mapped on the genes previously found and on <i>vir</i> genes. Therefore, the competition abilities seem to be linked to multiple genetic determinants and comprise several cellular components.</p>
FIGURE 2. Growth curve obtained for the strains. A in Polyphasic characterization of Nostoc commune (Cyanobacteria, Nostocaceae) isolated from rice growing agro-ecosystems of Dima Hasao district of Assam, North-East India
FIGURE 2. Growth curve obtained for the strains. A. Nostoc commune AUS-JR/DB/NT-003. B. Nostoc commune AUS-JR/DB/NT- 004.
ScienceDex guides
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These curated guides explain access requirements, typical timelines, costs, and reuse considerations for widely used research datasets.
Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.