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61 results for “microCT”
Harmothoe imbricata MicroCT-scans for 3D reconstruction
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Branchipolynoe sp. MicroCT-Scans for 3D reconstruction
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Gesiella jameensis MicroCT-scans for 3D reconstruction
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Macellicephala longipalpa MicroCT-scans for 3d reconstruction
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Drieschia sp. MicroCT-Scans for 3D reconstruction
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3D microCT of lithium metal battery after charge and discharge
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MicroCT scan image data of tiger beetle (Palaeoiresina cassolai) Eocene Baltic amber fossils
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Mummified Cat Head (AB77a) X-ray microCT slice data
<p>Mummified Cat Head (AB77a) X-ray microCT slice data</p> <p> </p> <p>Acquired on a Nikon XTH225. Voxel size 78.1 microns.</p>
MicroCT data to 'Maximum CO2 diffusion inside leaves is limited by the scaling of cell size and genome size'
<p>This dataset is presented in the following publication. Please cite this publication if you use the dataset.</p> <p><em>Théroux-Rancourt Guillaume, Roddy Adam B., Earles J. Mason, Gilbert Matthew E., Zwieniecki Maciej A., Boyce C. Kevin, Tholen Danny, McElrone Andrew J., Simonin Kevin A. and Brodersen Craig R. 2021. <strong>Maximum CO<sub>2</sub> diffusion inside leaves is limited by the scaling of cell size and genome size.</strong> Proceedings of the Royal Society B. 288: 20203145. doi:<a href="https://doi.org/10.1098/rspb.2020.3145">10.1098/rspb.2020.3145</a></em></p> <p>We collected leaf samples from botanical gardens, greenhouses, and field sites, which were then transported to one of three synchrotron-based microCT beamlines for imaging. To- and three-dimensional data were then extracted from the microCT images to characterize the structural anatomy of the different study species. Those data were then analyzed and correlated with genome size data available from the Kew Plant DNA C-values database (https://cvalues.science.kew.org) or newly collected by us.</p> <p>From the botanical garden collections we selected representative species from across the vascular plant phylogeny, aiming to capture as much variation in anatomical/physiological/ecological traits as possible while also sampling species that represented important divergences in the phylogeny. Within clades, we also sampled species that spanned ecological breadth (e.g. xerophytic ferns). We focused solely on C3 terrestrial vascular plants, meaning that we did not sample C4 or CAM species, which have different photosynthetic biochemistry and associated anatomy.</p> <p>In most cases, single microCT scans were used per species. This constraint was primarily due to the extremely limited amount of time available at the microCT facility, as well as the labor intensive process of producing the final volume renderings and data analysis.</p> <p>MicroCT scans were collected by GTR, JME, ABR, CRB, AJM, CKB, MJZ, and DT at one of the three microCT beamlines from fresh leaf material. Leaves were cut at the base of the petiole or short stem segment, the cut end was wrapped in wet paper towels, and the entire shoot immediately put in a plastic bag before being transported to the synchrotron and scanned within 36 h of excision. Samples were prepared before each scan (less than 30 min) by excising a small sample that was then enclosed between two pieces of Kapton (polyimide) tape to prevent desiccation while allowing high X-ray transmittance.</p> <p>All microCT data were collected at the Lawrence Berkeley National Laboratory (LBNL) tomography beamline 8.3.2, the Swiss Light Source (SLS) TOMCAT Tomography beamline of the Paul Scherrer Institute, or the Advanced Photon Source tomography beamline 2-BM-A,B of Argonne National Laboratory (ANL). MicroCT datasets were reconstructed from the raw projection images obtained using TomoPy, an open-source Python-based framework for reconstructing tomographic data (LBNL), or using the in-house reconstruction platform of the beamline (SLS, ANL). LBNL and SLS data can be reconstruction using TomoPy, and this software is available at the following link: <a href="http://microct.lbl.gov/software">http://microct.lbl.gov/software</a></p> <p>Image stacks were segmented using the open-source software ImageJ either manually or using an automated machine learning algorithm (Théroux-Rancourt et al., 2020: doi:<a href="https://doi.org/10.1002/aps3.11380">10.1002/aps3.11380</a>). Traits were extracted from the segmented image stacks using ImageJ, the BoneJ plugin of ImageJ, or with an open-source Python-program available at: <a href="https://github.com/plant-microct-tools/leaf-traits-microct">https://github.com/plant-microct-tools/leaf-traits-microct</a>. Because of the multiple synchrotron and multiple sessions involved in acquiring this dataset, and because the analysis process lasted several years and was carried out by several persons, the size of each image stack and the details in each stack vary. What is present in each stack is the airspace and the whole mesophyll (i.e. the leaf without the epidermis), and in the majority of the cases, the vasculature is also segmented.</p>
American alligator ultrasound and microCT
<p class="MsoNormal">Unlike the majority of sauropsids, which breathe primarily through costal and abdominal muscle contractions, extant crocodilians have evolved the hepatic piston pump, a unique ventilatory mechanism powered by the diaphragmaticus muscle. This muscle attaches to the pelvis and the liver, pulling the liver and viscera caudally during inspiration and lowering pressure in the pleuroperitoneal cavity, helping to inflate the lungs. It has been hypothesized that the hepatic piston pump is coupled to modifications in the axial skeleton that result in a smooth interior thoracic ceiling, facilitating craniocaudal translation of the viscera during ventilation. We assess this using ultrasound video to visualize the hepatic-piston apparatus in breathing sub-adult and adult individuals (n = 7) of the American alligator (<em>Alligator mississippiensis</em>). The magnitude of displacement of the liver was calculated by measuring the distance between the most cranial and most caudal positions of the liver during a breath cycle. These data demonstrate that pleural tissues are freely sliding cranially and caudally along the thoracic ceiling. Based on our results, we suggest that features associated with the presence or absence of a smooth thoracolumbar ceiling are viable osteological correlates for reconstructing the evolution of the hepatic piston pump in extinct crocodyliform archosaurs.</p>
MicroCT and CECT-based images of a Zn alloy explant after 84 days of implantation in the rat abdominal aorta.
<p><span>(A) MicroCT slices showing the wire and the corrosion products and (B) CECT slices after staining with Lugol for 17 h showing the wire, the corrosion products, and the surrounding soft tissue for a Zn alloy explant.</span></p>
MicroCT-based transversal cross-sections of degraded wires over their full length.
<p><span>(A) Co-Cr alloy, (B) Fe, (C) Zn, and (D) Zn alloy transversal cross-</span><span>sections over the length of the wire after 7 days of immersion. Corrosion products </span><span>are highlighted in orange.</span></p>
Raw data from microCT tomography of Ausichicrinites zelenskyyi
<p><span>Fossil</span><span> comatulids, referred to as feather stars, are mostly known from highly </span><span>disarticulated specimens. A single isolated element (centrodorsal) </span><span>has </span><span>been the basis for taxonomic description of a vast majority of fossil comatulids. Here, we report a nearly complete, and thus extremely rare, comatulid from </span><span>the Upper Jurassic (Tithonian) of the Blue Nile Basin in central western Ethiopia that </span><span>provides a unique insight into the morphology of </span><span>comatulid </span><span>arms and cirri</span><span>. It is </span><span>assigned to </span><em><span>Ausichicrinites messingi</span></em><span><em> </em>gen. et sp. nov. and </span><span>is the first Jurassic comatulid from the African continent</span><span>. </span><span>The new taxon </span><span>shows close resemblance with the modern family </span><span>Zygometridae, exclusively known from the Holocene of the western Pacific and eastern Indian Oceans.</span></p>
MicroCT of both femoral shaft explants at 3 months
<p>Both explants with proximal and distal junctions between native bone and the central massive bone allograft, stabilized by the intramedullary nailing.</p>
FIGURE 13 in Description of a new Moridilla species from North Sulawesi, Indonesia (Mollusca: Nudibranchia: Aeolidioidea) - based on MicroCT, histological and molecular analyses
FIGURE 13. Maximum Likelihood tree of the concatenated full data set of H3, 16S and COI sequence data. Some clades are collapsed to condense information. Note the lack of resolution for most facelinid groups. Diamonds help visualize Moridilla and Noumeaella clades.
FIGURE 9 in Description of a new Moridilla species from North Sulawesi, Indonesia (Mollusca: Nudibranchia: Aeolidioidea) - based on MicroCT, histological and molecular analyses
FIGURE 9. Moridilla jobeli sp. nov.: Genital system; A, C–F based on paratype SRU20190001; B based on paratype MZB. Gst.21.593. (A) Gonad of juvenile specimen with exclusively spermatogonians. (B) Ovotestis of adult animal with oogonians peripheral and spermatogonians centrally (µ-CT). (C) Several cross sections of ampulla. (D) Vas deferens with prostatic part (arrow) and penis in penial sheath (arrowhead). (E) Receptaculum seminis. (F) Cross section of genitalia. Abbrevations: am, ampulla; rs, receptaculum seminis; ng, nidamental gland.
FIGURE 12 in Description of a new Moridilla species from North Sulawesi, Indonesia (Mollusca: Nudibranchia: Aeolidioidea) - based on MicroCT, histological and molecular analyses
FIGURE 12. Maximum Likelihood tree of reduced data set of concatenated COI and 16S sequence data. Results of species delimitation tests of COI data with ABGD and bPTP tests, as well as 16S data with bPTP test depicted on the right side. Specimen numbers sp. 1 to sp. 9 refer to undescribed species, all listed as Noumeaella sp. in GenBank (also see Table 2). Stars indicate bootstrap values higher 90. (A) Moridilla jobeli sp. nov. (second paratype SRU20190001); (B) Moridilla sp. (SRU2017/01/Nosp1-17Ba-1); (C) Moridilla fifo; (D) Moridilla hermanita; (E) Moridilla brockii (C and D after Carmona & Wilson 2018; E after Gosliner et al. 2015)
FIGURE 8 in Description of a new Moridilla species from North Sulawesi, Indonesia (Mollusca: Nudibranchia: Aeolidioidea) - based on MicroCT, histological and molecular analyses
FIGURE 8. Moridilla jobeli sp. nov.: Digestive system of paratype SRU20190001. (A) Digestive gland in cerata. (B) Cnidosac in one ceras; note the three parts of the sac are one sac winding as a tube in the tip of the ceras. (C) Typhlosole (arrow) in first part of intestine. (D) Anus and anal papilla.
FIGURE 10 in Description of a new Moridilla species from North Sulawesi, Indonesia (Mollusca: Nudibranchia: Aeolidioidea) - based on MicroCT, histological and molecular analyses
FIGURE 10. Moridilla jobeli sp. nov.: Anatomy of paratype SRU20190001. (A) Pericard with auricle (arrowhead) and ventricle (star). (B) Syrinx opening in pericard (arrow). (C) Eye on right side. (D) Statocyst on right side with otoconia (arrow head); arrows indicating epithelium of digestive gland when branching from stomach and composed of specialized vacuolated cells.
FIGURE 7 in Description of a new Moridilla species from North Sulawesi, Indonesia (Mollusca: Nudibranchia: Aeolidioidea) - based on MicroCT, histological and molecular analyses
FIGURE 7. Moridilla jobeli sp. nov.: Scanning electron micrographs (SEM) of radula of paratype MZB.Gst.21.593. (A) Over- view of radula. (B) Details of oldest rachidian teeth; lateral denticles partly worn off. (C) Details of rachidian teeth from hind part. (D) Rachidian tooth with an abnormal number (3 instead of 2) of denticles on one side.
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Allen Brain Atlas
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Annotated Behaviour and Observability Dataset (ABODe)
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