scholarly journals Three-Dimensional Histology of Whole Zebrafish by Sub-Micron Synchrotron X-ray Micro-Tomography

2018 ◽  
Author(s):  
Yifu Ding ◽  
Daniel J. Vanselow ◽  
Maksim A. Yakovlev ◽  
Spencer R. Katz ◽  
Alex Y. Lin ◽  
...  
Keyword(s):  
Three Dimensional ◽  
Three Dimensions ◽  
Cell Nuclei ◽  
X Ray ◽  
3 Dimensional ◽  
Biological Discovery ◽  
Micro Tomography ◽  
Subcellular Resolution ◽  
Potential Use

AbstractHistological studies providing cellular insights into tissue architecture have been central to biological discovery and remain clinically invaluable today. Extending histology to three dimensions would be transformational for research and diagnostics. However, three-dimensional histology is impractical using current techniques. We have customized sample preparation, synchrotron X-ray tomographic parameters, and three-dimensional image analysis to allow for complete histological phenotyping using whole larval and juvenile zebrafish. The resulting digital zebrafish can be virtually sectioned and visualized in any plane. Whole-animal reconstructions at subcellular resolution also enable computational characterization of the zebrafish nervous system by region-specific detection of cell nuclei and quantitative assessment of individual phenotypic variation. Three-dimensional histological phenotyping has potential use in genetic and chemical screens, and in clinical and toxicological tissue diagnostics.One Sentence SummarySynchrotron X-ray micro-tomography can be used to rapidly create 3-dimensional images of fixed and stained specimens without sectioning, enabling computational histological phenotyping at cellular resolution.

Visualizing wood anatomy in three dimensions with high-resolution X-ray micro-tomography (μCT ) – a review –

IAWA Journal ◽  
2013 ◽  
Vol 34 (4) ◽  
pp. 408-424 ◽  
Author(s):  
Craig R. Brodersen
Keyword(s):  
High Resolution ◽  
Wood Anatomy ◽  
Data Extraction ◽  
Three Dimensional ◽  
Cell Types ◽  
Extraction Process ◽  
Three Dimensions ◽  
Wood Structures ◽  
X Ray ◽  
Micro Tomography

High-resolution X-ray micro-tomography (μCT) has emerged as one of the most promising new tools available to wood anatomists to study the three-dimensional organization of xylem networks. This non-destructive method faithfully reproduces the spatial relationships between the different cell types and allows the user to explore wood anatomy in new and innovative ways. With μCT imaging, the sample can be visualized in any plane and is not limited to a single section or exposed plane. Conventional CT software aids in the visualization of wood structures, and newly developed custom software can be used to rapidly automate the data extraction process, thereby accelerating the rate at which samples can be analyzed for research. In this review the origins of xylem reconstructions using traditional methods are discussed, as well as the current applications of μCT in plant biology and an overview of pertinent technical considerations associated with this technique. μCT imaging offers a new perspective on wood anatomy and highlights the importance of the relationships between wood structure and function.

scholarly journals Spectral X-ray computed micro tomography: a tool for 3-dimensional chemical imaging

2021 ◽  
Author(s):  
Jonathan Sittner ◽  
Margarita Merkulova ◽  
Jose Ricardo da Assuncao Godinho ◽  
Axel Renno ◽  
Veerle Cnudde ◽  
...  
Keyword(s):  
Chemical Imaging ◽  
Drill Core ◽  
Micro Ct ◽  
Micro Computed Tomography ◽  
X Ray ◽  
3 Dimensional ◽  
X Ray Computed ◽  
Micro Tomography ◽  
3D Information

<p>Image-based analytical tools in geosciences are indispensable for the characterization of minerals, but most of them are limited to the surface of a polished plane in a sample and lack 3D information. X-ray micro computed tomography (micro CT) provides the missing 3D information of the microstructures inside samples. However, a major drawback of micro CT in the characterization of minerals is the lack of chemical information that makes mineral classification challenging.</p><p>Spectral X-ray micro computed tomography (Sp-CT) is a new and evolving tool in different applications such as medicine, security, material science, and geology. This non-destructive method uses a multi-pixel photon-counting detector (PCD) such as cadmium telluride (CdTe) in combination with a conventional CT scanner (TESCAN CoreTOM) to image a sample and detect its transmitted polychromatic X-ray spectrum. Based on the spectrum, elements in a sample can be identified by an increase in attenuation at specific K-edge energies. Therefore, chemically different particles can be distinguished inside a sample from a single CT scan. The method is able to distinguish elements with K-edges in the range from 25 to 160 keV, which applies to elements with Z > 48 (Sittner et al., 2020).</p><p>We present results from various sample materials. Different pure elements and element oxides were measured to compare the position of theoretical and measured K-edge energies. All measured K-edge energies are slightly above the theoretical value, but based on the results a correction algorithm could be developed. Furthermore, different monazite grains were investigated, which can be divided into two groups with respect to the content of different RE elements on the basis of the spectrum: La-Ce-rich and La-Ce-poor. In addition, samples from the Au-U Witwatersrand Supergroup demonstrate the potential applications of Sp-CT for geological samples. We measured different drill core samples from the Kalkoenkrans Reef at the Welkom Gold field. Sp-CT can distinguish gold, uraninite and galena grains based on their K-edge energies in the drill core without preparation.</p><p>Sittner, J., Godinho, J. R. A., Renno, A. D., Cnudde, V., Boone, M., De Schryver, T., Van Loo, D., Merkulova, M., Roine, A., & Liipo, J. (2020). Spectral X-ray computed micro tomography: 3-dimensional chemical imaging. X-Ray Spectrometry, September, 1–14.</p>

Three Dimensional Characterization of Grain Structures by EBSP and 3DXRD

2007 ◽  
Vol 558-559 ◽  
pp. 751-756 ◽  
Author(s):  
Kristofer Hannesson ◽  
Dorte Juul Jensen
Keyword(s):  
Three Dimensional ◽  
Polycrystalline Materials ◽  
Serial Sectioning ◽  
X Ray Diffraction ◽  
X Ray ◽  
3D Structures ◽  
3 Dimensional ◽  
Grain Structures ◽  
Non Destructive

Grain structures in polycrystalline materials are typically three dimensional (3D) structures, but by far the most characterizations of grain structures are done by microscopy and are thus limited to 2D. In the present work 3D grain structures in a well-annealed cylindrical aluminium (AA1050) sample is characterized and analyzed. The characterization is done by 2 methods i) by non-destructive 3-dimensional x-ray diffraction (3DXRD) ii) by serial sectioning and subsequent EBSP mapping of entire circular 2D sample sections; 50 sections are mapped In total 333 grains are reconstructed. It is found that the 3D grain morphologies can be quite complex in particular for the larger grains, the number of neighbours varies significantly and values above 20 are not unusual. When the results from the 2 methods are compared, it is found that the crystallographic agreement is very good and within experimental uncertainties. Slightly more significant differences are found when the reconstructed grain morphologies are compared. Reasons for this are discussed.

convergent-beam diffraction from surfaces

1987 ◽  
Vol 45 ◽  
pp. 30-33
Author(s):  
J. A. Eades ◽  
A. E. Smith ◽  
D. F. Lynch
Keyword(s):  
Reciprocal Lattice ◽  
Three Dimensional ◽  
Grazing Incidence ◽  
Three Dimensions ◽  
Plane Figure ◽  
Transmission Electron ◽  
Convergent Beam ◽  
Beam Patterns ◽  
Beam Diffraction

It is quite simple (in the transmission electron microscope) to obtain convergent-beam patterns from the surface of a bulk crystal. The beam is focussed onto the surface at near grazing incidence (figure 1) and if the surface is flat the appropriate pattern is obtained in the diffraction plane (figure 2). Such patterns are potentially valuable for the characterization of surfaces just as normal convergent-beam patterns are valuable for the characterization of crystals.There are, however, several important ways in which reflection diffraction from surfaces differs from the more familiar electron diffraction in transmission.GeometryIn reflection diffraction, because of the surface, it is not possible to describe the specimen as periodic in three dimensions, nor is it possible to associate diffraction with a conventional three-dimensional reciprocal lattice.

Three dimensional characterization of micronized soybean seeds using X-ray microtomography

2021 ◽  
Vol 127 ◽  
pp. 388-397
Author(s):  
Rani Puthukulangara Ramachandran ◽  
Chyngyz Erkinbaev ◽  
Sandeep Thakur ◽  
Jitendra Paliwal
Keyword(s):  
Three Dimensional ◽  
Soybean Seeds ◽  
X Ray

Three dimensional characterization of laser ablation craters using high resolution X-ray computed tomography

2018 ◽  
Vol 139 ◽  
pp. 75-82 ◽  
Author(s):  
A.H. Galmed ◽  
A. du Plessis ◽  
S.G. le Roux ◽  
E. Hartnick ◽  
H. Von Bergmann ◽  
...  
Keyword(s):  
Computed Tomography ◽  
Laser Ablation ◽  
High Resolution ◽  
Three Dimensional ◽  
X Ray ◽  
X Ray Computed

Characterization of oil nano-structures with monochromatic x-ray micro-tomography

2012 ◽  
Author(s):  
Victor E. Asadchikov ◽  
Alexey V. Buzmakov ◽  
Anna S. Osadchaya ◽  
Denis A. Zolotov ◽  
Michael K. Rafailov
Keyword(s):  
X Ray ◽  
Nano Structures ◽  
Micro Tomography

scholarly journals Investigating the Three-Dimensional Microstructural Characteristics of Lithium-Sulfur Electrodes with X-ray Micro-Tomography

2017 ◽  
Vol 77 (11) ◽  
pp. 447-455 ◽  
Author(s):  
Chun Tan ◽  
Sohrab Randjbar Daemi ◽  
Daniel J.L. Brett ◽  
Paul R. Shearing
Keyword(s):  
Three Dimensional ◽  
Microstructural Characteristics ◽  
X Ray ◽  
Micro Tomography ◽  
Lithium Sulfur

scholarly journals X-ray Micro-Tomography as a Method to Distinguish and Characterize Natural and Cultivated Pearls

2021 ◽  
Vol 6 (4) ◽  
pp. 51
Author(s):  
Luisa Vigorelli ◽  
Elisabetta Croce ◽  
Debora Angelici ◽  
Raffaella Navone ◽  
Sabrina Grassini ◽  
...  
Keyword(s):  
Diagnostic Techniques ◽  
X Ray ◽  
Non Invasive ◽  
Heritage Studies ◽  
Different Types ◽  
Micro Tomography ◽  
Invasive Techniques ◽  
Tomographic Analysis ◽  
Private Collections

Digital radiography and computed tomography are two fundamental diagnostic techniques in different fields of research, including cultural heritage studies and gemmology. The application of these physical methods of investigation has gained considerable importance as they are non-invasive techniques. The presented work has been mainly focused on micro-tomographic analysis. The project is concerned with the study of natural and cultivated pearls in order to develop an investigation methodology for the analysis, distinction and characterization of different types of pearls, some of them belonging to different precious jewels from private collections. The investigations, carried out on a total of 22 heterogeneous types of pearls, allowed us to establish their origin (natural or cultivated) or to confirm/deny if a hypothesis was already expressed, and as well to highlight the cultivation methodology used case by case. Furthermore, it was possible to ascertain how large and varied the market for cultured pearls is nowadays and how difficult is, in some particular cases, to ascertain their attribution to a certain origin.

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