scholarly journals Three-dimensional imaging of xylem at cell wall level through near field nano holotomography

2021 ◽  
Vol 11 (1) ◽  
Author(s):  
Tim Koddenberg ◽  
Imke Greving ◽  
Johannes Hagemann ◽  
Silja Flenner ◽  
Andreas Krause ◽  
...  
Keyword(s):  
Cell Wall ◽  
Pinus Sylvestris ◽  
Fagus Sylvatica ◽  
Ion Beam ◽  
Near Field ◽  
Three Dimensional ◽  
Imaging Method ◽  
Micro Computed Tomography ◽  
X Ray ◽  
Pit Membrane

AbstractDetailed imaging of the three-dimensionally complex architecture of xylary plants is important for studying biological and mechanical functions of woody plants. Apart from common two-dimensional microscopy, X-ray micro-computed tomography has been established as a three-dimensional (3D) imaging method for studying the hydraulic function of wooden plants. However, this X-ray imaging method can barely reach the resolution needed to see the minute structures (e.g. pit membrane). To complement the xylem structure with 3D views at the nanoscale level, X-ray near-field nano-holotomography (NFH) was applied to analyze the wood species Pinus sylvestris and Fagus sylvatica. The demanded small specimens required focused ion beam (FIB) application. The FIB milling, however, influenced the image quality through gallium implantation on the cell-wall surfaces. The measurements indicated that NFH is appropriate for imaging wood at nanometric resolution. With a 26 nm voxel pitch, the structure of the cell-wall surface in Pinus sylvestris could be visualized in genuine detail. In wood of Fagus sylvatica, the structure of a pit pair, including the pit membrane, between two neighboring fibrous cells could be traced tomographically.

3D Observation of Elemental Distribution of Si-Device using a Dedicated FIB/STEM System

2005 ◽  
Author(s):  
T. Yaguchi ◽  
M. Konno ◽  
T. Kamino ◽  
M. Ogasawara ◽  
K. Kaji ◽  
...  
Keyword(s):  
Focused Ion Beam ◽  
Ion Beam ◽  
Three Dimensional ◽  
Elemental Distribution ◽  
Multivariate Statistical ◽  
X Ray ◽  
Sample Rotation ◽  
Transmission Electron ◽  
Scanning Transmission ◽  
Elemental Maps

Abstract A technique for preparation of a pillar shaped sample and its multi-directional observation of the sample using a focused ion beam (FIB) / scanning transmission electron microscopy (STEM) system has been developed. The system employs an FIB/STEM compatible sample rotation holder with a specially designed rotation mechanism, which allows the sample to be rotated 360 degrees [1-3]. This technique was used for the three dimensional (3D) elemental mapping of a contact plug of a Si device in 90 nm technology. A specimen containing a contact plug was shaped to a pillar sample with a cross section of 200 nm x 200 nm and a 5 um length. Elemental analysis was performed with a 200 kV HD-2300 STEM equipped with the EDAX genesis Energy dispersive X-ray spectroscopy (EDX) system. Spectrum imaging combined with multivariate statistical analysis (MSA) [4, 5] was used to enhance the weak X-ray signals of the doped area, which contain a low concentration of As-K. The distributions of elements, especially the dopant As, were successfully enhanced by MSA. The elemental maps were .. reconstructed from the maps.

scholarly journals Three-dimensional propagation in near-field tomographic X-ray phase retrieval

2016 ◽  
Vol 72 (2) ◽  
pp. 215-221 ◽  
Author(s):  
Aike Ruhlandt ◽  
Tim Salditt
Keyword(s):  
Phase Retrieval ◽  
Near Field ◽  
Three Dimensional ◽  
Three Dimensions ◽  
Current Phase ◽  
Computationally Efficient ◽  
X Ray ◽  
Reconstruction Quality ◽  
Consistency Constraints

This paper presents an extension of phase retrieval algorithms for near-field X-ray (propagation) imaging to three dimensions, enhancing the quality of the reconstruction by exploiting previously unused three-dimensional consistency constraints. The approach is based on a novel three-dimensional propagator and is derived for the case of optically weak objects. It can be easily implemented in current phase retrieval architectures, is computationally efficient and reduces the need for restrictive prior assumptions, resulting in superior reconstruction quality.

Imaging of retina cellular and subcellular structures using ptychographic hard X-ray tomography

2021 ◽  
Vol 134 (19) ◽  
Author(s):  
Valerie Panneels ◽  
Ana Diaz ◽  
Cornelia Imsand ◽  
Manuel Guizar-Sicairos ◽  
Elisabeth Müller ◽  
...  
Keyword(s):  
Focused Ion Beam ◽  
Ion Beam ◽  
Plexiform Layer ◽  
Wild Type Mouse ◽  
Small Region ◽  
Mouse Retina ◽  
Imaging Method ◽  
Scanning Method ◽  
X Ray ◽  
Correlative Imaging

ABSTRACT Ptychographic hard X-ray computed tomography (PXCT) is a recent method allowing imaging with quantitative electron-density contrast. Here, we imaged, at cryogenic temperature and without sectioning, cellular and subcellular structures of a chemically fixed and stained wild-type mouse retina, including axons and synapses, with complete isotropic 3D information over tens of microns. Comparison with tomograms of degenerative retina from a mouse model of retinitis pigmentosa illustrates the potential of this method for analyzing disease processes like neurodegeneration at sub-200 nm resolution. As a non-destructive imaging method, PXCT is very suitable for correlative imaging. Within the outer plexiform layer containing the photoreceptor synapses, we identified somatic synapses. We used a small region inside the X-ray-imaged sample for further high-resolution focused ion beam/scanning electron microscope tomography. The subcellular structures of synapses obtained with the X-ray technique matched the electron microscopy data, demonstrating that PXCT is a powerful scanning method for tissue volumes of more than 60 cells and sensitive enough for identification of regions as small as 200 nm, which remain available for further structural and biochemical investigations.

scholarly journals Stereological assessment of mouse lung parenchyma via nondestructive, multiscale micro-CT imaging validated by light microscopic histology

2013 ◽  
Vol 114 (6) ◽  
pp. 716-724 ◽  
Author(s):  
Dragoş M. Vasilescu ◽  
Christine Klinge ◽  
Lars Knudsen ◽  
Leilei Yin ◽  
Ge Wang ◽  
...  
Keyword(s):  
Three Dimensional ◽  
Lung Parenchyma ◽  
Quantitative Information ◽  
Mouse Lung ◽  
Imaging Method ◽  
Micro Computed Tomography ◽  
Lung Structure ◽  
Internal Structures ◽  
Multiple Resolutions ◽  
Conventional Histology

Quantitative assessment of the lung microstructure using standard stereological methods such as volume fractions of tissue, alveolar surface area, or number of alveoli, are essential for understanding the state of normal and diseased lung. These measures are traditionally obtained from histological sections of the lung tissue, a process that ultimately destroys the three-dimensional (3-D) anatomy of the tissue. In comparison, a novel X-ray-based imaging method that allows nondestructive sectioning and imaging of fixed lungs at multiple resolutions can overcome this limitation. Scanning of the whole lung at high resolution and subsequent regional sampling at ultrahigh resolution without physically dissecting the organ allows the application of design-based stereology for assessment of the whole lung structure. Here we validate multiple stereological estimates performed on micro–computed tomography (μCT) images by comparing them with those obtained via conventional histology on the same mouse lungs. We explore and discuss the potentials and limitations of the two approaches. Histological examination offers higher resolution and the qualitative differentiation of tissues by staining, but ultimately loses 3-D tissue relationships, whereas μCT allows for the integration of morphometric data with the spatial complexity of lung structure. However, μCT has limited resolution satisfactory for the sterological estimates presented in this study but not for differentiation of tissues. We conclude that introducing stereological methods in μCT studies adds value by providing quantitative information on internal structures while not curtailing more complex approaches to the study of lung architecture in the context of physiological or pathological studies.

scholarly journals 3D immersive visualization of micro-computed tomography and XRD texture datasets

2019 ◽  
Vol 34 (2) ◽  
pp. 97-102
Author(s):  
M. A. Rodriguez ◽  
T. T. Amon ◽  
J. J. M. Griego ◽  
H. Brown-Shaklee ◽  
N. Green
Keyword(s):  
Computed Tomography ◽  
Texture Analysis ◽  
Mechanical Strain ◽  
Three Dimensional ◽  
Multidimensional Analysis ◽  
Micro Computed Tomography ◽  
X Ray ◽  
3D Data ◽  
Pole Figures ◽  
Ct Data

Advancements in computer technology have enabled three-dimensional (3D) reconstruction, data-stitching, and manipulation of 3D data obtained on X-ray imaging systems such as micro-computed tomography (μ-CT). Likewise, intuitive evaluation of these 3D datasets can be enhanced by recent advances in virtual reality (VR) hardware and software. Additionally, the generation, viewing, and manipulation of 3D X-ray diffraction datasets, such as pole figures employed for texture analysis, can also benefit from these advanced visualization techniques. We present newly-developed protocols for porting 3D data (as TIFF-stacks) into a Unity gaming software platform so that data may be toured, manipulated, and evaluated within a more-intuitive VR environment through the use of game-like controls and 3D headsets. We demonstrate this capability by rendering μ-CT data of a polymer dogbone test bar at various stages of in situ mechanical strain. An additional experiment is presented showing 3D XRD data collected on an aluminum test block with vias. These 3D XRD data for texture analysis (χ, ϕ, 2θ dimensions) enables the viewer to visually inspect 3D pole figures and detect the presence or absence of in-plane residual macrostrain. These two examples serve to illustrate the benefits of this new methodology for multidimensional analysis.

Region-of-Interest X-Ray Tomography for the Non-Destructive Characterization of Local Fiber Orientation in Large Fiber Composite Parts

2019 ◽  
Vol 809 ◽  
pp. 587-593
Author(s):  
Simon Zabler ◽  
Katja Schladitz ◽  
Kilian Dremel ◽  
Jonas Graetz ◽  
Dascha Dobrovolskij
Keyword(s):  
Computed Tomography ◽  
Spatial Resolution ◽  
Fiber Orientation ◽  
Fiber Composite ◽  
Three Dimensional ◽  
Region Of Interest ◽  
Micro Computed Tomography ◽  
X Ray ◽  
Anisotropic Thermal Conductivity ◽  
Local Fiber

To detect and characterize materials defects in fiber composites as well as for evaluatingthe three-dimensional local fiber orientation in the latter, X-ray micro-CT is the preferred methodof choice. When micro computed tomography is applied to inspect large components, the method isreferred to as region-of-interest computed tomography. Parts can be as large as 10 cm wide and 1 mlong, while the measurement volume of micro computed tomography is a cylinder of only 4 − 5 mmdiameter (typical wall thickness of fiber composite parts). In this report, the potentials and limits ofregion-of-interest computed tomography are discussed with regard to spatial resolution and precisionwhen evaluating defects and local fiber orientation in squeeze cast components. The micro computedtomography scanner metRIC at Fraunhofer‘s Development Center X-ray Technology EZRT deliversregion-of-interest computed tomography up to a spatial resolution of 2 μm/voxel, which is sufficientfor determining the orientation of natural or synthetic fibers, wood, carbon and glass. The mean localfiber orientation is estimated on an isotropic structuring element of approximately 0.1 mm length bymeans of volume image analysis (MAVI software package by Fraunhofer ITWM). Knowing the exactlocal fiber orientation is critical for estimating anisotropic thermal conductivity and materials strength.

X-ray microtomographic imaging and analysis for basic research

2006 ◽  
Vol 21 (2) ◽  
pp. 125-131 ◽  
Author(s):  
J. H. Dunsmuir ◽  
S. Bennett ◽  
L. Fareria ◽  
A. Mingino ◽  
M. Sansone
Keyword(s):  
Spatial Resolution ◽  
Three Dimensional ◽  
Basic Research ◽  
Integrated Approach ◽  
Imaging Method ◽  
Structure Property ◽  
3D Images ◽  
X Ray ◽  
Structure Property Relationships ◽  
Essential Components

For research facilities with access to synchrotron X-ray sources, X-ray absorption microtomography (XMT) has evolved from an experimental imaging method to a specialized, if not yet routine, microscopy for imaging the three-dimensional (3D) distribution of linear attenuation coefficients and, in some cases, elemental concentration with micron spatial resolution. Recent advances in source and detector design have produced conventional X-ray source instruments with comparable spatial resolution but with lower throughput and without element specific imaging. Both classes of instrument produce 3D images for analysis. We discuss an integrated approach for the implementation of analytical XMT to support basic research into the structure-property relationships of a variety of materials. The essential components include instrumentation for collecting quantitative 3D images, a 3D image processing environment to address questions as to the quantity, composition, geometry, and relationships among the features in one or more images, and visualization to provide insight and communicate results. We give examples of image analysis of resolved and unresolved pore spaces of sandstones.

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