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Silveira A, Greving I, Longo E, Scheel M, Weitkamp T, Fleck C, Shahar R, Zaslansky P. Deep learning to overcome Zernike phase-contrast nanoCT artifacts for automated micro-nano porosity segmentation in bone. JOURNAL OF SYNCHROTRON RADIATION 2024; 31:136-149. [PMID: 38095668 PMCID: PMC10833422 DOI: 10.1107/s1600577523009852] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/15/2023] [Accepted: 11/13/2023] [Indexed: 01/09/2024]
Abstract
Bone material contains a hierarchical network of micro- and nano-cavities and channels, known as the lacuna-canalicular network (LCN), that is thought to play an important role in mechanobiology and turnover. The LCN comprises micrometer-sized lacunae, voids that house osteocytes, and submicrometer-sized canaliculi that connect bone cells. Characterization of this network in three dimensions is crucial for many bone studies. To quantify X-ray Zernike phase-contrast nanotomography data, deep learning is used to isolate and assess porosity in artifact-laden tomographies of zebrafish bones. A technical solution is proposed to overcome the halo and shade-off domains in order to reliably obtain the distribution and morphology of the LCN in the tomographic data. Convolutional neural network (CNN) models are utilized with increasing numbers of images, repeatedly validated by `error loss' and `accuracy' metrics. U-Net and Sensor3D CNN models were trained on data obtained from two different synchrotron Zernike phase-contrast transmission X-ray microscopes, the ANATOMIX beamline at SOLEIL (Paris, France) and the P05 beamline at PETRA III (Hamburg, Germany). The Sensor3D CNN model with a smaller batch size of 32 and a training data size of 70 images showed the best performance (accuracy 0.983 and error loss 0.032). The analysis procedures, validated by comparison with human-identified ground-truth images, correctly identified the voids within the bone matrix. This proposed approach may have further application to classify structures in volumetric images that contain non-linear artifacts that degrade image quality and hinder feature identification.
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Affiliation(s)
- Andreia Silveira
- Department for Restorative, Preventive and Pediatric Dentistry, Charité-Universitaetsmedizin, Berlin, Germany
| | - Imke Greving
- Institute of Materials Physics, Helmholtz-Zentrum Hereon, Geesthacht, Germany
| | - Elena Longo
- Elettra – Sincrotrone Trieste SCpA, Basovizza, Trieste, Italy
| | | | | | - Claudia Fleck
- Fachgebiet Werkstofftechnik / Chair of Materials Science and Engineering, Institute of Materials Science and Technology, Faculty III Process Sciences, Technische Universität Berlin, Berlin, Germany
| | - Ron Shahar
- Koret School of Veterinary Medicine, The Robert H. Smith Faculty of Agriculture, Food and Environmental Sciences, Hebrew University of Jerusalem, Rehovot, Israel
| | - Paul Zaslansky
- Department for Restorative, Preventive and Pediatric Dentistry, Charité-Universitaetsmedizin, Berlin, Germany
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2
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Cao M, Wang Y, Wang L, Zhang K, Guan Y, Guo Y, Chen C. In situ label-free X-ray imaging for visualizing the localization of nanomedicines and subcellular architecture in intact single cells. Nat Protoc 2024; 19:30-59. [PMID: 37957402 DOI: 10.1038/s41596-023-00902-y] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/24/2022] [Accepted: 08/10/2023] [Indexed: 11/15/2023]
Abstract
Understanding the intracellular behaviors of nanomedicines and morphology variation of subcellular architecture impacted by nanomaterial-biology (nano-bio) interactions could help guide the safe-by-design, manufacturing and evaluation of nanomedicines for clinical translation. The in situ and label-free analysis of nano-bio interactions in intact single cells at nanoscale remains challenging. We developed an approach based on X-ray microscopy to directly visualize the 2D or 3D intracellular distribution without labeling at nanometer resolution and analyze the chemical transformation of nanomedicines in situ. Here, we describe an optimized workflow for cell sample preparation, beamline selection, data acquisition and analysis. With several model bionanomaterials as examples, we analyze the localization of nanomedicines in various primary blood cells, macrophages, dendritic cells, monocytes and cancer cells, as well as the morphology of some organelles with soft and hard X-rays. Our protocol has been successfully implemented at three beamline facilities: 4W1A of Beijing Synchrotron Radiation Facility, BL08U1A of Shanghai Synchrotron Radiation Facility and BL07W of the National Synchrotron Radiation Laboratory. This protocol can be completed in ~2-5 d, depending on the cell types, their incubation times with nanomaterials and the selected X-ray beamline. The protocol enables the in situ analysis of the varieties of metal-containing nanomaterials, visualization of intracellular endocytosis, distribution and excretion and corresponding subcellular morphological variation influenced by nanomedicines in cell lines or primary cells by using this universal and robust platform. The results facilitate the understanding of the true principle and mechanism underlying the nano-bio interaction.
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Affiliation(s)
- Mingjing Cao
- CAS Key Laboratory for Biomedical Effects of Nanomaterials and Nanosafety and CAS Center for Excellence in Nanoscience, National Center for Nanoscience and Technology of China, Beijing, China
| | - Yaling Wang
- CAS Key Laboratory for Biomedical Effects of Nanomaterials and Nanosafety and CAS Center for Excellence in Nanoscience, National Center for Nanoscience and Technology of China, Beijing, China
| | - Liming Wang
- CAS Key Laboratory for Biomedical Effects of Nanomaterials and Nanosafety and CAS Center for Excellence in Nanoscience, National Center for Nanoscience and Technology of China, Beijing, China
- CAS Key Laboratory for Biomedical Effects of Nanomaterials and Nanosafety and Beijing Synchrotron Radiation Facility, Institute of High Energy Physics, Chinese Academy of Sciences, Beijing, China
| | - Kai Zhang
- CAS Key Laboratory for Biomedical Effects of Nanomaterials and Nanosafety and Beijing Synchrotron Radiation Facility, Institute of High Energy Physics, Chinese Academy of Sciences, Beijing, China
| | - Yong Guan
- National Synchrotron Radiation Laboratory, University of Science and Technology of China, Hefei, China
| | - Yuecong Guo
- CAS Key Laboratory for Biomedical Effects of Nanomaterials and Nanosafety and CAS Center for Excellence in Nanoscience, National Center for Nanoscience and Technology of China, Beijing, China
| | - Chunying Chen
- CAS Key Laboratory for Biomedical Effects of Nanomaterials and Nanosafety and CAS Center for Excellence in Nanoscience, National Center for Nanoscience and Technology of China, Beijing, China.
- CAS Key Laboratory for Biomedical Effects of Nanomaterials and Nanosafety and Beijing Synchrotron Radiation Facility, Institute of High Energy Physics, Chinese Academy of Sciences, Beijing, China.
- GBA National Institute for Nanotechnology Innovation, Guangzhou, China.
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3
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Fu T, Wang Y, Zhang K, Zhang J, Wang S, Huang W, Wang Y, Yao C, Zhou C, Yuan Q. Deep-learning-based ring artifact correction for tomographic reconstruction. JOURNAL OF SYNCHROTRON RADIATION 2023; 30:620-626. [PMID: 36897392 PMCID: PMC10161896 DOI: 10.1107/s1600577523000917] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/09/2022] [Accepted: 02/01/2023] [Indexed: 05/06/2023]
Abstract
X-ray tomography has been widely used in various research fields thanks to its capability of observing 3D structures with high resolution non-destructively. However, due to the nonlinearity and inconsistency of detector pixels, ring artifacts usually appear in tomographic reconstruction, which may compromise image quality and cause nonuniform bias. This study proposes a new ring artifact correction method based on the residual neural network (ResNet) for X-ray tomography. The artifact correction network uses complementary information of each wavelet coefficient and a residual mechanism of the residual block to obtain high-precision artifacts through low operation costs. In addition, a regularization term is used to accurately extract stripe artifacts in sinograms, so that the network can better preserve image details while accurately separating artifacts. When applied to simulation and experimental data, the proposed method shows a good suppression of ring artifacts. To solve the problem of insufficient training data, ResNet is trained through the transfer learning strategy, which brings advantages of robustness, versatility and low computing cost.
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Affiliation(s)
- Tianyu Fu
- Beijing Synchrotron Radiation Facility, X-ray Optics and Technology Laboratory, Institute of High Energy Physics, Chinese Academy of Sciences, Yuquan Road, Shijingshan District, Beijing 010000, People's Republic of China
| | - Yan Wang
- Beijing Synchrotron Radiation Facility, X-ray Optics and Technology Laboratory, Institute of High Energy Physics, Chinese Academy of Sciences, Yuquan Road, Shijingshan District, Beijing 010000, People's Republic of China
| | - Kai Zhang
- Beijing Synchrotron Radiation Facility, X-ray Optics and Technology Laboratory, Institute of High Energy Physics, Chinese Academy of Sciences, Yuquan Road, Shijingshan District, Beijing 010000, People's Republic of China
| | - Jin Zhang
- Beijing Synchrotron Radiation Facility, X-ray Optics and Technology Laboratory, Institute of High Energy Physics, Chinese Academy of Sciences, Yuquan Road, Shijingshan District, Beijing 010000, People's Republic of China
| | - Shanfeng Wang
- Beijing Synchrotron Radiation Facility, X-ray Optics and Technology Laboratory, Institute of High Energy Physics, Chinese Academy of Sciences, Yuquan Road, Shijingshan District, Beijing 010000, People's Republic of China
| | - Wanxia Huang
- Beijing Synchrotron Radiation Facility, X-ray Optics and Technology Laboratory, Institute of High Energy Physics, Chinese Academy of Sciences, Yuquan Road, Shijingshan District, Beijing 010000, People's Republic of China
| | - Yaling Wang
- CAS Key Laboratory for Biomedical Effects of Nanomedicines and Nanosafety and CAS Center for Excellence in Nanoscience, National Center for Nanoscience and Technology of China, Beijing 100190, People's Republic of China
| | - Chunxia Yao
- Beijing Synchrotron Radiation Facility, X-ray Optics and Technology Laboratory, Institute of High Energy Physics, Chinese Academy of Sciences, Yuquan Road, Shijingshan District, Beijing 010000, People's Republic of China
| | - Chenpeng Zhou
- Beijing Synchrotron Radiation Facility, X-ray Optics and Technology Laboratory, Institute of High Energy Physics, Chinese Academy of Sciences, Yuquan Road, Shijingshan District, Beijing 010000, People's Republic of China
| | - Qingxi Yuan
- Beijing Synchrotron Radiation Facility, X-ray Optics and Technology Laboratory, Institute of High Energy Physics, Chinese Academy of Sciences, Yuquan Road, Shijingshan District, Beijing 010000, People's Republic of China
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4
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Zhang C, Zhang K, Cui Y, Guo Y, Wang C, Xu C, Yao Q, Zhao Y, Chen C, Wang Y. Multifunctional Nanoprobe for 3D Nanoresolution Imaging of Intact Cell HER2 Protein with Hard X-ray Tomography. Anal Chem 2023; 95:2129-2133. [PMID: 36576397 DOI: 10.1021/acs.analchem.2c03699] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/29/2022]
Abstract
Three-dimensional nondestructive, nanoresolution, and in situ visualization of protein spatial localization in a large, thick single cell remains challenging. In this study, we designed a multifunctional iron oxide (Fe@BFK) nanoprobe that possesses fluorescence and hard X-ray imaging signals. This probe can specifically target the human epidermal growth factor receptor 2 (HER2) protein and help optimize the label condition and selection of suitable samples for X-ray imaging. Combining 30 nm resolution synchrotron radiation hard X-ray nanocomputed tomography and the X-ray-sensitive Fe@BFK nanoprobe, a 3D localization of HER2 on SK-BR-3 cells was obtained for the first time. HER2 was mainly localized and cluster-distributed on the cell membrane with a heterogeneous pattern. This study provides a novel method for the in situ and nondestructive synchrotron radiation imaging of the desired protein localization in large, thick cells and evaluation of the true cellular distribution of a nanoprobe with high resolution.
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Affiliation(s)
- Chunyu Zhang
- School of Pharmacy and Pharmaceutical Sciences & Institute of Materia Medica, Shandong First Medical University & Shandong Academy of Medical Sciences, NHC Key Laboratory of Biotechnology Drugs (Shandong Academy of Medical Sciences), Key Lab Rare & Uncommon Diseases of Shandong Province, Jinan 250117, Shandong China
| | - Kai Zhang
- Beijing Synchrotron Radiation Facility, Institute of High Energy Physics, Chinese Academy of Sciences, Beijing 100049, China
| | - Yanyan Cui
- Beijing Engineering Research Center of Mixed Reality and Advanced Display, School of Optoelectronics, Beijing Institute of Technology, Beijing 100081, China
| | - Yuecong Guo
- CAS Key Laboratory for Biomedical Effects of Nanomaterials and Nanosafety and CAS Center for Excellence in Nanoscience National Center for Nanoscience and Technology of China, Beijing 100090, China
| | - Chuan Wang
- The GBA National Institute for Nanotechnology Innovation, Guangzhou 510700, China
| | - Chao Xu
- College of Chemistry and Material Science, Shandong Agricultural University, Taian 271018, China
| | - Qingqiang Yao
- School of Pharmacy and Pharmaceutical Sciences & Institute of Materia Medica, Shandong First Medical University & Shandong Academy of Medical Sciences, NHC Key Laboratory of Biotechnology Drugs (Shandong Academy of Medical Sciences), Key Lab Rare & Uncommon Diseases of Shandong Province, Jinan 250117, Shandong China
| | - Yuliang Zhao
- CAS Key Laboratory for Biomedical Effects of Nanomaterials and Nanosafety and CAS Center for Excellence in Nanoscience National Center for Nanoscience and Technology of China, Beijing 100090, China
| | - Chunying Chen
- CAS Key Laboratory for Biomedical Effects of Nanomaterials and Nanosafety and CAS Center for Excellence in Nanoscience National Center for Nanoscience and Technology of China, Beijing 100090, China.,The GBA National Institute for Nanotechnology Innovation, Guangzhou 510700, China
| | - Yaling Wang
- CAS Key Laboratory for Biomedical Effects of Nanomaterials and Nanosafety and CAS Center for Excellence in Nanoscience National Center for Nanoscience and Technology of China, Beijing 100090, China.,The GBA National Institute for Nanotechnology Innovation, Guangzhou 510700, China
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5
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Li F, Zhao Y, Wang P, Tang K, Zheng L. Comparison of X-ray Radiant Power Absolute Measurement between a Free-Air Ionization Chamber and a Cryogenic Electrical Substitution Radiometer. SENSORS (BASEL, SWITZERLAND) 2023; 23:1006. [PMID: 36679803 PMCID: PMC9864874 DOI: 10.3390/s23021006] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 12/04/2022] [Revised: 01/11/2023] [Accepted: 01/12/2023] [Indexed: 06/17/2023]
Abstract
Absolute measurement of radiant power in the X-ray region is essential for many applications in astrophysics, spectroscopy, and X-ray diagnostics. Comparison between different measuring methods is an effective way to check their reliability. In the present work, a comparison of X-ray radiant power absolute measurement between a free-air ionization chamber and a cryogenic electrical substitution radiometer was performed at Beijing Synchrotron Radiation Facility. The absolute radiant power obtained by these two methods were mutually compared via a transfer standard detector's spectral responsivity at a photon energy of 10 keV. The result of the comparison showed that the difference was 0.47%. A conclusion was reached that the free-air ionization chamber and the cryogenic electrical substitution radiometer agreed within the combined relative uncertainty of 3.35%.
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Affiliation(s)
- Fan Li
- Institute of High Energy Physics, Chinese Academy of Sciences, Beijing 100049, China
- National Institute of Metrology, Beijing 100029, China
| | - Yidong Zhao
- Institute of High Energy Physics, Chinese Academy of Sciences, Beijing 100049, China
| | - Peiwei Wang
- National Institute of Metrology, Beijing 100029, China
| | - Kun Tang
- Institute of High Energy Physics, Chinese Academy of Sciences, Beijing 100049, China
| | - Lei Zheng
- Institute of High Energy Physics, Chinese Academy of Sciences, Beijing 100049, China
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6
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Cao M, Zhang K, Zhang S, Wang Y, Chen C. Advanced Light Source Analytical Techniques for Exploring the Biological Behavior and Fate of Nanomedicines. ACS CENTRAL SCIENCE 2022; 8:1063-1080. [PMID: 36032763 PMCID: PMC9413437 DOI: 10.1021/acscentsci.2c00680] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/09/2022] [Indexed: 05/09/2023]
Abstract
Exploration of the biological behavior and fate of nanoparticles, as affected by the nanomaterial-biology (nano-bio) interaction, has become progressively critical for guiding the rational design and optimization of nanomedicines to minimize adverse effects, support clinical translation, and aid in evaluation by regulatory agencies. Because of the complexity of the biological environment and the dynamic variations in the bioactivity of nanomedicines, in-situ, label-free analysis of the transport and transformation of nanomedicines has remained a challenge. Recent improvements in optics, detectors, and light sources have allowed the expansion of advanced light source (ALS) analytical technologies to dig into the underexplored behavior and fate of nanomedicines in vivo. It is increasingly important to further develop ALS-based analytical technologies with higher spatial and temporal resolution, multimodal data fusion, and intelligent prediction abilities to fully unlock the potential of nanomedicines. In this Outlook, we focus on several selected ALS analytical technologies, including imaging and spectroscopy, and provide an overview of the emerging opportunities for their applications in the exploration of the biological behavior and fate of nanomedicines. We also discuss the challenges and limitations faced by current approaches and tools and the expectations for the future development of advanced light sources and technologies. Improved ALS imaging and spectroscopy techniques will accelerate a profound understanding of the biological behavior of new nanomedicines. Such advancements are expected to inspire new insights into nanomedicine research and promote the development of ALS capabilities and methods more suitable for nanomedicine evaluation with the goal of clinical translation.
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Affiliation(s)
- Mingjing Cao
- CAS
Key Laboratory for Biomedical Effects of Nanomedicines and Nanosafety
& CAS Center for Excellence in Nanoscience, National Center for Nanoscience and Technology of China, Beijing 100190, China
| | - Kai Zhang
- Beijing
Synchrotron Radiation Facility, Institute
of High Energy Physics, Chinese Academy of Sciences, Beijing 100049, China
| | - Shuhan Zhang
- CAS
Key Laboratory for Biomedical Effects of Nanomedicines and Nanosafety
& CAS Center for Excellence in Nanoscience, National Center for Nanoscience and Technology of China, Beijing 100190, China
| | - Yaling Wang
- CAS
Key Laboratory for Biomedical Effects of Nanomedicines and Nanosafety
& CAS Center for Excellence in Nanoscience, National Center for Nanoscience and Technology of China, Beijing 100190, China
- The
GBA National Institute for Nanotechnology Innovation, Guangzhou 510700, China
| | - Chunying Chen
- CAS
Key Laboratory for Biomedical Effects of Nanomedicines and Nanosafety
& CAS Center for Excellence in Nanoscience, National Center for Nanoscience and Technology of China, Beijing 100190, China
- The
GBA National Institute for Nanotechnology Innovation, Guangzhou 510700, China
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7
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Song L, Patil S, Song Y, Chen L, Tian F, Chen L, Li X, Li L, Cheng S. Nanoparticle Clustering and Viscoelastic Properties of Polymer Nanocomposites with Non-Attractive Polymer–Nanoparticle Interactions. Macromolecules 2022. [DOI: 10.1021/acs.macromol.2c00689] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Lixian Song
- State Key Laboratory of Environment-Friendly Energy Materials, School of Materials Science and Engineering, Southwest University of Science and Technology, Mianyang, Sichuan 621010, PR China
| | - Shalin Patil
- Department of Chemical Engineering and Materials Science, Michigan State University, East Lansing, Michigan 48824, United States
| | - Yingze Song
- State Key Laboratory of Environment-Friendly Energy Materials, School of Materials Science and Engineering, Southwest University of Science and Technology, Mianyang, Sichuan 621010, PR China
| | - Liang Chen
- National Synchrotron Radiation Lab and CAS Key Laboratory of Soft Matter Chemistry, University of Science and Technology of China, Hefei, Anhui 230026, China
| | - Fucheng Tian
- National Synchrotron Radiation Lab and CAS Key Laboratory of Soft Matter Chemistry, University of Science and Technology of China, Hefei, Anhui 230026, China
| | - Le Chen
- State Key Laboratory of Environment-Friendly Energy Materials, School of Materials Science and Engineering, Southwest University of Science and Technology, Mianyang, Sichuan 621010, PR China
| | - Xueyu Li
- National Synchrotron Radiation Lab and CAS Key Laboratory of Soft Matter Chemistry, University of Science and Technology of China, Hefei, Anhui 230026, China
| | - Liangbin Li
- National Synchrotron Radiation Lab and CAS Key Laboratory of Soft Matter Chemistry, University of Science and Technology of China, Hefei, Anhui 230026, China
| | - Shiwang Cheng
- Department of Chemical Engineering and Materials Science, Michigan State University, East Lansing, Michigan 48824, United States
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8
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Fu T, Zhang K, Wang Y, Wang S, Zhang J, Yao C, Zhou C, Huang W, Yuan Q. Feature detection network-based correction method for accurate nano-tomography reconstruction. APPLIED OPTICS 2022; 61:5695-5703. [PMID: 36255800 DOI: 10.1364/ao.462113] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/27/2022] [Accepted: 06/08/2022] [Indexed: 06/16/2023]
Abstract
Driven by the development of advanced x-ray optics such as Fresnel zone plates, nano-resolution full-field transmission x-ray microscopy (Nano-CT) has become a powerful technique for the non-destructive volumetric inspection of objects and has long been developed at different synchrotron radiation facilities. However, Nano-CT data are often associated with random sample jitter because of the drift or radial/axial error motion of the rotation stage during measurement. Without a proper sample jitter correction process prior to reconstruction, the use of Nano-CT in providing accurate 3D structure information for samples is almost impossible. In this paper, to realize accurate 3D reconstruction for Nano-CT, a correction method based on a feature detection neural network, which can automatically extract target features from a projective image and precisely correct sample jitter errors, is proposed, thereby resulting in high-quality nanoscale 3D reconstruction. Compared with other feature detection methods, even if the target feature is overlapped by other high-density materials or impurities, the proposed Nano-CT correction method still acquires sub-pixel accuracy in geometrical correction and is more suitable for Nano-CT reconstruction because of its universal and faster correction speed. The simulated and experimental datasets demonstrated the reliability and validity of the proposed Nano-CT correction method.
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Fu T, Zhang K, Wang Y, Li J, Zhang J, Yao C, He Q, Wang S, Huang W, Yuan Q, Pianetta P, Liu Y. Deep-learning-based image registration for nano-resolution tomographic reconstruction. JOURNAL OF SYNCHROTRON RADIATION 2021; 28:1909-1915. [PMID: 34738945 DOI: 10.1107/s1600577521008481] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/06/2021] [Accepted: 08/15/2021] [Indexed: 06/13/2023]
Abstract
Nano-resolution full-field transmission X-ray microscopy has been successfully applied to a wide range of research fields thanks to its capability of non-destructively reconstructing the 3D structure with high resolution. Due to constraints in the practical implementations, the nano-tomography data is often associated with a random image jitter, resulting from imperfections in the hardware setup. Without a proper image registration process prior to the reconstruction, the quality of the result will be compromised. Here a deep-learning-based image jitter correction method is presented, which registers the projective images with high efficiency and accuracy, facilitating a high-quality tomographic reconstruction. This development is demonstrated and validated using synthetic and experimental datasets. The method is effective and readily applicable to a broad range of applications. Together with this paper, the source code is published and adoptions and improvements from our colleagues in this field are welcomed.
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Affiliation(s)
- Tianyu Fu
- Beijing Synchrotron Radiation Facility, X-ray Optics and Technology Laboratory, Institute of High Energy Physics, Chinese Academy of Sciences, Yuquan Road, Shijingshan District, Beijing 100043, People's Republic of China
| | - Kai Zhang
- Beijing Synchrotron Radiation Facility, X-ray Optics and Technology Laboratory, Institute of High Energy Physics, Chinese Academy of Sciences, Yuquan Road, Shijingshan District, Beijing 100043, People's Republic of China
| | - Yan Wang
- Beijing Synchrotron Radiation Facility, X-ray Optics and Technology Laboratory, Institute of High Energy Physics, Chinese Academy of Sciences, Yuquan Road, Shijingshan District, Beijing 100043, People's Republic of China
| | - Jizhou Li
- Stanford Synchrotron Radiation Lightsource, SLAC National Accelerator Laboratory, Menlo Park, CA 94025, USA
| | - Jin Zhang
- Beijing Synchrotron Radiation Facility, X-ray Optics and Technology Laboratory, Institute of High Energy Physics, Chinese Academy of Sciences, Yuquan Road, Shijingshan District, Beijing 100043, People's Republic of China
| | - Chunxia Yao
- Beijing Synchrotron Radiation Facility, X-ray Optics and Technology Laboratory, Institute of High Energy Physics, Chinese Academy of Sciences, Yuquan Road, Shijingshan District, Beijing 100043, People's Republic of China
| | - Qili He
- Beijing Synchrotron Radiation Facility, X-ray Optics and Technology Laboratory, Institute of High Energy Physics, Chinese Academy of Sciences, Yuquan Road, Shijingshan District, Beijing 100043, People's Republic of China
| | - Shanfeng Wang
- Beijing Synchrotron Radiation Facility, X-ray Optics and Technology Laboratory, Institute of High Energy Physics, Chinese Academy of Sciences, Yuquan Road, Shijingshan District, Beijing 100043, People's Republic of China
| | - Wanxia Huang
- Beijing Synchrotron Radiation Facility, X-ray Optics and Technology Laboratory, Institute of High Energy Physics, Chinese Academy of Sciences, Yuquan Road, Shijingshan District, Beijing 100043, People's Republic of China
| | - Qingxi Yuan
- Beijing Synchrotron Radiation Facility, X-ray Optics and Technology Laboratory, Institute of High Energy Physics, Chinese Academy of Sciences, Yuquan Road, Shijingshan District, Beijing 100043, People's Republic of China
| | - Piero Pianetta
- Stanford Synchrotron Radiation Lightsource, SLAC National Accelerator Laboratory, Menlo Park, CA 94025, USA
| | - Yijin Liu
- Stanford Synchrotron Radiation Lightsource, SLAC National Accelerator Laboratory, Menlo Park, CA 94025, USA
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10
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Chen L, Wu L, Song L, Xia Z, Lin Y, Chen W, Li L. The recovery of nano-sized carbon black filler structure and its contribution to stress recovery in rubber nanocomposites. NANOSCALE 2020; 12:24527-24542. [PMID: 33320147 DOI: 10.1039/d0nr06003h] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/12/2023]
Abstract
The hierarchical structural evolution of natural rubber (NR) filled with different contents of nanoscale carbon black (CB) (10 phr-CB10 and 50 phr-CB50) after first loading and recovering for different times was investigated by X-ray nano-CT, wide-angle X-ray scattering (WAXS) and solid state NMR techniques. The CB filler structures as captured by X-ray nano-CT recover gradually with increasing recovering time, but the filler network with different CB contents shows dramatically different structure evolution. For CB10, limited by the filling content, CB particles mainly induces a hydrodynamic effect in spite of deformation or recovering. For CB50, the CB filler forms a 3D connected network, partially destructed during deformation, and the destructed part can be partially recovered during recovery. This suggests that the connected CB filler structure mainly acts as a network reinforcement, whereas the destructed part can induce a hydrodynamic effect. The different effects induced by different CB filling contents are also reflected by the NR matrix, which is reflected by the onset strains εc of strain-induced crystallization (SIC) of NR as captured by WAXS. For CB10, εc remains almost constant, i.e. εc = ca. 1.49, while that of NR with CB50 slightly decreases from initial ca. 1.12 to 0.96 with increasing recovering time up to 50 h. Also, the bound rubber fraction and entangled rubber network remain unchanged after deformation and under different recovery time as detected by the magic sandwich echo (MSE) FID and proton multiple quantum (MQ) NMR. These results demonstrate the key role of the CB filler network in determining the stress-softening behavior of reinforced rubber.
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Affiliation(s)
- Liang Chen
- National Synchrotron Radiation Lab and CAS Key Laboratory of Soft Matter Chemistry, Anhui Provincial Engineering Laboratory of Advanced Functional Polymer Film, University of Science and Technology of China, Hefei, 230029, China.
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11
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Yu GH, Chi ZL, Kappler A, Sun FS, Liu CQ, Teng HH, Gadd GM. Fungal Nanophase Particles Catalyze Iron Transformation for Oxidative Stress Removal and Iron Acquisition. Curr Biol 2020; 30:2943-2950.e4. [DOI: 10.1016/j.cub.2020.05.058] [Citation(s) in RCA: 21] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/10/2020] [Revised: 04/30/2020] [Accepted: 05/18/2020] [Indexed: 12/16/2022]
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12
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Chen L, Wu L, Liu Y, Chen W. In situ observation of void evolution in 1,3,5-triamino-2,4,6-trinitrobenzene under compression by synchrotron radiation X-ray nano-computed tomography. JOURNAL OF SYNCHROTRON RADIATION 2020; 27:127-133. [PMID: 31868745 DOI: 10.1107/s1600577519014309] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/26/2019] [Accepted: 10/21/2019] [Indexed: 06/10/2023]
Abstract
The formation and development of voids in 1,3,5-triamino-2,4,6-trinitrobenzene crystals under compression were characterized in situ by X-ray nano-computed tomography. Benefiting from high spatial resolution (30 nm) and excellent imaging contrast, the X-ray nano-computed tomography images revealed the presence of a small fraction of inhomogeneous structures in the original crystal (volume ratio ∼1.2%). Such an inhomogeneity acts as a nucleation of voids and produces stress concentration during compression, which leads to continuous growth of the voids under loading. Meanwhile, the results further reveal that the developing voids are not isotropic: voids with higher surface roughness and irregular structures are easier to break and form new micro-voids. These new voids with higher irregular structures are weaker and easier to break into smaller ones compared with the originals, leading to the development of voids along these weak zones. Finally large voids form. The experiments allow direct investigation of void formation and development, which helps in studying the mechanisms of void development and energetic materials deterioration during manufacturing and transporting.
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Affiliation(s)
- Liang Chen
- National Synchrotron Radiation Anhui Provincial Engineering Laboratory of Advanced Functional Polymer Film, CAS Key Laboratory of Soft Matter Chemistry, University of Science and Technology of China, Hefei, Anhui 230029, People's Republic of China
| | - Lihui Wu
- National Synchrotron Radiation Anhui Provincial Engineering Laboratory of Advanced Functional Polymer Film, CAS Key Laboratory of Soft Matter Chemistry, University of Science and Technology of China, Hefei, Anhui 230029, People's Republic of China
| | - Yu Liu
- Institute of Chemical Materials, China Academy of Engineering Physics, Mianyang, Sichuan 621900, People's Republic of China
| | - Wei Chen
- National Synchrotron Radiation Anhui Provincial Engineering Laboratory of Advanced Functional Polymer Film, CAS Key Laboratory of Soft Matter Chemistry, University of Science and Technology of China, Hefei, Anhui 230029, People's Republic of China
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13
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Tang K, Zheng L, Zhao YD, Liu SH, Ma CY, Dong YH. A micro-focusing and high-flux-throughput beamline design using a bending magnet for microscopic XAFS at the High Energy Photon Source. JOURNAL OF SYNCHROTRON RADIATION 2019; 26:1835-1842. [PMID: 31490178 DOI: 10.1107/s160057751900715x] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/01/2019] [Accepted: 05/16/2019] [Indexed: 06/10/2023]
Abstract
An optical design study of a bending-magnet beamline, based on multi-bend achromat storage ring lattices, at the High Energy Photon Source, to be built in Beijing, China, is described. The main purpose of the beamline design is to produce a micro-scale beam from a bending-magnet source with little flux loss through apertures. To maximize the flux of the focal spot, the synchrotron source will be 1:1 imaged to a virtual source by a toroidal mirror; a mirror pair will be used to collimate the virtual source into quasi-parallel light which will be refocused by a Kirkpatrick-Baez mirror pair. In the case presented here, a beamline for tender X-rays ranging from 2.1 keV to 7.8 keV, with a spot size of approximately 7 µm (H) × 6 µm (V) and flux up to 2 × 1012 photons s-1, can be achieved for the purpose of X-ray absorption fine-structure (XAFS)-related experiments, such as scanning micro-XAFS and full-field nano-XAFS.
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Affiliation(s)
- Kun Tang
- Institute of High Energy Physics, 19B Yuquan Road, Shijingshan District, Beijing, People's Republic of China
| | - Lei Zheng
- Institute of High Energy Physics, 19B Yuquan Road, Shijingshan District, Beijing, People's Republic of China
| | - Yi Dong Zhao
- Institute of High Energy Physics, 19B Yuquan Road, Shijingshan District, Beijing, People's Republic of China
| | - Shu Hu Liu
- Institute of High Energy Physics, 19B Yuquan Road, Shijingshan District, Beijing, People's Republic of China
| | - Chen Yan Ma
- Institute of High Energy Physics, 19B Yuquan Road, Shijingshan District, Beijing, People's Republic of China
| | - Yu Hui Dong
- Institute of High Energy Physics, 19B Yuquan Road, Shijingshan District, Beijing, People's Republic of China
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14
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Liu J, Liang Z, Guan Y, Wei W, Bai H, Chen L, Liu G, Tian Y. A modified discrete tomography for improving the reconstruction of unknown multi-gray-level material in the `missing wedge' situation. JOURNAL OF SYNCHROTRON RADIATION 2018; 25:1847-1859. [PMID: 30407198 DOI: 10.1107/s1600577518013681] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/13/2018] [Accepted: 09/25/2018] [Indexed: 06/08/2023]
Abstract
Full angular rotational projections cannot always be acquired in tomographic reconstructions because of the limited space in the experimental setup, leading to the `missing wedge' situation. In this paper, a recovering `missing wedge' discrete algebraic reconstruction technique algorithm (rmwDART) has been proposed to solve the `missing wedge' problem and improve the quality of the three-dimensional reconstruction without prior knowledge of the material component's number or the material's values. By using oversegmentation, boundary extraction and mathematical morphological operations, `missing wedge' artifact areas can be located. Then, in the iteration process, by updating the located areas and regions, high-quality reconstructions can be obtained from the simulations, and the reconstructed images based on the rmwDART algorithm can be obtained from soft X-ray nano-computed tomography experiments. The results showed that there is the potential for discrete tomography.
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Affiliation(s)
- Jianhong Liu
- National Synchrotron Radiation Laboratory, University of Science and Technology of China, 3#222, No. 42 Hezuohua South Road, Hefei, Anhui 230029, People's Republic of China
| | - Zhiting Liang
- National Synchrotron Radiation Laboratory, University of Science and Technology of China, 3#222, No. 42 Hezuohua South Road, Hefei, Anhui 230029, People's Republic of China
| | - Yong Guan
- National Synchrotron Radiation Laboratory, University of Science and Technology of China, 3#222, No. 42 Hezuohua South Road, Hefei, Anhui 230029, People's Republic of China
| | - Wenbin Wei
- National Synchrotron Radiation Laboratory, University of Science and Technology of China, 3#222, No. 42 Hezuohua South Road, Hefei, Anhui 230029, People's Republic of China
| | - Haobo Bai
- National Synchrotron Radiation Laboratory, University of Science and Technology of China, 3#222, No. 42 Hezuohua South Road, Hefei, Anhui 230029, People's Republic of China
| | - Liang Chen
- National Synchrotron Radiation Laboratory, University of Science and Technology of China, 3#222, No. 42 Hezuohua South Road, Hefei, Anhui 230029, People's Republic of China
| | - Gang Liu
- National Synchrotron Radiation Laboratory, University of Science and Technology of China, 3#222, No. 42 Hezuohua South Road, Hefei, Anhui 230029, People's Republic of China
| | - Yangchao Tian
- National Synchrotron Radiation Laboratory, University of Science and Technology of China, 3#222, No. 42 Hezuohua South Road, Hefei, Anhui 230029, People's Republic of China
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15
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Wang Z, Liu D, Zhang J, Huang W, Yuan Q, Gao K, Wu Z. Absorption, refraction and scattering retrieval in X-ray analyzer-based imaging. JOURNAL OF SYNCHROTRON RADIATION 2018; 25:1206-1213. [PMID: 29979183 DOI: 10.1107/s1600577518007439] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/11/2018] [Accepted: 05/17/2018] [Indexed: 06/08/2023]
Abstract
A three-image algorithm is proposed in order to retrieve the absorption, refraction and ultra-small-angle X-ray scattering (USAXS) properties of the object in X-ray analyzer-based imaging. Based on the Gaussian fitting to the rocking curve, the novel algorithm is theoretically derived and presented, and validated by synchrotron radiation experiments. Compared with multiple-image radiography, this algorithm only requires a minimum of three intensity measurements, and is therefore advantageous in terms of simplified acquisition procedure and reduced data collection times, which are especially important for specific applications such as in vivo imaging and phase tomography. Moreover, the retrieval algorithm can be specialized to particular cases where some degree of a priori knowledge on the object is available, potentially reducing the minimum number of intensity measurements to two. Furthermore, the effect of angular mis-alignment on the accuracy of the retrieved images was theoretically investigated, which can be of use in image interpretation and optimization of the data acquisition procedure.
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Affiliation(s)
- Zhili Wang
- School of Electronics and Applied Physics, Hefei University of Technology, Hefei, Anhui 230009, People's Republic of China
| | - Dalin Liu
- School of Electronics and Applied Physics, Hefei University of Technology, Hefei, Anhui 230009, People's Republic of China
| | - Jin Zhang
- Institute of High Energy Physics, Chinese Academy of Science, Beijing 100049, People's Republic of China
| | - Wanxia Huang
- Institute of High Energy Physics, Chinese Academy of Science, Beijing 100049, People's Republic of China
| | - Qingxi Yuan
- Institute of High Energy Physics, Chinese Academy of Science, Beijing 100049, People's Republic of China
| | - Kun Gao
- National Synchrotron Radiation Laboratory, University of Science and Technology of China, Anhui 230026, People's Republic of China
| | - Zhao Wu
- National Synchrotron Radiation Laboratory, University of Science and Technology of China, Anhui 230026, People's Republic of China
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16
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Wang L, Yan L, Liu J, Chen C, Zhao Y. Quantification of Nanomaterial/Nanomedicine Trafficking in Vivo. Anal Chem 2017; 90:589-614. [DOI: 10.1021/acs.analchem.7b04765] [Citation(s) in RCA: 63] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/30/2022]
Affiliation(s)
- Liming Wang
- CAS
Key Laboratory for Biomedical Effects of Nanomaterials & Nanosafety,
Institute of High Energy Physics, Chinese Academy of Sciences, Beijing 100049, China
| | - Liang Yan
- CAS
Key Laboratory for Biomedical Effects of Nanomaterials & Nanosafety,
Institute of High Energy Physics, Chinese Academy of Sciences, Beijing 100049, China
| | - Jing Liu
- The
College of Life Sciences, Northwest University, Xi’an, Shaanxi 710069, China
| | - Chunying Chen
- CAS
Key Laboratory for Biomedical Effects of Nanomaterials & Nanosafety,
CAS Center for Excellence in Nanoscience, National Center for Nanoscience and Technology of China, Beijing 100190, China
| | - Yuliang Zhao
- CAS
Key Laboratory for Biomedical Effects of Nanomaterials & Nanosafety,
Institute of High Energy Physics, Chinese Academy of Sciences, Beijing 100049, China
- CAS
Key Laboratory for Biomedical Effects of Nanomaterials & Nanosafety,
CAS Center for Excellence in Nanoscience, National Center for Nanoscience and Technology of China, Beijing 100190, China
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17
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Fella C, Balles A, Hanke R, Last A, Zabler S. Hybrid setup for micro- and nano-computed tomography in the hard X-ray range. THE REVIEW OF SCIENTIFIC INSTRUMENTS 2017; 88:123702. [PMID: 29289168 DOI: 10.1063/1.5011042] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/07/2023]
Abstract
With increasing miniaturization in industry and medical technology, non-destructive testing techniques are an area of ever-increasing importance. In this framework, X-ray microscopy offers an efficient tool for the analysis, understanding, and quality assurance of microscopic samples, in particular as it allows reconstructing three-dimensional data sets of the whole sample's volume via computed tomography (CT). The following article describes a compact X-ray microscope in the hard X-ray regime around 9 keV, based on a highly brilliant liquid-metal-jet source. In comparison to commercially available instruments, it is a hybrid that works in two different modes. The first one is a micro-CT mode without optics, which uses a high-resolution detector to allow scans of samples in the millimeter range with a resolution of 1 μm. The second mode is a microscope, which contains an X-ray optical element to magnify the sample and allows resolving 150 nm features. Changing between the modes is possible without moving the sample. Thus, the instrument represents an important step towards establishing high-resolution laboratory-based multi-mode X-ray microscopy as a standard investigation method.
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Affiliation(s)
- Christian Fella
- Chair for X-ray Microscopy, Julius-Maximilians-Universität Würzburg, 97074 Würzburg, Germany
| | - Andreas Balles
- Chair for X-ray Microscopy, Julius-Maximilians-Universität Würzburg, 97074 Würzburg, Germany
| | - Randolf Hanke
- Chair for X-ray Microscopy, Julius-Maximilians-Universität Würzburg, 97074 Würzburg, Germany
| | - Arndt Last
- Karlsruhe Institute of Technology, Institute of Microstructure Technology (KIT/IMT), 76344 Eggenstein-Leopoldshafen, Germany
| | - Simon Zabler
- Chair for X-ray Microscopy, Julius-Maximilians-Universität Würzburg, 97074 Würzburg, Germany
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18
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Song L, Wang Z, Tang X, Chen L, Chen P, Yuan Q, Li L. Visualizing the Toughening Mechanism of Nanofiller with 3D X-ray Nano-CT: Stress-Induced Phase Separation of Silica Nanofiller and Silicone Polymer Double Networks. Macromolecules 2017. [DOI: 10.1021/acs.macromol.7b00539] [Citation(s) in RCA: 33] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
Affiliation(s)
- Lixian Song
- National
Synchrotron Radiation Lab and CAS Key Laboratory of Soft Matter Chemistry, University of Science and Technology of China, Hefei 230026, People’s Republic of China
- State
Key Laboratory Cultivation
Base for Nonmetal Composites and Functional Materials, Southwest University of Science and Technology, Mianyang 621010, Sichuan, People’s Republic of China
| | - Zhen Wang
- National
Synchrotron Radiation Lab and CAS Key Laboratory of Soft Matter Chemistry, University of Science and Technology of China, Hefei 230026, People’s Republic of China
| | - Xiaoliang Tang
- National
Synchrotron Radiation Lab and CAS Key Laboratory of Soft Matter Chemistry, University of Science and Technology of China, Hefei 230026, People’s Republic of China
| | - Liang Chen
- National
Synchrotron Radiation Lab and CAS Key Laboratory of Soft Matter Chemistry, University of Science and Technology of China, Hefei 230026, People’s Republic of China
| | - Pinzhang Chen
- National
Synchrotron Radiation Lab and CAS Key Laboratory of Soft Matter Chemistry, University of Science and Technology of China, Hefei 230026, People’s Republic of China
| | - Qingxi Yuan
- Beijing
Synchrotron Radiation Facility, Institute of High Energy Physics, Chinese Academy of Sciences, Beijing 100049, People’s Republic of China
| | - Liangbin Li
- National
Synchrotron Radiation Lab and CAS Key Laboratory of Soft Matter Chemistry, University of Science and Technology of China, Hefei 230026, People’s Republic of China
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19
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Otón J, Pereiro E, Pérez-Berná AJ, Millach L, Sorzano COS, Marabini R, Carazo JM. Characterization of transfer function, resolution and depth of field of a soft X-ray microscope applied to tomography enhancement by Wiener deconvolution. BIOMEDICAL OPTICS EXPRESS 2016; 7:5092-5103. [PMID: 28018727 PMCID: PMC5175554 DOI: 10.1364/boe.7.005092] [Citation(s) in RCA: 25] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/13/2016] [Revised: 10/18/2016] [Accepted: 10/22/2016] [Indexed: 05/05/2023]
Abstract
Full field soft X-ray microscopy is becoming a powerful imaging technique to analyze whole cells preserved under cryo conditions. Images obtained in these X-ray microscopes can be combined by tomographic reconstruction to quantitatively estimate the three-dimensional (3D) distribution of absorption coefficients inside the cell. The impulse response of an imaging system is one of the factors that limits the quality of the X-ray microscope reconstructions. The main goal of this work is to experimentally measure the 3D impulse response and to assess the optical resolution and depth of field of the Mistral microscope at ALBA synchrotron (Barcelona, Spain). To this end we measure the microscope apparent transfer function (ATF) and we use it to design a deblurring Wiener filter, obtaining an increase in the image quality when applied to experimental datasets collected at ALBA.
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Affiliation(s)
- Joaquín Otón
- Centro Nacional de Biotecnología (CNB-CSIC), Cantoblanco, 28049, Madrid,
Spain
| | - Eva Pereiro
- ALBA Synchrotron Light Source, Cerdanyola del Vallès, 08290, Barcelona,
Spain
| | - Ana J. Pérez-Berná
- ALBA Synchrotron Light Source, Cerdanyola del Vallès, 08290, Barcelona,
Spain
| | - Laia Millach
- Facultat de Biociències. Departament de Genètica i Microbiologia. UAB. Cerdanyola del Vallès, 08193, Barcelona,
Spain
| | | | - Roberto Marabini
- Escuela Politecnica Superior, Univ. Autonoma de Madrid, Cantoblanco, 28049, Madrid,
Spain
| | - José M. Carazo
- Centro Nacional de Biotecnología (CNB-CSIC), Cantoblanco, 28049, Madrid,
Spain
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20
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Park SY, Hong CK, Lim J. A method of hard X-ray phase-shifting digital holography. JOURNAL OF SYNCHROTRON RADIATION 2016; 23:1024-1029. [PMID: 27359152 DOI: 10.1107/s1600577516008729] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/23/2015] [Accepted: 05/30/2016] [Indexed: 06/06/2023]
Abstract
A new method of phase-shifting digital holography is demonstrated in the hard X-ray region. An in-line-type phase-shifting holography setup was installed in a 6.80 keV hard X-ray synchrotron beamline. By placing a phase plate consisting of a hole and a band at the focusing point of a Fresnel lens, the relative phase of the reference and objective beams could be successfully shifted for use with a three-step phase-shift algorithm. The system was verified by measuring the shape of a gold test pattern and a silica sphere.
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Affiliation(s)
- So Yeong Park
- Department of Physics, POSTECH, 77 Cheongam-Ro, Pohang, Kyoungbuk 37673, South Korea
| | - Chung Ki Hong
- Department of Physics, POSTECH, 77 Cheongam-Ro, Pohang, Kyoungbuk 37673, South Korea
| | - Jun Lim
- Beamline Division, Pohang Light Source, Pohang, Kyoungbuk 37673, South Korea
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21
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Liao K, Liu J, Liang H, Wu X, Zhang K, Yuan Q, Yi F, Sheng W. Sub-500 nm hard x ray focusing by compound long kinoform lenses. APPLIED OPTICS 2016; 55:38-41. [PMID: 26835618 DOI: 10.1364/ao.55.000038] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/05/2023]
Abstract
The focusing performance of polymethyl methacrylate compound long kinoform lenses with 70 μm aperture and 19.5 mm focal length was characterized with 8 keV x rays using the knife-edge scan method at the 4W1A transmission x-ray microscope beamline of Beijing Synchrotron Radiation Facility. The experiment result shows a best FWHM focus size of 440 nm with 31% diffraction efficiency.
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22
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Fu J, Li C, Liu Z. Analysis and Correction of Dynamic Geometric Misalignment for Nano-Scale Computed Tomography at BSRF. PLoS One 2015; 10:e0141682. [PMID: 26509552 PMCID: PMC4624801 DOI: 10.1371/journal.pone.0141682] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/25/2015] [Accepted: 10/12/2015] [Indexed: 11/24/2022] Open
Abstract
Due to its high spatial resolution, synchrotron radiation x-ray nano-scale computed tomography (nano-CT) is sensitive to misalignments in scanning geometry, which occurs quite frequently because of mechanical errors in manufacturing and assembly or from thermal expansion during the time-consuming scanning. Misalignments degrade the imaging results by imposing artifacts on the nano-CT slices. In this paper, the geometric misalignment of the synchrotron radiation nano-CT has been analyzed by partial derivatives on the CT reconstruction algorithm and a correction method, based on cross correlation and least-square sinusoidal fitting, has been reported. This work comprises a numerical study of the method and its experimental verification using a dataset measured with the full-field transmission x-ray microscope nano-CT at the beamline 4W1A of the Beijing Synchrotron Radiation Facility. The numerical and experimental results have demonstrated the validity of the proposed approach. It can be applied for dynamic geometric misalignment and needs neither phantom nor additional correction scanning. We expect that this method will simplify the experimental operation of synchrotron radiation nano-CT.
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Affiliation(s)
- Jian Fu
- Research center of digital radiation imaging, Beijing University of Aeronautics and Astronautics, Beijing, People's Republic of China
| | - Chen Li
- Research center of digital radiation imaging, Beijing University of Aeronautics and Astronautics, Beijing, People's Republic of China
| | - Zhenzhong Liu
- Research center of digital radiation imaging, Beijing University of Aeronautics and Astronautics, Beijing, People's Republic of China
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23
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Analysis and calibration of stage axial vibration for synchrotron radiation nanoscale computed tomography. Anal Bioanal Chem 2015; 407:7647-55. [PMID: 26265032 DOI: 10.1007/s00216-015-8922-9] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/16/2015] [Revised: 07/13/2015] [Accepted: 07/16/2015] [Indexed: 10/23/2022]
Abstract
Synchrotron radiation nanoscale computed tomography (SR nano-CT) is a powerful analysis tool and can be used to perform chemical identification, mapping, or speciation of carbon and other elements together with X-ray fluorescence and X-ray absorption near edge structure (XANES) imaging. In practical applications, there are often challenges for SR nano-CT due to the misaligned geometry caused by the sample stage axial vibration. It occurs quite frequently because of experimental constraints from the mechanical error of manufacturing and assembly and the thermal expansion during the time-consuming scanning. The axial vibration will lead to the structure overlap among neighboring layers and degrade imaging results by imposing artifacts into the nano-CT images. It becomes worse for samples with complicated axial structure. In this work, we analyze the influence of axial vibration on nano-CT image by partial derivative. Then, an axial vibration calibration method for SR nano-CT is developed and investigated. It is based on the cross correlation of plane integral curves of the sample at different view angles. This work comprises a numerical study of the method and its experimental verification using a dataset measured with the full-field transmission X-ray microscope nano-CT setup at the beamline 4W1A of the Beijing Synchrotron Radiation Facility. The results demonstrate that the presented method can handle the stage axial vibration. It can work for random axial vibration and needs neither calibration phantom nor additional calibration scanning. It will be helpful for the development and application of synchrotron radiation nano-CT systems.
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24
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Wang S, Wang D, Wu Q, Gao K, Wang Z, Wu Z. 3D imaging of a rice pollen grain using transmission X-ray microscopy. JOURNAL OF SYNCHROTRON RADIATION 2015; 22:1091-5. [PMID: 26134816 DOI: 10.1107/s1600577515009716] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/12/2015] [Accepted: 05/20/2015] [Indexed: 05/09/2023]
Abstract
For the first time, the three-dimensional (3D) ultrastructure of an intact rice pollen cell has been obtained using a full-field transmission hard X-ray microscope operated in Zernike phase contrast mode. After reconstruction and segmentation from a series of projection images, complete 3D structural information of a 35 µm rice pollen grain is presented at a resolution of ∼100 nm. The reconstruction allows a clear differentiation of various subcellular structures within the rice pollen grain, including aperture, lipid body, mitochondrion, nucleus and vacuole. Furthermore, quantitative information was obtained about the distribution of cytoplasmic organelles and the volume percentage of each kind of organelle. These results demonstrate that transmission X-ray microscopy can be quite powerful for non-destructive investigation of 3D structures of whole eukaryotic cells.
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Affiliation(s)
- Shengxiang Wang
- National Synchrotron Radiation Laboratory, University of Science and Technology of China, 42 Hezuohua South Road, Hefei, Anhui 230029, People's Republic of China
| | - Dajiang Wang
- National Synchrotron Radiation Laboratory, University of Science and Technology of China, 42 Hezuohua South Road, Hefei, Anhui 230029, People's Republic of China
| | - Qiao Wu
- Department of Biochemistry, School of Life Sciences, Fudan University, Shanghai 200433, People's Republic of China
| | - Kun Gao
- National Synchrotron Radiation Laboratory, University of Science and Technology of China, 42 Hezuohua South Road, Hefei, Anhui 230029, People's Republic of China
| | - Zhili Wang
- National Synchrotron Radiation Laboratory, University of Science and Technology of China, 42 Hezuohua South Road, Hefei, Anhui 230029, People's Republic of China
| | - Ziyu Wu
- Institute of High Energy Physics, Chinese Academy of Sciences, Beijing 100049, People's Republic of China
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25
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Chen H, Wang Z, Gao K, Hou Q, Wang D, Wu Z. Quantitative phase retrieval in X-ray Zernike phase contrast microscopy. JOURNAL OF SYNCHROTRON RADIATION 2015; 22:1056-61. [PMID: 26134811 DOI: 10.1107/s1600577515007699] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/11/2015] [Accepted: 04/19/2015] [Indexed: 05/20/2023]
Abstract
In recent years, increasing attention has been devoted to X-ray phase contrast imaging, since it can provide high-contrast images by using phase variations. Among the different existing techniques, Zernike phase contrast microscopy is one of the most popular phase-sensitive techniques for investigating the fine structure of the sample at high spatial resolution. In X-ray Zernike phase contrast microscopy, the image contrast is indeed a mixture of absorption and phase contrast. Therefore, this technique just provides qualitative information on the object, which makes the interpretation of the image difficult. In this contribution, an approach is proposed for quantitative phase retrieval in X-ray Zernike phase contrast microscopy. By shifting the phase of the direct light by π/2 and 3π/2, two images of the same object are measured successively. The phase information of the object can then be quantitatively retrieved by a proper combination of the measured images. Numerical experiments were carried out and the results confirmed the feasibility of the proposed method. It is expected that the proposed method will find widespread applications in biology, materials science and so on.
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Affiliation(s)
- Heng Chen
- Department of Physics, University of Science and Technology of China, Hefei, Anhui 230026, People's Republic of China
| | - Zhili Wang
- National Synchrotron Radiation Laboratory, University of Science and Technology of China, Hefei, Anhui 230029, People's Republic of China
| | - Kun Gao
- National Synchrotron Radiation Laboratory, University of Science and Technology of China, Hefei, Anhui 230029, People's Republic of China
| | - Qiyue Hou
- Institute of Fluid Physics, China Academy of Engineering Physics, Mianyang, Sichuan 621900, People's Republic of China
| | - Dajiang Wang
- National Synchrotron Radiation Laboratory, University of Science and Technology of China, Hefei, Anhui 230029, People's Republic of China
| | - Ziyu Wu
- National Synchrotron Radiation Laboratory, University of Science and Technology of China, Hefei, Anhui 230029, People's Republic of China
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26
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Wang L, Zhang T, Li P, Huang W, Tang J, Wang P, Liu J, Yuan Q, Bai R, Li B, Zhang K, Zhao Y, Chen C. Use of Synchrotron Radiation-Analytical Techniques To Reveal Chemical Origin of Silver-Nanoparticle Cytotoxicity. ACS NANO 2015; 9:6532-47. [PMID: 25994391 DOI: 10.1021/acsnano.5b02483] [Citation(s) in RCA: 168] [Impact Index Per Article: 18.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/20/2023]
Abstract
To predict potential medical value or toxicity of nanoparticles (NPs), it is necessary to understand the chemical transformation during intracellular processes of NPs. However, it is a grand challenge to capture a high-resolution image of metallic NPs in a single cell and the chemical information on intracellular NPs. Here, by integrating synchrotron radiation-beam transmission X-ray microscopy (SR-TXM) and SR-X-ray absorption near edge structure (SR-XANES) spectroscopy, we successfully capture the 3D distribution of silver NPs (AgNPs) inside a single human monocyte (THP-1), associated with the chemical transformation of silver. The results reveal that the cytotoxicity of AgNPs is largely due to the chemical transformation of particulate silver from elemental silver (Ag(0))n, to Ag(+) ions and Ag-O-, then Ag-S- species. These results provide direct evidence in the long-lasting debate on whether the nanoscale or the ionic form dominates the cytotoxicity of silver nanoparticles. Further, the present approach provides an integrated strategy capable of exploring the chemical origins of cytotoxicity in metallic nanoparticles.
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Affiliation(s)
- Liming Wang
- †CAS Key Laboratory for Biomedical Effects of Nanomaterials and Nanosafety, National Center for Nanoscience and Technology of China and Institute of High Energy Physics, Chinese Academy of Sciences, Beijing, China
| | - Tianlu Zhang
- †CAS Key Laboratory for Biomedical Effects of Nanomaterials and Nanosafety, National Center for Nanoscience and Technology of China and Institute of High Energy Physics, Chinese Academy of Sciences, Beijing, China
| | - Panyun Li
- ‡Beijing Synchrotron Radiation Facility, Institute of High Energy Physics, Chinese Academy of Sciences, Beijing, China
| | - Wanxia Huang
- ‡Beijing Synchrotron Radiation Facility, Institute of High Energy Physics, Chinese Academy of Sciences, Beijing, China
| | - Jinglong Tang
- †CAS Key Laboratory for Biomedical Effects of Nanomaterials and Nanosafety, National Center for Nanoscience and Technology of China and Institute of High Energy Physics, Chinese Academy of Sciences, Beijing, China
| | - Pengyang Wang
- †CAS Key Laboratory for Biomedical Effects of Nanomaterials and Nanosafety, National Center for Nanoscience and Technology of China and Institute of High Energy Physics, Chinese Academy of Sciences, Beijing, China
| | - Jing Liu
- †CAS Key Laboratory for Biomedical Effects of Nanomaterials and Nanosafety, National Center for Nanoscience and Technology of China and Institute of High Energy Physics, Chinese Academy of Sciences, Beijing, China
| | - Qingxi Yuan
- ‡Beijing Synchrotron Radiation Facility, Institute of High Energy Physics, Chinese Academy of Sciences, Beijing, China
| | - Ru Bai
- †CAS Key Laboratory for Biomedical Effects of Nanomaterials and Nanosafety, National Center for Nanoscience and Technology of China and Institute of High Energy Physics, Chinese Academy of Sciences, Beijing, China
| | - Bai Li
- †CAS Key Laboratory for Biomedical Effects of Nanomaterials and Nanosafety, National Center for Nanoscience and Technology of China and Institute of High Energy Physics, Chinese Academy of Sciences, Beijing, China
| | - Kai Zhang
- ‡Beijing Synchrotron Radiation Facility, Institute of High Energy Physics, Chinese Academy of Sciences, Beijing, China
| | - Yuliang Zhao
- †CAS Key Laboratory for Biomedical Effects of Nanomaterials and Nanosafety, National Center for Nanoscience and Technology of China and Institute of High Energy Physics, Chinese Academy of Sciences, Beijing, China
| | - Chunying Chen
- †CAS Key Laboratory for Biomedical Effects of Nanomaterials and Nanosafety, National Center for Nanoscience and Technology of China and Institute of High Energy Physics, Chinese Academy of Sciences, Beijing, China
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Quantitative three-dimensional analysis of poly (lactic-co-glycolic acid) microsphere using hard X-ray nano-tomography revealed correlation between structural parameters and drug burst release. J Pharm Biomed Anal 2015; 112:43-9. [PMID: 25951620 DOI: 10.1016/j.jpba.2015.04.017] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/28/2014] [Revised: 04/12/2015] [Accepted: 04/13/2015] [Indexed: 11/21/2022]
Abstract
The objective of this study was to investigate the use of transmission hard X-ray nano-computed-tomography (nano-CT) for characterization of the pore structure and drug distribution in poly (lactic-co-glycolic acid) (PLGA) microspheres encapsulating bovine serum albumin and to study the correlation between drug distribution and burst release. The PLGA microspheres were fabricated using a double-emulsion method. The results of pore structure analysis accessed with nano-CT were compared with those acquired by scanning electron microscopy (SEM) and confocal laser scanning microscopy (CLSM). Surface pore interconnectivity and surface protein interconnectivity were obtained using combined nano-CT and pixel analysis. The correlation between surface protein interconnectivity with the initial burst release across various tested formulations was also analyzed. The size, shape, and distribution of the pores and protein could be clearly observed in the whole microsphere using nano-CT, whereas only the sectional information was observed using SEM or CLSM. Interconnected pores and surface connected pores could be clearly distinguished in nano-CT, which enables the quantitative analysis of surface pore interconnectivity and surface protein interconnectivity. The surface protein interconnectivity in different formulations correlated well with the burst release at 5-10h. Nano-CT provided a nondestructive, high-resolution, and three-dimensional analysis method to characterize the porous microsphere.
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28
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Wang D, Li N, Wang Z, Gao K, Zhang Y, Luo Y, Wang S, Bao Y, Shao Q, Wu Z. Three-dimensional study of poly(lactic co-glycolic acid) micro-porous microspheres using hard X-ray nano-tomography. JOURNAL OF SYNCHROTRON RADIATION 2014; 21:1175-1179. [PMID: 25178009 DOI: 10.1107/s1600577514014611] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/21/2014] [Accepted: 06/20/2014] [Indexed: 06/03/2023]
Abstract
Poly(lactic co-glycolic acid) (PLGA) is widely used in diverse fields, especially in delivering biologically active proteins and drugs. For these applications, the knowledge of morphology and microstructure of PLGA micro-porous microspheres is of great importance since they strongly influence the drug delivering efficiency. In this study, micro-porous PLGA microspheres loaded by bovine serum albumin are investigated by using a full-field Zernike phase contrast transmission hard X-ray microscope. From three-dimensional reconstructions and segmentations, fundamental microstructural parameters such as size, shape, distribution and volume ratio among pores and proteins inside PLGA microspheres were obtained. These parameters are useful to understand the relationship between the internal microstructure and drug encapsulation, as well as the drug release efficiency of PLGA microspheres. The presented results demonstrate the capability of hard X-ray nano-tomography to characterize porous microspheres loaded with proteins and drugs, and also open a way to analyse, optimize and design new PLGA microspheres for specific applications.
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Affiliation(s)
- Dajiang Wang
- National Synchrotron Radiation Laboratory, University of Science and Technology of China, 42 Hezuohua South Road, Hefei, Anhui 230029, People's Republic of China
| | - Na Li
- The Third Affiliated Hospital of Sun Yat-sen University, 600 Tianhe Road, Guangzhou, Guangdong 510630, People's Republic of China
| | - Zhili Wang
- National Synchrotron Radiation Laboratory, University of Science and Technology of China, 42 Hezuohua South Road, Hefei, Anhui 230029, People's Republic of China
| | - Kun Gao
- National Synchrotron Radiation Laboratory, University of Science and Technology of China, 42 Hezuohua South Road, Hefei, Anhui 230029, People's Republic of China
| | - Yongming Zhang
- The Third Affiliated Hospital of Sun Yat-sen University, 600 Tianhe Road, Guangzhou, Guangdong 510630, People's Republic of China
| | - Yuyan Luo
- The Third Affiliated Hospital of Sun Yat-sen University, 600 Tianhe Road, Guangzhou, Guangdong 510630, People's Republic of China
| | - Shengxiang Wang
- National Synchrotron Radiation Laboratory, University of Science and Technology of China, 42 Hezuohua South Road, Hefei, Anhui 230029, People's Republic of China
| | - Yuan Bao
- National Synchrotron Radiation Laboratory, University of Science and Technology of China, 42 Hezuohua South Road, Hefei, Anhui 230029, People's Republic of China
| | - Qigang Shao
- National Synchrotron Radiation Laboratory, University of Science and Technology of China, 42 Hezuohua South Road, Hefei, Anhui 230029, People's Republic of China
| | - Ziyu Wu
- National Synchrotron Radiation Laboratory, University of Science and Technology of China, 42 Hezuohua South Road, Hefei, Anhui 230029, People's Republic of China
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29
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Yang F, Liu Y, Martha SK, Wu Z, Andrews JC, Ice GE, Pianetta P, Nanda J. Nanoscale morphological and chemical changes of high voltage lithium-manganese rich NMC composite cathodes with cycling. NANO LETTERS 2014; 14:4334-41. [PMID: 25054780 PMCID: PMC4134180 DOI: 10.1021/nl502090z] [Citation(s) in RCA: 46] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/28/2014] [Revised: 07/10/2014] [Indexed: 05/26/2023]
Abstract
Understanding the evolution of chemical composition and morphology of battery materials during electrochemical cycling is fundamental to extending battery cycle life and ensuring safety. This is particularly true for the much debated high energy density (high voltage) lithium-manganese rich cathode material of composition Li(1 + x)M(1 - x)O2 (M = Mn, Co, Ni). In this study we combine full-field transmission X-ray microscopy (TXM) with X-ray absorption near edge structure (XANES) to spatially resolve changes in chemical phase, oxidation state, and morphology within a high voltage cathode having nominal composition Li1.2Mn0.525Ni0.175Co0.1O2. Nanoscale microscopy with chemical/elemental sensitivity provides direct quantitative visualization of the cathode, and insights into failure. Single-pixel (∼ 30 nm) TXM XANES revealed changes in Mn chemistry with cycling, possibly to a spinel conformation and likely including some Mn(II), starting at the particle surface and proceeding inward. Morphological analysis of the particles revealed, with high resolution and statistical sampling, that the majority of particles adopted nonspherical shapes after 200 cycles. Multiple-energy tomography showed a more homogeneous association of transition metals in the pristine particle, which segregate significantly with cycling. Depletion of transition metals at the cathode surface occurs after just one cycle, likely driven by electrochemical reactions at the surface.
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Affiliation(s)
- Feifei Yang
- National
Synchrotron Radiation Laboratory, University
of Science & Technology of China, Hefei, Anhui 230027, China
| | - Yijin Liu
- Stanford
Synchrotron Radiation Lightsource, SLAC
National Accelerator Laboratory, Menlo Park, California 94025, United States
| | - Surendra K. Martha
- Materials
Science & Technology Division, Oak Ridge
National Laboratory, Oak Ridge, Tennessee 37831, United States
| | - Ziyu Wu
- National
Synchrotron Radiation Laboratory, University
of Science & Technology of China, Hefei, Anhui 230027, China
| | - Joy C. Andrews
- Stanford
Synchrotron Radiation Lightsource, SLAC
National Accelerator Laboratory, Menlo Park, California 94025, United States
| | - Gene E. Ice
- Materials
Science & Technology Division, Oak Ridge
National Laboratory, Oak Ridge, Tennessee 37831, United States
| | - Piero Pianetta
- Stanford
Synchrotron Radiation Lightsource, SLAC
National Accelerator Laboratory, Menlo Park, California 94025, United States
| | - Jagjit Nanda
- Materials
Science & Technology Division, Oak Ridge
National Laboratory, Oak Ridge, Tennessee 37831, United States
- Department
of Chemical and Biomolecular Engineering, University of Tennessee, Knoxville Tennessee 37996, United States
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30
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Kao TL, Shi CY, Wang J, Mao WL, Liu Y, Yang W. Nanoscale elemental sensitivity study of Nd2Fe14B using absorption correlation tomography. Microsc Res Tech 2013; 76:1112-7. [DOI: 10.1002/jemt.22273] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/06/2013] [Revised: 06/20/2013] [Accepted: 07/13/2013] [Indexed: 11/11/2022]
Affiliation(s)
| | - Crystal Y. Shi
- Geological and Environmental Sciences; Stanford University; Stanford; California; 94305
| | | | | | - Yijin Liu
- Stanford Synchrotron Radiation Lightsource; SLAC National Accelerator Laboratory; California; 94025
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31
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Abstract
X rays are universally valued for their ability to penetrate opaque objects. It is only within the past few decades that their short wavelengths have also been exploited to provide 3D imaging of the objects' interiors with resolution well beyond that of light microscopy (LM) in a wide variety of applications. This article explores X-ray imaging as a quantitative sub-micron nanoscale microscopy technique, and specifically its emergent role within the context of the central microscopy laboratory.
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