Microscopy (Oxford, England)最新文献

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Spatial frequency-based correction of the spherical aberration in living brain imaging. 基于空间频率的活体脑成像球差校正。
Microscopy (Oxford, England) Pub Date : 2024-02-07 DOI: 10.1093/jmicro/dfad035
Aoi Gohma, Naoya Adachi, Yasuo Yonemaru, Daiki Horiba, Kaori Higuchi, Daisuke Nishiwaki, Eiji Yokoi, Yoshihiro Ue, Atsushi Miyawaki, Hiromu Monai
{"title":"Spatial frequency-based correction of the spherical aberration in living brain imaging.","authors":"Aoi Gohma, Naoya Adachi, Yasuo Yonemaru, Daiki Horiba, Kaori Higuchi, Daisuke Nishiwaki, Eiji Yokoi, Yoshihiro Ue, Atsushi Miyawaki, Hiromu Monai","doi":"10.1093/jmicro/dfad035","DOIUrl":"10.1093/jmicro/dfad035","url":null,"abstract":"<p><p>Optical errors, including spherical aberrations, hinder high-resolution imaging of biological samples due to biochemical components and physical properties. We developed the Deep-C microscope system to achieve aberration-free images, employing a motorized correction collar and contrast-based calculations. However, current contrast-maximization techniques, such as the Brenner gradient method, inadequately assess specific frequency bands. The Peak-C method addresses this issue, but its arbitrary neighbor selection and susceptibility to the noise limit its effectiveness. In this paper, we emphasize the importance of a broad spatial frequency range for accurate spherical aberration correction and propose Peak-F. This spatial frequency-based system utilizes a fast Fourier transform as a bandpass filter. This approach overcomes Peak-C's limitations and comprehensively covers the low-frequency domain of image spatial frequencies.</p>","PeriodicalId":74193,"journal":{"name":"Microscopy (Oxford, England)","volume":" ","pages":"37-46"},"PeriodicalIF":0.0,"publicationDate":"2024-02-07","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10849036/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9636147","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Measuring mechanical properties with high-speed atomic force microscopy. 用高速原子力显微镜测量机械性能。
Microscopy (Oxford, England) Pub Date : 2024-02-07 DOI: 10.1093/jmicro/dfad051
Christian Ganser, Takayuki Uchihashi
{"title":"Measuring mechanical properties with high-speed atomic force microscopy.","authors":"Christian Ganser, Takayuki Uchihashi","doi":"10.1093/jmicro/dfad051","DOIUrl":"10.1093/jmicro/dfad051","url":null,"abstract":"<p><p>High-speed atomic force microscopy (HS-AFM) is now a widely used technique to study the dynamics of single biomolecules and complex structures. In the past, it has mainly been used to capture surface topography as structural analysis, leading to important discoveries not attainable by other methods. Similar to conventional AFM, the scope of HS-AFM was recently expanded to encompass quantities beyond topography, such as the measurement of mechanical properties. This review delves into various methodologies for assessing mechanical properties, ranging from semi-quantitative approaches to precise force measurements and their corresponding sample responses. We will focus on the application to single proteins such as bridging integrator-1, ion channels such as Piezo1, complex structures such as microtubules and supramolecular fibers. In all these examples, the unique combination of quantifiable force application and high spatiotemporal resolution allows to unravel mechanisms that cannot be investigated by conventional means.</p>","PeriodicalId":74193,"journal":{"name":"Microscopy (Oxford, England)","volume":" ","pages":"14-21"},"PeriodicalIF":0.0,"publicationDate":"2024-02-07","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"71429940","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Evaluating the roughness dynamics of kefir biofilms grown on Amazon cupuaçu juice: a monofractal and multifractal approach. 评估生长在亚马逊丘比特果汁上的克菲尔生物膜的粗糙度动态:单分形和多分形方法。
Microscopy (Oxford, England) Pub Date : 2024-02-07 DOI: 10.1093/jmicro/dfad040
Robert S Matos, Erveton P Pinto, Marcelo A Pires, Glenda Q Ramos, Ştefan Ţălu, Lucas S Lima, Henrique D da Fonseca Filho
{"title":"Evaluating the roughness dynamics of kefir biofilms grown on Amazon cupuaçu juice: a monofractal and multifractal approach.","authors":"Robert S Matos, Erveton P Pinto, Marcelo A Pires, Glenda Q Ramos, Ştefan Ţălu, Lucas S Lima, Henrique D da Fonseca Filho","doi":"10.1093/jmicro/dfad040","DOIUrl":"10.1093/jmicro/dfad040","url":null,"abstract":"<p><p>We conducted a comprehensive analysis of the surface microtexture of kefir biofilms grown on Theobroma grandiflorum Shum (cupuaçu) juice using atomic force microscopy. Our goal was to investigate the unique monofractal and multifractal spatial patterns of these biofilms to complement the existing limited literature. The biofilms were prepared dispersing four different concentrations of kefir grains in cupuaçu juice. Our morphological analysis showed that the surface of the obtained biofilms is essentially formed by the presence of cupuaçu fibers and microorganisms like lactobacilli and yeast. The topographic height-based parameter analysis reveals that there is a dependence between surface roughness and the concentration of kefir grains used. The strongly anisotropic well-centralized topographical height distribution of the biofilms also exhibited a quasi-symmetrical and platykurtic pattern. The biofilms exhibit comparable levels of spatial complexity, surface percolation and surface homogeneity, which can be attributed to their similar topographic uniformity. This aspect was further supported by the presence of similar multifractality in the biofilms, suggesting that despite their varying topographic roughness, their vertical growth dynamics follow a similar pattern. Our findings demonstrate that the surface roughness of kefir biofilms cultivated on cupuaçu juice is influenced by the concentration of kefir grains in the precursor solution. However, this dependence follows a consistent pattern across different concentrations. Graphical Abstract.</p>","PeriodicalId":74193,"journal":{"name":"Microscopy (Oxford, England)","volume":" ","pages":"55-65"},"PeriodicalIF":0.0,"publicationDate":"2024-02-07","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9937529","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Prediction of secondary electron yield for metal materials using deep learning. 利用深度学习预测金属材料的二次电子产量。
Microscopy (Oxford, England) Pub Date : 2024-02-07 DOI: 10.1093/jmicro/dfad034
Masahiro Kusumi, Bunta Inoue, Yoshihiko Hirai, Masaaki Yasuda
{"title":"Prediction of secondary electron yield for metal materials using deep learning.","authors":"Masahiro Kusumi, Bunta Inoue, Yoshihiko Hirai, Masaaki Yasuda","doi":"10.1093/jmicro/dfad034","DOIUrl":"10.1093/jmicro/dfad034","url":null,"abstract":"<p><p>This article describes a neural network system for predicting the secondary electron yield of metallic materials. For bulk metals, experimental values are used as training data. Due to the strong correlation between the secondary electron yield and the work function, deep learning predicts the secondary electron yield with relatively high accuracy even with a small amount of training data. Our approach demonstrates the importance of the work function in predicting the secondary electron yield. For the secondary electron yield of thin metal films on metal substrates, deep learning predictions are generated using training data obtained by Monte Carlo simulations. The accuracy of the secondary yield predictions of thin films on substrates could be improved by adding experimental values of bulk metals to the training data.</p>","PeriodicalId":74193,"journal":{"name":"Microscopy (Oxford, England)","volume":" ","pages":"31-36"},"PeriodicalIF":0.0,"publicationDate":"2024-02-07","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9601340","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Enhancing performance of electron holography with mathematical and machine learning-based denoising techniques. 利用基于数学和机器学习的去噪技术增强电子全息术的性能。
Microscopy (Oxford, England) Pub Date : 2023-11-24 DOI: 10.1093/jmicro/dfad037
Satoshi Anada, Yuki Nomura, Kazuo Yamamoto
{"title":"Enhancing performance of electron holography with mathematical and machine learning-based denoising techniques.","authors":"Satoshi Anada, Yuki Nomura, Kazuo Yamamoto","doi":"10.1093/jmicro/dfad037","DOIUrl":"10.1093/jmicro/dfad037","url":null,"abstract":"<p><p>Electron holography is a useful tool for analyzing functional properties, such as electromagnetic fields and strains of materials and devices. The performance of electron holography is limited by the 'shot noise' inherent in electron micrographs (holograms), which are composed of a finite number of electrons. A promising approach for addressing this issue is to use mathematical and machine learning-based image-processing techniques for hologram denoising. With the advancement of information science, denoising methods have become capable of extracting signals that are completely buried in noise, and they are being applied to electron microscopy, including electron holography. However, these advanced denoising methods are complex and have many parameters to be tuned; therefore, it is necessary to understand their principles in depth and use them carefully. Herein, we present an overview of the principles and usage of sparse coding, the wavelet hidden Markov model and tensor decomposition, which have been applied to electron holography. We also present evaluation results for the denoising performance of these methods obtained through their application to simulated and experimentally recorded holograms. Our analysis, review and comparison of the methods clarify the impact of denoising on electron holography research.</p>","PeriodicalId":74193,"journal":{"name":"Microscopy (Oxford, England)","volume":" ","pages":"461-484"},"PeriodicalIF":0.0,"publicationDate":"2023-11-24","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"10143776","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
A preparation of bacterial outer membrane with osmium tetroxide and uranyl acetate co-stain enables improved structural determination by transmission electron microscopy. 用四氧化锇和醋酸铀酰共染色剂制备细菌外膜,改进了透射电子显微镜的结构测定。
Microscopy (Oxford, England) Pub Date : 2023-11-24 DOI: 10.1093/jmicro/dfad027
Aadil Sheikh, Bernd Zechmann, Christie M Sayes, Joseph H Taube, K Leigh Greathouse
{"title":"A preparation of bacterial outer membrane with osmium tetroxide and uranyl acetate co-stain enables improved structural determination by transmission electron microscopy.","authors":"Aadil Sheikh, Bernd Zechmann, Christie M Sayes, Joseph H Taube, K Leigh Greathouse","doi":"10.1093/jmicro/dfad027","DOIUrl":"10.1093/jmicro/dfad027","url":null,"abstract":"<p><p>Biological nanoparticles, such as bacterial outer membrane vesicles (OMVs), are routinely characterized through transmission electron microscopy (TEM). In this study, we report a novel method to prepare OMVs for TEM imaging. To preserve vesicular shape and structure, we developed a dual fixation protocol involving osmium tetroxide incubation prior to negative staining with uranyl acetate. Combining osmium tetroxide with uranyl acetate resulted in preservation of sub-50 nm vesicles and improved morphological stability, enhancing characterization of lipid-based nanoparticles by TEM.</p>","PeriodicalId":74193,"journal":{"name":"Microscopy (Oxford, England)","volume":" ","pages":"515-519"},"PeriodicalIF":0.0,"publicationDate":"2023-11-24","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10673695/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9765936","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
A novel embedding composition for the evaluation of the internal structure of carbon materials using electron microscopy. 一种用电子显微镜评价碳材料内部结构的新型包埋组合物。
Microscopy (Oxford, England) Pub Date : 2023-11-24 DOI: 10.1093/jmicro/dfad020
Tsukaho Yahagi
{"title":"A novel embedding composition for the evaluation of the internal structure of carbon materials using electron microscopy.","authors":"Tsukaho Yahagi","doi":"10.1093/jmicro/dfad020","DOIUrl":"10.1093/jmicro/dfad020","url":null,"abstract":"<p><p>The image contrast obtained in electron microscopy depends on the atomic number of the sample. Therefore, obtaining a clear contrast is challenging when samples composed of light elements (carbon materials and polymers) are embedded in the resin. Herein, a newly developed embedding composition exhibiting low viscosity and high electron density is reported, which can be solidified using physical or chemical methods. When used for carbon materials, this embedding composition allows clear microscopic observation with higher contrast compared to conventional resin embedding. Furthermore, details of the observation of samples such as graphite and carbon black using this embedding composition are reported.</p>","PeriodicalId":74193,"journal":{"name":"Microscopy (Oxford, England)","volume":" ","pages":"511-514"},"PeriodicalIF":0.0,"publicationDate":"2023-11-24","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9140890","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
High-resolution and analytical electron microscopy in a liquid flow cell via gas purging. 高分辨率和分析电子显微镜在液体流动电池通过气体净化。
Microscopy (Oxford, England) Pub Date : 2023-11-24 DOI: 10.1093/jmicro/dfad023
Yevheniy Pivak, Junbeom Park, Shibabrata Basak, Rüdiger-Albert Eichel, Anne Beker, Alejandro Rozene, Héctor Hugo Pérez Garza, Hongyu Sun
{"title":"High-resolution and analytical electron microscopy in a liquid flow cell via gas purging.","authors":"Yevheniy Pivak, Junbeom Park, Shibabrata Basak, Rüdiger-Albert Eichel, Anne Beker, Alejandro Rozene, Héctor Hugo Pérez Garza, Hongyu Sun","doi":"10.1093/jmicro/dfad023","DOIUrl":"10.1093/jmicro/dfad023","url":null,"abstract":"<p><p>Liquid-phase transmission electron microscopy (LPTEM) technique has been used to perform a wide range of in situ and operando studies. While most studies are based on the sample contrast change in the liquid, acquiring high qualitative results in the native liquid environment still poses a challenge. Herein, we present a novel and facile method to perform high-resolution and analytical electron microscopy studies in a liquid flow cell. This technique is based on removing the liquid from the observation area by a flow of gas. It is expected that the proposed approach can find broad applications in LPTEM studies.</p>","PeriodicalId":74193,"journal":{"name":"Microscopy (Oxford, England)","volume":" ","pages":"520-524"},"PeriodicalIF":0.0,"publicationDate":"2023-11-24","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9641816","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Using a novel CLEM system to localize lipid droplets and membranes in desiccated embryonic axis cells of soybean seeds. 利用新型CLEM系统定位大豆种子干燥胚轴细胞的脂滴和膜。
Microscopy (Oxford, England) Pub Date : 2023-11-24 DOI: 10.1093/jmicro/dfad017
Salma Khanam, Takayuki Funatsu, Koji Tanaka, Yasuko Kaneko
{"title":"Using a novel CLEM system to localize lipid droplets and membranes in desiccated embryonic axis cells of soybean seeds.","authors":"Salma Khanam, Takayuki Funatsu, Koji Tanaka, Yasuko Kaneko","doi":"10.1093/jmicro/dfad017","DOIUrl":"10.1093/jmicro/dfad017","url":null,"abstract":"<p><p>Lipid droplets and membranes in radicle cells from desiccated embryonic axes of soybean (Glycine max) seeds were examined by a recently developed correlative light and electron microscopy system, which has been designed to facilitate the observation of identical locations using an upright reflected light microscope and compact SEM successively with minimum time lapse. Lipids are major components of membranes and are also stored in numerous lipid droplets lining plasma membranes in many seed cells. Fluorescently stained lipid droplets and membranes in the desiccated radicle cells were mainly located along the surface of shrunk protoplasm and around presumptive protein bodies, which will turn into vacuoles and increase their volume for radicle protrusion. Co-localization of lipid droplets and membranes suggests the presence of a membrane protection mechanism during desiccation and rehydration processes that ensures prompt elongation of radicle cells during germination.</p>","PeriodicalId":74193,"journal":{"name":"Microscopy (Oxford, England)","volume":" ","pages":"506-510"},"PeriodicalIF":0.0,"publicationDate":"2023-11-24","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9332069","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Low-dose measurement of electric potential distribution in organic light-emitting diode by phase-shifting electron holography with 3D tensor decomposition. 用三维张量分解相移电子全息法测量有机发光二极管的低剂量电位分布。
Microscopy (Oxford, England) Pub Date : 2023-11-24 DOI: 10.1093/jmicro/dfad019
Yusei Sasaki, Kazuo Yamamoto, Satoshi Anada, Noriyuki Yoshimoto
{"title":"Low-dose measurement of electric potential distribution in organic light-emitting diode by phase-shifting electron holography with 3D tensor decomposition.","authors":"Yusei Sasaki, Kazuo Yamamoto, Satoshi Anada, Noriyuki Yoshimoto","doi":"10.1093/jmicro/dfad019","DOIUrl":"10.1093/jmicro/dfad019","url":null,"abstract":"<p><p>To improve the performance of organic light-emitting diodes (OLEDs), it is essential to understand and control the electric potential in the organic semiconductor layers. Electron holography (EH) is a powerful technique for visualizing the potential distribution with a transmission electron microscope. However, it has a serious issue that high-energy electrons may damage the organic layers, meaning that a low-dose EH is required. Here, we used a machine learning technique, three-dimensional (3D) tensor decomposition, to denoise electron interference patterns (holograms) of bilayer OLEDs composed of N,N'-di-[(1-naphthyl)-N,N'-diphenyl]-(1,1'-biphenyl)-4,4'-diamine (α-NPD) and tris-(8-hydroxyquinoline)aluminum (Alq3), acquired under a low-dose rate of 130 e- nm-2 s-1. The effect of denoising on the phase images reconstructed from the holograms was evaluated in terms of both the phase measurement error and the peak signal-to-noise ratio. We achieved a precision equivalent to that of a conventional measurement that had an exposure time 60 times longer. The electric field within the Alq3 layer decreased as the cumulative dose increased, which indicates that the Alq3 layer was degraded by the electron irradiation. On the basis of the degradation of the electric field, we concluded that the tolerance dose without damaging the OLED sample is about 1.7 × 105 e- nm-2, which is about 0.6 times that of the conventional EH. The combination of EH and 3D tensor decomposition denoising is capable of making a time series measurement of an OLED sample without any effect from the electron irradiation.</p>","PeriodicalId":74193,"journal":{"name":"Microscopy (Oxford, England)","volume":" ","pages":"485-493"},"PeriodicalIF":0.0,"publicationDate":"2023-11-24","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"10783859","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
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