{"title":"Applications of Secondary and Backscattered Electron Spectroscopic Imaging and a Proposal for New SEM Image Nomenclature.","authors":"Takashi Sekiguchi, Yuanzhao Yao","doi":"10.1093/jmicro/dfag037","DOIUrl":"https://doi.org/10.1093/jmicro/dfag037","url":null,"abstract":"<p><p>With the increasing diversity of SEM detectors today, classification based solely on secondary and backscattered electrons is no longer sufficient; there is a growing need to specify energy and emission direction when discussing image information. In particular, for detectors capable of energy discrimination, an appropriate method for classifying images is required. We propose a nomenclature for classifying images by explicitly indicating energy, emission direction, and detector position following the abbreviations \"SE\" and \"BE.\" Energy is displayed as three bands - A, B, and C- defined by the ends of the spectrum on a logarithmic axis, while emission direction is divided into regions 1, 2, and 3 in 30° increments from the zenith angle. Detectors are designated with \"o\" or \"d\" depending on whether they are circularly symmetric or directional with respect to the primary electron beam. For example, they are denoted as SE/A2o or BE/AB3d. Using this notation, we classify images obtained with low-pass secondary electron detectors (Fountain detector) and high-pass backscattered electron detectors, and discuss their characteristics.</p>","PeriodicalId":74193,"journal":{"name":"Microscopy (Oxford, England)","volume":" ","pages":""},"PeriodicalIF":1.9,"publicationDate":"2026-10-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"149231336","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}
{"title":"Morphological study of the anterior cruciate ligament and its tibial insertion in the human knee joint.","authors":"Yutaro Shibuta, Tatsuo Shimada, Tsuguaki Hosoyama, Masashi Hirakawa, Nobuhiro Kaku","doi":"10.1093/jmicro/dfag036","DOIUrl":"https://doi.org/10.1093/jmicro/dfag036","url":null,"abstract":"<p><strong>Purpose: </strong>We investigated whether ligament-derived collagen fibrils traversing the cartilage/fibrocartilage region toward the tibial bone could be visualized using SEM.</p><p><strong>Methods: </strong>ACL specimens were obtained from four patients with ACL rupture (aged 16-49 years) and three older adults (aged 60-75 years) with osteoarthritis. Specimens were fixed and examined under light microscopy (LM; sections stained with light green and aldehyde fuchsin), transmission electron microscopy (TEM; modified tannic acid method), and scanning electron microscopy (SEM; NaOH-treated blocks).</p><p><strong>Results: </strong>The central portion of the ACL consisted of parallel-arranged collagen fibers, with thread-like elastic fibers stained by aldehyde fuchsin sparsely distributed among them. SEM following NaOH treatment revealed collagen fibrils (diameter ∼120-140 nm). Elastic fibers were also scattered among collagen bundles on SEM. On TEM, electron-dense structures consistent with elastic fibers (diameter ∼600 nm) were identified. At the tibial insertion, LM demonstrated that the ACL branched within the cartilage and attached to the tibia. SEM enabled discrimination between the bundled ACL collagen fibrils and the finer collagen fibrils (diameter ∼80 nm) surrounding chondrocytes.</p><p><strong>Conclusion: </strong>We histologically demonstrated that branches of the human ACL pass through the joint and attach to the tibia. Ligament-derived collagen fibrils were observed branching and descending through the cartilage/fibrocartilage region toward the tibial bone.</p>","PeriodicalId":74193,"journal":{"name":"Microscopy (Oxford, England)","volume":" ","pages":""},"PeriodicalIF":1.9,"publicationDate":"2026-10-19","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"149225541","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}
{"title":"Extending the Computable Depth Range in Electron Ptychography using Event-Converted Data.","authors":"Kazutaka Mitsuishi, Masahiko Shimizu, Katsuaki Nakazawa, Masaki Takeguchi, Ayako Hashimoto, Toshiaki Tanigaki","doi":"10.1093/jmicro/dfag035","DOIUrl":"https://doi.org/10.1093/jmicro/dfag035","url":null,"abstract":"<p><p>Iterative multislice electron ptychography enables depth sectioning but its range is constrained by the real-space patch imposed by detector sampling. Reconstruction using converted 4D-STEM patterns into electron-event lists decouples the model's reciprocal-space sampling interval from detector pixels size, reducing data volume, and enabling event-based loss function evaluation. The effect of patch size to the computable depth range, and the validity of the proposed method were demonstrated by simulation. The experimental demonstration on SSZ-13 zeolite shows improved reconstruction quality with preserved depth profiles; under 4× detector binning, reconstruction quality and depth sectioning are retained by selecting a finer reciprocal-space sampling interval, thereby extending the computable depth range without sacrificing angular coverage.</p>","PeriodicalId":74193,"journal":{"name":"Microscopy (Oxford, England)","volume":" ","pages":""},"PeriodicalIF":1.9,"publicationDate":"2026-10-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"149186782","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}
{"title":"Systematic study of chemical bonding states of lithium binary compounds from Li K-L emission spectra obtained by a VUV spectrometer mounted on a scanning electron microscope.","authors":"Takanori Murano, Shogo Koshiya","doi":"10.1093/jmicro/dfag017","DOIUrl":"10.1093/jmicro/dfag017","url":null,"abstract":"<p><p>The Li K-L emission spectra of lithium metal and its binary compounds (Li3N, Li2O and LiF) were measured by using a soft X-ray emission spectrometer, which was equipped with a newly developed high-efficiency diffraction grating (JS35BC) and attached to an electron probe microanalyzer. The new grating enables the observation of the entire intensity profile of both Li K-L and Mg L2,3-M emission spectra. The systematic energy shift of the Li K-L spectra to the lower energy side with an increasing electronegativity (or the ionization tendency) of elements of N, O and F bonded with the Li atom was clearly detected. This shift was reproduced by theoretical calculations and was assigned mainly due to the change of the binding energy of the valence band of those materials. The main peak and its distinct shoulder structure observed in Li K-L spectrum of LiF were assigned as 2p dominated and 2s + 2p mixed states, respectively, from the comparison with theoretical calculations.</p>","PeriodicalId":74193,"journal":{"name":"Microscopy (Oxford, England)","volume":" ","pages":"371-376"},"PeriodicalIF":1.9,"publicationDate":"2026-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"147494624","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}
Shinnosuke Nishimoto, Haruhisa Watanabe, Marie Hoshi-Numahata, Atsuko Nakanishi-Kimura, Tomoya Tanaka, Aya Takakura, Ryoko Takao-Kawabata, Yoshiaki Sato, Tadahiro Iimura
{"title":"Teriparatide reduces spinal neuroinflammatory phenotypes in ovariectomized rats revealed by an artificial intelligence-driven glial cell morphometry of bright-field tissue sections.","authors":"Shinnosuke Nishimoto, Haruhisa Watanabe, Marie Hoshi-Numahata, Atsuko Nakanishi-Kimura, Tomoya Tanaka, Aya Takakura, Ryoko Takao-Kawabata, Yoshiaki Sato, Tadahiro Iimura","doi":"10.1093/jmicro/dfag018","DOIUrl":"10.1093/jmicro/dfag018","url":null,"abstract":"<p><p>Osteoporosis frequently presents with lower back pain, often accompanied by hypersensitivity, even in the absence of vertebral fractures, suggesting the involvement of central neuroinflammatory mechanisms. The activation of spinal glia has been implicated as a key driver of pain. Clinical and preclinical studies have also shown that teriparatide (TPTD), a bone anabolic drug, alleviates osteoporotic pain and raises the possibility of anti-neuroinflammatory effects. We previously reported that TPTD suppresses neuroinflammatory microglial proliferation in the spinal dorsal horn of an ovariectomized (OVX) rat model of postmenopausal osteoporosis. To further substantiate these previous findings, this study morphometrically investigated neuroinflammatory alterations in the same patho-pharmacological setting by establishing an artificial intelligence (AI)-driven morphometric pipeline applied to 3,3'-diaminobenzidine (DAB)-stained bright-field images. OVX increased the number of microglia, induced process shortening and higher circularity and expanded glial fibrillary acidic protein (GFAP)-positive astrocytic areas. TPTD partially attenuated OVX-induced glial changes. These findings indicate that OVX induces spinal neuroinflammation involving both microglia and astrocytes and that TPTD mitigates these neuroinflammatory responses. Moreover, the combination of 2D bright-field imaging and AI-driven morphometry represents a practical, accessible approach that requires minimal specialized equipment, yet sensitively captures OVX- and TPTD-induced microglial alterations and enables phenotype-based classification.</p>","PeriodicalId":74193,"journal":{"name":"Microscopy (Oxford, England)","volume":" ","pages":"377-389"},"PeriodicalIF":1.9,"publicationDate":"2026-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC13652547/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"147494742","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}
{"title":"Partial coherence of inelastically scattered electrons in transmission electron microscopy.","authors":"Budhika Gehan Mendis","doi":"10.1093/jmicro/dfag020","DOIUrl":"10.1093/jmicro/dfag020","url":null,"abstract":"<p><p>Coherence of electron waves is central to transmission electron microscopy. However, the mechanism underlying partial loss of coherence during inelastic scattering has been a perplexing problem for many decades. Here it is shown that the inelastic collision time is the key parameter governing coherence. Large energy transfers have short collision times and an inversely decaying coherence length. It is also shown that the inelastic coherence volume is highly elongated along the electron beam direction. Plasmon excitation and inter-band transition events, therefore, have only a minor effect on dynamical diffraction, a fact confirmed by energy-filtered measurements on [001]-oriented SrTiO3.</p>","PeriodicalId":74193,"journal":{"name":"Microscopy (Oxford, England)","volume":" ","pages":"390-397"},"PeriodicalIF":1.9,"publicationDate":"2026-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC13652546/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"147517286","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}
{"title":"Structural optimization of model sample for high-resolution soft/hard interface analysis.","authors":"Kaname Yoshida, Hsin-Hui Huang, Tomohiro Miyata, Yohei K Sato, Hiroshi Jinnai","doi":"10.1093/jmicro/dfag015","DOIUrl":"10.1093/jmicro/dfag015","url":null,"abstract":"<p><p>High-resolution structural analysis of adhesive interfaces between resins (soft materials) and inorganic materials (hard materials) is indispensable for understanding the underlying adhesion mechanisms. Scanning transmission electron microscopy-based electron energy-loss spectroscopy (STEM-EELS) is a key technique for obtaining information regarding the local chemical environment at the interfaces between amorphous resins and inorganic materials, such as metals. For realizing high-resolution STEM-EELS analysis, the design of the soft/hard interface model must be optimized. Furthermore, damage to resins caused by ion-beam irradiation during the sample milling must be avoided. Herein, we report an optimized protocol for fabricating specimens of soft/hard interfaces with ultrathin cross-sections for STEM-EELS analysis.</p>","PeriodicalId":74193,"journal":{"name":"Microscopy (Oxford, England)","volume":" ","pages":"432-435"},"PeriodicalIF":1.9,"publicationDate":"2026-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"147391758","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}
{"title":"Fluorescent protein-based probe architecture modulates rotational and translational diffusion readouts in polarization-dependent fluorescence correlation spectroscopy.","authors":"Miho Hanaoka, Kenta Saito, Masahiko Kawagishi, Johtaro Yamamoto, Nori Nakai, Minori Iida, Keisuke Sato, Makoto Nakakido, Satoru Nagatoishi, Kouhei Tsumoto, Masataka Kinjo, Sumio Terada","doi":"10.1093/jmicro/dfag021","DOIUrl":"10.1093/jmicro/dfag021","url":null,"abstract":"<p><p>Polarization-dependent fluorescence correlation spectroscopy (Pol-FCS) simultaneously measures translational and rotational diffusion of fluorescently labeled molecules and provides information on molecular size and shape. Rotational diffusion is, in principle, expected to provide even higher sensitivity than translational diffusion, which is routinely used in conventional FCS to detect binding of fluorescent protein (FP)-fused binders to their targets. However, when FPs are fused to binders via flexible linkers, local wobbling of the FP can decouple its rotational diffusion from that of the binding complex. Quantitative evaluation of this decoupling effect remains lacking. Here, leveraging our expertise from polarization-dependent orientation probes, POLArIS, we designed and compared two classes of probes, termed 'Rigid' and 'Flex', that differ in how tightly the FP is linked to the anti-ALFAtag nanobody, to evaluate how probe architecture affects Pol-FCS readouts. Using ALFAtag and the rod-like repeat protein DHR10 as a structurally anisotropic binding target, we varied probe binding geometry while keeping molecular weight nearly constant and measured rotational and translational diffusion. Flex probes exhibited shorter rotational diffusion times than Rigid probes when bound to the same targets, consistent with the expected local reorientation. Notably, translational diffusion times also showed architecture-dependent differences between Rigid and Flex probes. These results demonstrate that probe architecture is a key determinant of diffusion readouts in FP-based Pol-FCS and suggest practical probe design principles for sensitive reporters of intermolecular binding accompanied by changes in complex shape.</p>","PeriodicalId":74193,"journal":{"name":"Microscopy (Oxford, England)","volume":" ","pages":"398-411"},"PeriodicalIF":1.9,"publicationDate":"2026-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"147640825","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}
{"title":"Wide-field montage on transmission electron microscopy via network tele-microscopy enables quantitative analysis of mouse olfactory bulb neural circuits.","authors":"Haruyo Yamanishi, Emi Kiyokage, Satoshi Ichikawa, Kaoru Mitsuoka, Kazunori Toida","doi":"10.1093/jmicro/dfag022","DOIUrl":"10.1093/jmicro/dfag022","url":null,"abstract":"<p><p>Transmission electron microscopy (TEM) provides nanometer-scale resolution, which is essential for ultrastructural analysis of biological tissue. However, its application for large tissue areas is limited by a restricted field of view and observer-dependent sampling. In this study, we present a workflow that combines wide-field montage TEM-via 'network tele-microscopy'-with correlative light and electron microscopy to enable large-area ultrastructural analysis while preserving synapse-level resolution. We demonstrate this approach in the glomerular layer and tyrosine hydroxylase-positive neurons in mouse olfactory bulb glomeruli, which exhibit dense, heterogeneous synaptic organization. Light and confocal laser scanning microscopy were first used for orientation in regions of interest, allowing the generation of continuous wide-field montage TEM datasets. This approach allowed systematic identification and quantification of synapses across an entire glomerulus while maintaining spatial relationships among ultrastructural elements. This study demonstrates a technically feasible platform for the development of TEM and the future integration of network tele-microscopy with computational methods.</p>","PeriodicalId":74193,"journal":{"name":"Microscopy (Oxford, England)","volume":" ","pages":"412-424"},"PeriodicalIF":1.9,"publicationDate":"2026-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"147679155","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}
{"title":"Low‑damage thinning of polymer specimens for transmission electron microscopy by gas cluster ion beam irradiation.","authors":"Shin Inamoto, Akiyo Yoshida, Mayumi Oto, Kazuhiro Matsuda, Yuji Otsuka","doi":"10.1093/jmicro/dfag023","DOIUrl":"10.1093/jmicro/dfag023","url":null,"abstract":"<p><p>Focused ion beam (FIB) processing is widely used for preparing transmission electron microscopy (TEM) specimens of polymer materials. However, it often introduces damaged layers that hinder structural analysis. In this study, we demonstrate the effectiveness of gas cluster ion beam (GCIB) irradiation in reducing such damaged layers in polyethylene (PE) extracted from a PE/polyamide (PA) multilayer film, used here as a representative single-component polymer. GCIB treatment successfully removed the FIB-induced damaged layers and enabled access by ruthenium tetroxide (RuO4), which allowed clear visualization of the lamellar structure in PE. Electron tomography confirmed that GCIB not only eliminated damaged layers but also thinned the specimen. These findings suggest that GCIB is a promising technique for preparing ultra-thin, low-damage TEM specimens of polymer materials and can facilitate more accurate structural and chemical analyses.</p>","PeriodicalId":74193,"journal":{"name":"Microscopy (Oxford, England)","volume":" ","pages":"425-431"},"PeriodicalIF":1.9,"publicationDate":"2026-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"147700896","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}