Journal of microscopy最新文献

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IF 1.9 4区工程技术

Journal of microscopy Pub Date : 2025-10-15 DOI: 10.1111/jmi.70040

引用次数: 0

Introduction to the Special Issue on ptychography 平面印刷术特刊导言。

IF 1.9 4区工程技术

Journal of microscopy Pub Date : 2025-10-11 DOI: 10.1111/jmi.70042

Andrew Maiden, Laura Clark, Peter O'Toole

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Cassini ovals for robust mitosis detection in cellular imaging. 卡西尼椭圆稳健有丝分裂检测细胞成像。

IF 1.9 4区工程技术

Journal of microscopy Pub Date : 2025-10-11 DOI: 10.1111/jmi.70041

Reza Yazdi, Hassan Khotanlou

{"title":"Cassini ovals for robust mitosis detection in cellular imaging.","authors":"Reza Yazdi, Hassan Khotanlou","doi":"10.1111/jmi.70041","DOIUrl":"https://doi.org/10.1111/jmi.70041","url":null,"abstract":"Accurate detection of mitosis is crucial in automated cell analysis, yet many existing methods depend heavily on deep learning models or complex detection techniques, which can be computationally intensive and error-prone, particularly when segmentation is incomplete. This study presents a novel unsupervised method for mitosis detection, leveraging the geometric properties of the Cassini oval to reduce computational costs and enhance robustness. Our approach integrates a newly developed deep learning model, MaxSigNet, for initial cell segmentation. We subsequently employ the Cassini oval in its single-ring mode to detect mother cells in the initial frame and switch to double-ring mode in subsequent frames to identify daughter cells and confirm mitosis events. The success of this method hinges on the presence of equal non-zero foci values in the mother cell and distinct non-zero foci values in the daughter cells, which indicate accurate mitosis detection. The method was evaluated across six datasets from four different cell lines, achieving perfect F1, Recall and Precision scores on four datasets, with scores of 96% and 85% on the remaining two. Comparative analysis demonstrated that our method outperformed similar approaches in F1 and Recall metrics. Additionally, the method showed substantial robustness to incomplete segmentation, with only a 20% average drop in F1 scores when tested with older segmentation methods like K-means, Felzenszwalb and Watershed. The proposed method offers a significant advancement in mitosis detection by leveraging the Cassini oval's properties, providing a reliable and efficient solution for automated cell analysis systems. This approach promises to enhance the accuracy and efficiency of cellular behaviour studies, with potential applications in various biomedical research fields.","PeriodicalId":16484,"journal":{"name":"Journal of microscopy","volume":" ","pages":""},"PeriodicalIF":1.9,"publicationDate":"2025-10-11","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145274869","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"工程技术","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Depth of field of multi-slice electron ptychography: Investigating energy and convergence angle 多层电子平面摄影的视场深度：研究能量和会聚角。

IF 1.9 4区工程技术

Journal of microscopy Pub Date : 2025-10-06 DOI: 10.1111/jmi.70039

Frederick Allars, Andrew Maiden, Darren J. Batey, Christopher S. Allen

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Surface visualisation of bacterial biofilms using neutral atom microscopy. 用中性原子显微镜观察细菌生物膜的表面。

IF 1.9 4区工程技术

Journal of microscopy Pub Date : 2025-10-03 DOI: 10.1111/jmi.70038

Nick A von Jeinsen, David J Ward, Matthew Bergin, Sam M Lambrick, David M Williamson, Richard M Langford, Lisa F Dawson, Vibhuti Rana, Sushma Shivaswamy, Xuening Zhou, Michelle Mikesh, Vernita D Gordon, Brendan W Wren, Katherine A Brown, Paul C Dastoor

引用次数: 0

A fluorescence lifetime separation approach for FLIM live-cell imaging. FLIM活细胞成像的荧光寿命分离方法。

IF 1.9 4区工程技术

Journal of microscopy Pub Date : 2025-09-30 DOI: 10.1111/jmi.70036

Cornelia Wetzker, Marcelo Leomil Zoccoler, Svetlana Iarovenko, Chukwuebuka William Okafornta, Anja Nobst, Hella Hartmann, Thomas Müller-Reichert, Robert Haase, Gunar Fabig

{"title":"A fluorescence lifetime separation approach for FLIM live-cell imaging.","authors":"Cornelia Wetzker, Marcelo Leomil Zoccoler, Svetlana Iarovenko, Chukwuebuka William Okafornta, Anja Nobst, Hella Hartmann, Thomas Müller-Reichert, Robert Haase, Gunar Fabig","doi":"10.1111/jmi.70036","DOIUrl":"https://doi.org/10.1111/jmi.70036","url":null,"abstract":"Fluorescence lifetime imaging microscopy (FLIM) translates the duration of excited states of fluorophores into lifetime information as an additional source of contrast in images of biological samples. This offers the possibility to separate fluorophores particularly beneficial in case of similar excitation spectra. Here, we demonstrate the distinction of fluorescent molecules based on FLIM phasor analysis, called lifetime separation, in live-cell imaging using open-source software for analysis. We showcase two applications using Caenorhabditis elegans as a model system. First, we separated the highly spectrally overlapping fluorophores mCherry and mKate2 to distinctively track tagged proteins in six-dimensional datasets to investigate cell division in the developing early embryo. Second, we separated fluorescence of tagged proteins of interest from masking natural autofluorescence in adult hermaphrodites. For FLIM data handling and workflow implementation, we developed the open-source plugin napari-flim-phasor-plotter to implement conversion, visualisation, analysis and reuse of FLIM data of different formats. Our work thus advances technical applications and bioimage data management and analysis in FLIM microscopy for life science research.","PeriodicalId":16484,"journal":{"name":"Journal of microscopy","volume":" ","pages":""},"PeriodicalIF":1.9,"publicationDate":"2025-09-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145191968","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"工程技术","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Correlation of near-field optical microscopy and tip-assisted photoluminescence. 近场光学显微镜与尖端辅助光致发光的相关性。

IF 1.9 4区工程技术

Journal of microscopy Pub Date : 2025-09-27 DOI: 10.1111/jmi.70037

W Pfeiffer, N S Mueller, R Hillenbrand, I Niehues, P Kusch

{"title":"Correlation of near-field optical microscopy and tip-assisted photoluminescence.","authors":"W Pfeiffer, N S Mueller, R Hillenbrand, I Niehues, P Kusch","doi":"10.1111/jmi.70037","DOIUrl":"https://doi.org/10.1111/jmi.70037","url":null,"abstract":"Nanoscale optical imaging has unlocked unprecedented opportunities for exploring the structural, electronic, and optical properties of low-dimensional materials with spatial resolutions far beyond the diffraction limit. Techniques such as tip-enhanced, and tip-assisted photoluminescence (TEPL and TAPL), as well as scattering-type scanning near-field optical microscopy (s-SNOM) offer unique insights into local strain distributions, exciton dynamics, and dielectric heterogeneities that are inaccessible through conventional far-field approaches, however their combination within the same setup remains challenging. Here we present the realisation of correlative TEPL/TAPL and s-SNOM measurements within a single side-illuminated near-field optical microscope. We address the key experimental challenges inherent to the side-illumination geometry, including precise laser focus alignment, suppression of far-field background signals, and the mitigation of competing scattering pathways. Utilising monolayer WSe2 as a model system, we demonstrate correlative imaging of material topography, strain-induced photoluminescence shifts, and dielectric function variations. We visualise nanoscale heterogeneities on a bubble-like structure, highlighting the complementary information from TAPL and s-SNOM. This correlative approach bridges the gap between nanoscale optical spectroscopy and near-field imaging, offering a powerful tool for probing local strain, doping, exciton behaviour, and dielectric inhomogeneities in low-dimensional materials.","PeriodicalId":16484,"journal":{"name":"Journal of microscopy","volume":" ","pages":""},"PeriodicalIF":1.9,"publicationDate":"2025-09-27","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145175637","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"工程技术","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

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IF 1.9 4区工程技术

Journal of microscopy Pub Date : 2025-09-24 DOI: 10.1111/jmi.70033

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Microstructural characterisation of polycrystalline ice with an etch-pitting replication method. 用蚀刻点蚀复制法表征多晶冰的微观结构。

IF 1.9 4区工程技术

Journal of microscopy Pub Date : 2025-09-23 DOI: 10.1111/jmi.70031

Hatsuki Yamauchi, Lucy Davidson, Christine McCarthy, David J Prior, Jacob A Tielke, Benjamin K Holtzman

{"title":"Microstructural characterisation of polycrystalline ice with an etch-pitting replication method.","authors":"Hatsuki Yamauchi, Lucy Davidson, Christine McCarthy, David J Prior, Jacob A Tielke, Benjamin K Holtzman","doi":"10.1111/jmi.70031","DOIUrl":"https://doi.org/10.1111/jmi.70031","url":null,"abstract":"Etch-pitting replication is a classical method to characterise the microstructure of ice crystals. In this method, a solution of polyvinyl formal (Formvar) is applied to a polished surface of ice. A plastic film, created after the solvent is dried, 'replicates' microstructural features of the ice. By examining the replica film, we can identify the orientation of crystals and existence of dislocations in ice. However, with the recent rise of advanced techniques such as cryo-EBSD (electron backscatter diffraction) analyses, this classical method has been left in the shadows, especially from the perspective of quantification of microstructural features in polycrystalline ice. In this study we revive and thoroughly re-examine the utility of the replication method to quantify crystal orientations and dislocation density of ice. We applied our optimised protocols of the replication method to several laboratory-fabricated and natural-glacier polycrystalline ice samples with various types of crystal preferred orientation (CPO) and various levels of strain. Using high-resolution scanning electron microscope (SEM) images of the obtained replica films, we quantified the extent of CPO and dislocation density of these ice samples. Our results of CPO patterns and dislocation density show good agreement with cryo-EBSD results from the same ice samples or samples at a similar strain level. Although further improvements are needed to make the present method more efficient, our results show promise for using this method to easily, quickly, and affordably quantify microstructural features in polycrystalline ice and to help interpret deformation mechanism of ice.","PeriodicalId":16484,"journal":{"name":"Journal of microscopy","volume":" ","pages":""},"PeriodicalIF":1.9,"publicationDate":"2025-09-23","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145124519","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"工程技术","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

IF 1.9 4区工程技术

Journal of microscopy Pub Date : 2025-09-18 DOI: 10.1111/jmi.70035

Rafael Nadas, Lucas Liberal, Gabriel Bargas, Kenji Watanabe, Takashi Taniguchi, Leonardo C Campos, Ado Jorio

{"title":"<ArticleTitle xmlns:ns0=\"http://www.w3.org/1998/Math/MathML\">Substrate-related optical activity in monolayer <ns0:math> <ns0:semantics><ns0:msub><ns0:mi>WS</ns0:mi> <ns0:mn>2</ns0:mn></ns0:msub> <ns0:annotation>${rm WS}_2$</ns0:annotation></ns0:semantics> </ns0:math> and <ns0:math> <ns0:semantics><ns0:msub><ns0:mi>MoSe</ns0:mi> <ns0:mn>2</ns0:mn></ns0:msub> <ns0:annotation>${rm MoSe}_2$</ns0:annotation></ns0:semantics> </ns0:math> : A tip-enhanced Raman spectroscopy study.","authors":"Rafael Nadas, Lucas Liberal, Gabriel Bargas, Kenji Watanabe, Takashi Taniguchi, Leonardo C Campos, Ado Jorio","doi":"10.1111/jmi.70035","DOIUrl":"https://doi.org/10.1111/jmi.70035","url":null,"abstract":"Transition metal dichalcogenides (TMDs) are promising two-dimensional materials whose properties are strongly influenced by substrate interactions. While conventional Raman spectroscopy probes these effects, its diffraction-limited resolution often averages out local variations such as strain, masking intrinsic behaviours. Here, we employ tip-enhanced Raman spectroscopy (TERS) to investigate the vibrational properties of monolayer <math> <semantics><msub><mi>WS</mi> <mn>2</mn></msub> <annotation>${rm WS}_2$</annotation></semantics> </math> and <math> <semantics><msub><mi>MoSe</mi> <mn>2</mn></msub> <annotation>${rm MoSe}_2$</annotation></semantics> </math> on top of glass and glass/hBN substrates. TERS offers nanometric spatial resolution, allowing direct correlation between Raman features and topographical inhomogeneities. Our results reveal that local variations in strain, doping, and dielectric screening that vary across the substrate interface are often accompanied by nanoscale structural features such as wrinkles, which locally modulate the vibrational response.","PeriodicalId":16484,"journal":{"name":"Journal of microscopy","volume":" ","pages":""},"PeriodicalIF":1.9,"publicationDate":"2025-09-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145080937","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"工程技术","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0