Damla Amutkan Mutlu, Neslihan Bal, Hüseyin Özdikmen, Zekiye Suludere
{"title":"Histomorphology of the Hindgut of Adult Julodis ehrenbergii Laporte, 1835 (Coleoptera: Buprestidae).","authors":"Damla Amutkan Mutlu, Neslihan Bal, Hüseyin Özdikmen, Zekiye Suludere","doi":"10.1093/mam/ozaf079","DOIUrl":"10.1093/mam/ozaf079","url":null,"abstract":"<p><p>The histomorphological features of the internal system in insects are considered important for understanding their biology. Julodis ehrenbergii Laporte, commonly known as the \"jewel beetle or metallic wood-boring beetle,\" belongs to the family Buprestidae, and it is generally known that it feeds on pistachio, oak, blackberry apricot, and Alhagi mannifera Jaub. & Spach plants. This research reports for the first time the histomorphological features of the hindgut of adult J. ehrenbergii using light and scanning electron microscopy. Some characteristics, such as the epithelial layer, cuticle layer, and cross-sectional shape of regions belonging to the hindgut, were described in detail. Three regions that have a straight tubular structure are covered with a muscle layer and tracheal network. The epithelium of the whole hindgut is made up of cuboidal cells. The cuticle layer located on the apical surface of the cells is distinguished as endocuticle and exocuticle. These findings not only provide a foundation for understanding the hindgut morphology of J. ehrenbergii but also offer insights into the evolutionary adaptations of Coleoptera, contributing to broader entomological and ecological studies.</p>","PeriodicalId":18625,"journal":{"name":"Microscopy and Microanalysis","volume":"31 5","pages":""},"PeriodicalIF":3.0,"publicationDate":"2025-09-03","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144961018","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}
Wei Liu, Shengtong Zhang, Carolin B Wahl, Jiezhong Wu, Roberto Dos Reis, Chad A Mirkin, Vinayak P Dravid, Wei Chen, Daniel W Apley
{"title":"End-to-End Automated Segmentation Framework for Four-Dimensional Scanning Transmission Electron Microscopy Data.","authors":"Wei Liu, Shengtong Zhang, Carolin B Wahl, Jiezhong Wu, Roberto Dos Reis, Chad A Mirkin, Vinayak P Dravid, Wei Chen, Daniel W Apley","doi":"10.1093/mam/ozaf094","DOIUrl":"https://doi.org/10.1093/mam/ozaf094","url":null,"abstract":"<p><p>Four-dimensional scanning transmission electron microscopy (4D-STEM) is powerful for rapidly characterizing arrays of nanoparticles produced via high-throughput synthesis. However, such 4D-STEM datasets typically contain thousands of nanoparticles, each characterized by thousands of diffraction patterns spatially distributed across the nanoparticle, necessitating efficient and comprehensive analysis. We propose an end-to-end segmentation framework to automatically segment each nanoparticle into regions with distinct composition/orientation of crystal grains, using only the 4D-STEM data. Bragg disk information is extracted in a physics-informed manner from the diffraction patterns at each spatial location and combined with the real space coordinates to form feature vectors. These feature vectors are then used as inputs to a Gaussian mixture model (GMM) to segment the nanoparticle into distinct regions. We also develop two visualization tools based on the GMM outputs to infer the interface transition and the degree of superposition. Our framework comprehensively integrates machine learning tools and physics knowledge, and provides a basis for substantially compressing enormous 4D-STEM datasets, e.g., by replacing the full 4D-STEM dataset for each nanoparticle with only a single set of Bragg disk features for each distinct crystal grain identified in the nanoparticle. We demonstrate the power of our framework by presenting results for real, complex datasets.</p>","PeriodicalId":18625,"journal":{"name":"Microscopy and Microanalysis","volume":"31 5","pages":""},"PeriodicalIF":3.0,"publicationDate":"2025-09-03","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145301627","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}
{"title":"PeroxiDynA: A New Tool to Analyze Peroxisome Dynamics via 2D Image Processing.","authors":"Vanessa Ferreira, Jéssica Sarabando, Daniela Ribeiro","doi":"10.1093/mam/ozaf090","DOIUrl":"https://doi.org/10.1093/mam/ozaf090","url":null,"abstract":"<p><p>Peroxisomes are dynamic organelles that play important roles in cellular metabolic and signaling pathways and are implicated in several disease conditions. Although a detailed comprehension of peroxisome dynamics is crucial in various contexts of health and disease, its accurate assessment still presents significant challenges, mainly due to their morphological heterogeneity. Here, we discuss different strategies to study peroxisome dynamics and present a semi-automated macro, PeroxiDynA, that enables the analysis of peroxisome dynamics from single-plane confocal images of mammalian cells in ImageJ. Our findings confirm that PeroxiDynA can be successfully employed to determine relative peroxisome number and spatial distribution. A comparison between PeroxiDynA and other image analysis strategies reveals that it results in increased reliability in the analysis of peroxisome abundance and morphology. Although future improvements are still required to minimize the time and limitations imposed during analysis of peroxisomal features, we propose that PeroxiDynA is a useful tool for biomolecular studies, not only to analyze peroxisomes but also the dynamics of small biological structures in cells from mammals and other organisms.</p>","PeriodicalId":18625,"journal":{"name":"Microscopy and Microanalysis","volume":"31 5","pages":""},"PeriodicalIF":3.0,"publicationDate":"2025-09-03","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145213164","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}
{"title":"Correction to: Post-Hatching Development of the Tongue in Egyptian Fayoumi Chickens (Gallus g. domesticus): New Emphasis on Age-Relational Through Scanning Electron Microscopy, Histological, and Histochemical Techniques.","authors":"","doi":"10.1093/mam/ozaf093","DOIUrl":"https://doi.org/10.1093/mam/ozaf093","url":null,"abstract":"","PeriodicalId":18625,"journal":{"name":"Microscopy and Microanalysis","volume":"31 5","pages":""},"PeriodicalIF":3.0,"publicationDate":"2025-09-03","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145244440","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}
{"title":"Correction to: articles.","authors":"","doi":"10.1093/mam/ozaf085","DOIUrl":"https://doi.org/10.1093/mam/ozaf085","url":null,"abstract":"","PeriodicalId":18625,"journal":{"name":"Microscopy and Microanalysis","volume":"31 5","pages":""},"PeriodicalIF":3.0,"publicationDate":"2025-09-03","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145015711","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}
S Calderon V, Charles Evans, Samantha T Jaszewski, Jon F Ihlefeld, Elizabeth C Dickey
{"title":"Nanoscale Phase Identification Using Two-Dimensional Pair Correlation Functions: A Case Study on Hafnium Oxide.","authors":"S Calderon V, Charles Evans, Samantha T Jaszewski, Jon F Ihlefeld, Elizabeth C Dickey","doi":"10.1093/mam/ozaf083","DOIUrl":"https://doi.org/10.1093/mam/ozaf083","url":null,"abstract":"<p><p>Accurate identification of local phases in nanocrystalline materials is essential for understanding their functional properties, but it remains a significant challenge for polymorphic materials to locally differentiate them at nanoscale. This challenge is further compounded in polycrystalline materials with randomly oriented grains and the coexistence of multiple phases. In this report, we present a methodology for phase and orientation identification at the nanoscale by leveraging vector pair correlation functions extracted from atomically resolved scanning transmission electron microscopy (STEM) images. We demonstrate the accuracy of the methodology on both simulated and experimental data from HfO2-based films, a material that exhibits multiple coexisting phases in films with thicknesses ranging from 5 to 20 nm. While demonstrated on HfO2 films, the methodology can be extended to other polymorphic nanocrystalline systems with complex phase coexistence.</p>","PeriodicalId":18625,"journal":{"name":"Microscopy and Microanalysis","volume":"31 5","pages":""},"PeriodicalIF":3.0,"publicationDate":"2025-09-03","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145131440","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}
Atieh Seyedian Moghaddam, Stefan H Geyer, Theresia Stigger, Lukas F Reissig, Wolfgang J Weninger
{"title":"Dermal Arteries of the Human Thumb: Arterial Units, Sucquet-Hoyer Canals, and Arterio-Arterial Anastomoses in Pad Versus Tip.","authors":"Atieh Seyedian Moghaddam, Stefan H Geyer, Theresia Stigger, Lukas F Reissig, Wolfgang J Weninger","doi":"10.1093/mam/ozaf081","DOIUrl":"10.1093/mam/ozaf081","url":null,"abstract":"<p><p>The dermal arteries of the finger are organized in discrete units. We hypothesized that the anatomy of the dermal arterial units and the number and complexity of dermal Sucquet-Hoyer canals (SHCs) differ between the tip and center of the pad of the thumb. To test this, digital HREM volume datasets (voxel dimensions of 1-3 μm³) were created from biopsies harvested from the thumb tip and pad of six body donors. They were analyzed using virtual sectioning and three-dimensional (3D) surface and volume models. In the tip samples, two to six arteries entered the dermis via a square of 4 mm2 of the dermo-hypodermal junction. They supplied 1.16 mm2 surface and connected to ∼5.5 SHCs. Conversely, in 50% of pad samples, no dermal artery entered via the dermo-hypodermal junction. In the remaining 50%, one or two arteries supplied an average surface of 2.08 mm2 and fed ∼2.5 SHCs. SHC tortuosity and the number of arterio-arterial bridge anastomoses were similar in the tip and pad. Our results support the concept of discrete dermal arterial units. The differences in the dermal microanatomy between the thumb's tip and pad are of particular significance, since they may reflect distinct functional requirements and different reactions to injury and pathogens.</p>","PeriodicalId":18625,"journal":{"name":"Microscopy and Microanalysis","volume":"31 5","pages":""},"PeriodicalIF":3.0,"publicationDate":"2025-09-03","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144961101","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}
Weijing Liang, Zhiyu Xiao, Lingmin Xie, Xingbang Xiong, Lei Liu, Min Hu, Zhengfei Zhuang
{"title":"AutoFRET: An Image Processing-Based ROI Automated Selection Method for Quantitative FRET Measurements.","authors":"Weijing Liang, Zhiyu Xiao, Lingmin Xie, Xingbang Xiong, Lei Liu, Min Hu, Zhengfei Zhuang","doi":"10.1093/mam/ozaf016","DOIUrl":"10.1093/mam/ozaf016","url":null,"abstract":"<p><p>The emission-based fluorescence resonance energy transfer (E-FRET), renowned for its rapid detection, noninvasiveness towards fluorophores, and compatibility with both wide-field and confocal microscopy, is extensively employed in dynamically monitoring intermolecular interactions within living cells. However, E-FRET requires manual screening of hundreds to thousands of images for regions meeting specific criteria, a labor-intensive process devoid of mature automation solutions. In this article, we introduce AutoFRET, the automated and efficient solution tailored for E-FRET experimentation. AutoFRET harnesses image processing algorithms to swiftly and precisely identify target regions amidst vast image datasets. Furthermore, to mitigate the impact of dead cells in images on experimental results, we devise a novel cell morphology-based approach for their identification and exclusion. AutoFRET significantly reduces the time commitment for E-FRET experimental data analysis, condensing the entire process to the minute level. Comprehensive experimental evaluations reveal an average accuracy exceeding 95% for AutoFRET. This research presents a highly automated and reliable platform that expeditiously quantifies molecular interactions in living cells leveraging FRET technology, poised to contribute to advancements in quantitative biological research.</p>","PeriodicalId":18625,"journal":{"name":"Microscopy and Microanalysis","volume":"31 5","pages":""},"PeriodicalIF":3.0,"publicationDate":"2025-09-03","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144960944","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}
{"title":"Correction to: Advancing Super-Resolution Microscopy: Recent Innovations in Commercial Instruments.","authors":"","doi":"10.1093/mam/ozaf089","DOIUrl":"https://doi.org/10.1093/mam/ozaf089","url":null,"abstract":"","PeriodicalId":18625,"journal":{"name":"Microscopy and Microanalysis","volume":"31 5","pages":""},"PeriodicalIF":3.0,"publicationDate":"2025-09-03","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145092064","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}
Ju Ran Byeon, Eun Mi Song, Yang Hee Joo, A Reum Choe, Yehyun Park, Chung Hyun Tae, Chang Mo Moon, Seong-Eun Kim, Hye-Kyung Jung, Ki-Nam Shim, Sung-Ae Jung
{"title":"Exploring the Morphologic Characteristics of Intraperitoneally Injected Three-Dimensional-Cultured Tonsil-Derived Mesenchymal Stem Cells in a Murine Colitis Model Using Electron Microscopy.","authors":"Ju Ran Byeon, Eun Mi Song, Yang Hee Joo, A Reum Choe, Yehyun Park, Chung Hyun Tae, Chang Mo Moon, Seong-Eun Kim, Hye-Kyung Jung, Ki-Nam Shim, Sung-Ae Jung","doi":"10.1093/mam/ozae135","DOIUrl":"https://doi.org/10.1093/mam/ozae135","url":null,"abstract":"<p><p>Three-dimensional (3D)-cultured tonsil-derived mesenchymal stem cells (TMSCs) show high therapeutic efficacy in murine colitis. We evaluated the in vivo localization and formation of 3D-TMSCs using electron microscopy. Mice with dextran sulfate sodium-induced chronic colitis received intraperitoneal injections of 3D-TMSCs. The formation and localization of TMSC aggregates in the peritoneal cavity were assessed by immunofluorescence and electron microscopy. In mice treated with 3D-TMSCs, white spherical aggregates attached to the peritoneal cavity were observed. Immunofluorescence staining revealed the co-localization of human-origin TMSCs and mouse immune cells within these aggregates. The presence of human glyceraldehyde-3-phosphate dehydrogenase (GAPDH) confirmed the presence of human-origin TMSCs in the aggregates. Electron microscopy revealed that 3D-TMSCs were covered with mouse immune cells. The presence of pseudopodia and microvilli facilitated cell-to-cell connections, indicating a complex integrated structure rather than a mere collection of TMSCs. After 15 days, rough endoplasmic reticulum and mitochondria were identified within the cytoplasm of the TMSCs. Prominent autophagosomes and extracellular vesicles were observed within the intraperitoneal 3D-TMSC aggregates. These findings underscore the viability and paracrine effects of 3D-TMSCs and support their potential as an advanced therapeutic option for treating inflammatory bowel disease.</p>","PeriodicalId":18625,"journal":{"name":"Microscopy and Microanalysis","volume":"31 5","pages":""},"PeriodicalIF":3.0,"publicationDate":"2025-09-03","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145131314","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}