Journal of cell science最新文献

cellPLATO - an unsupervised method for identifying cell behaviour in heterogeneous cell trajectory data. cellPLATO：在异质细胞轨迹数据中识别细胞行为的无监督方法。

IF 3.3 3区生物学

Journal of cell science Pub Date : 2024-10-15 Epub Date: 2024-06-12 DOI: 10.1242/jcs.261887

Michael J Shannon, Shira E Eisman, Alan R Lowe, Tyler F W Sloan, Emily M Mace

{"title":"cellPLATO - an unsupervised method for identifying cell behaviour in heterogeneous cell trajectory data.","authors":"Michael J Shannon, Shira E Eisman, Alan R Lowe, Tyler F W Sloan, Emily M Mace","doi":"10.1242/jcs.261887","DOIUrl":"10.1242/jcs.261887","url":null,"abstract":"Advances in imaging, segmentation and tracking have led to the routine generation of large and complex microscopy datasets. New tools are required to process this 'phenomics' type data. Here, we present 'Cell PLasticity Analysis Tool' (cellPLATO), a Python-based analysis software designed for measurement and classification of cell behaviours based on clustering features of cell morphology and motility. Used after segmentation and tracking, the tool extracts features from each cell per timepoint, using them to segregate cells into dimensionally reduced behavioural subtypes. Resultant cell tracks describe a 'behavioural ID' at each timepoint, and similarity analysis allows the grouping of behavioural sequences into discrete trajectories with assigned IDs. Here, we use cellPLATO to investigate the role of IL-15 in modulating human natural killer (NK) cell migration on ICAM-1 or VCAM-1. We find eight behavioural subsets of NK cells based on their shape and migration dynamics between single timepoints, and four trajectories based on sequences of these behaviours over time. Therefore, by using cellPLATO, we show that IL-15 increases plasticity between cell migration behaviours and that different integrin ligands induce different forms of NK cell migration.","PeriodicalId":15227,"journal":{"name":"Journal of cell science","volume":null,"pages":null},"PeriodicalIF":3.3,"publicationDate":"2024-10-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11213520/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140911834","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Expansion microscopy reveals characteristic ultrastructural features of pathogenic budding yeast species. 膨胀显微镜揭示了致病芽殖酵母物种特有的超微结构特征。

IF 3.3 3区生物学

Journal of cell science Pub Date : 2024-10-15 Epub Date: 2024-09-09 DOI: 10.1242/jcs.262046

Md Hashim Reza, Srijana Dutta, Rohit Goyal, Hiral Shah, Gautam Dey, Kaustuv Sanyal

{"title":"Expansion microscopy reveals characteristic ultrastructural features of pathogenic budding yeast species.","authors":"Md Hashim Reza, Srijana Dutta, Rohit Goyal, Hiral Shah, Gautam Dey, Kaustuv Sanyal","doi":"10.1242/jcs.262046","DOIUrl":"10.1242/jcs.262046","url":null,"abstract":"Candida albicans is the most prevalent fungal pathogen associated with candidemia. Similar to other fungi, the complex life cycle of C. albicans has been challenging to study with high-resolution microscopy due to its small size. Here, we employed ultrastructure expansion microscopy (U-ExM) to directly visualise subcellular structures at high resolution in the yeast and during its transition to hyphal growth. N-hydroxysuccinimide (NHS)-ester pan-labelling in combination with immunofluorescence via snapshots of various mitotic stages provided a comprehensive map of nucleolar and mitochondrial segregation dynamics and enabled the resolution of the inner and outer plaque of spindle pole bodies (SPBs). Analyses of microtubules (MTs) and SPBs suggest that C. albicans displays a side-by-side SPB arrangement with a short mitotic spindle and longer astral MTs (aMTs) at the pre-anaphase stage. Modifications to the established U-ExM protocol enabled the expansion of six other human fungal pathogens, revealing that the side-by-side SPB configuration is a plausibly conserved feature shared by many fungal species. We highlight the power of U-ExM to investigate subcellular organisation at high resolution and low cost in poorly studied and medically relevant microbial pathogens.","PeriodicalId":15227,"journal":{"name":"Journal of cell science","volume":null,"pages":null},"PeriodicalIF":3.3,"publicationDate":"2024-10-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141758958","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Role of a novel uropod-like cell membrane protrusion in the pathogenesis of the parasite Trichomonas vaginalis. 新型尿囊样细胞膜突起在阴道毛滴虫致病过程中的作用。

IF 3.3 3区生物学

Journal of cell science Pub Date : 2024-10-15 Epub Date: 2024-09-09 DOI: 10.1242/jcs.262210

Manuela Blasco Pedreros, Nehuen Salas, Tuanne Dos Santos Melo, Abigail Miranda-Magalhães, Thainá Almeida-Lima, Antonio Pereira-Neves, Natalia de Miguel

{"title":"Role of a novel uropod-like cell membrane protrusion in the pathogenesis of the parasite Trichomonas vaginalis.","authors":"Manuela Blasco Pedreros, Nehuen Salas, Tuanne Dos Santos Melo, Abigail Miranda-Magalhães, Thainá Almeida-Lima, Antonio Pereira-Neves, Natalia de Miguel","doi":"10.1242/jcs.262210","DOIUrl":"10.1242/jcs.262210","url":null,"abstract":"Trichomonas vaginalis causes trichomoniasis, the most common non-viral sexually transmitted disease worldwide. As an extracellular parasite, adhesion to host cells is essential for the development of infection. During attachment, the parasite changes its tear ovoid shape to a flat ameboid form, expanding the contact surface and migrating through tissues. Here, we have identified a novel structure formed at the posterior pole of adherent parasite strains, resembling the previously described uropod, which appears to play a pivotal role as an anchor during the attachment process. Moreover, our research demonstrates that the overexpression of the tetraspanin T. vaginalis TSP5 protein (TvTSP5), which is localized on the cell surface of the parasite, notably enhances the formation of this posterior anchor structure in adherent strains. Finally, we demonstrate that parasites that overexpress TvTSP5 possess an increased ability to adhere to host cells, enhanced aggregation and reduced migration on agar plates. Overall, these findings unveil novel proteins and structures involved in the intricate mechanisms of T. vaginalis interactions with host cells.","PeriodicalId":15227,"journal":{"name":"Journal of cell science","volume":null,"pages":null},"PeriodicalIF":3.3,"publicationDate":"2024-10-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141916836","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Multiscale chromatin dynamics and high entropy in plant iPSC ancestors. 植物 iPSC 祖先的多尺度染色质动力学和高熵。

IF 3.3 3区生物学

Journal of cell science Pub Date : 2024-10-15 Epub Date: 2024-06-24 DOI: 10.1242/jcs.261703

Kinga Rutowicz, Joel Lüthi, Reinoud de Groot, René Holtackers, Yauhen Yakimovich, Diana M Pazmiño, Olivier Gandrillon, Lucas Pelkmans, Célia Baroux

{"title":"Multiscale chromatin dynamics and high entropy in plant iPSC ancestors.","authors":"Kinga Rutowicz, Joel Lüthi, Reinoud de Groot, René Holtackers, Yauhen Yakimovich, Diana M Pazmiño, Olivier Gandrillon, Lucas Pelkmans, Célia Baroux","doi":"10.1242/jcs.261703","DOIUrl":"10.1242/jcs.261703","url":null,"abstract":"Plant protoplasts provide starting material for of inducing pluripotent cell masses that are competent for tissue regeneration in vitro, analogous to animal induced pluripotent stem cells (iPSCs). Dedifferentiation is associated with large-scale chromatin reorganisation and massive transcriptome reprogramming, characterised by stochastic gene expression. How this cellular variability reflects on chromatin organisation in individual cells and what factors influence chromatin transitions during culturing are largely unknown. Here, we used high-throughput imaging and a custom supervised image analysis protocol extracting over 100 chromatin features of cultured protoplasts. The analysis revealed rapid, multiscale dynamics of chromatin patterns with a trajectory that strongly depended on nutrient availability. Decreased abundance in H1 (linker histones) is hallmark of chromatin transitions. We measured a high heterogeneity of chromatin patterns indicating intrinsic entropy as a hallmark of the initial cultures. We further measured an entropy decline over time, and an antagonistic influence by external and intrinsic factors, such as phytohormones and epigenetic modifiers, respectively. Collectively, our study benchmarks an approach to understand the variability and evolution of chromatin patterns underlying plant cell reprogramming in vitro.","PeriodicalId":15227,"journal":{"name":"Journal of cell science","volume":null,"pages":null},"PeriodicalIF":3.3,"publicationDate":"2024-10-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11234377/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140911837","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","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 3D imaging approach for quantification of GLUT4 levels across the intact myocardium. 用于量化完整心肌中 GLUT4 水平的新型三维成像方法。

IF 3.3 3区生物学

Journal of cell science Pub Date : 2024-10-15 Epub Date: 2024-08-05 DOI: 10.1242/jcs.262146

Angéline Geiser, Susan Currie, Hadi Al-Hasani, Alexandra Chadt, Gail McConnell, Gwyn W Gould

{"title":"A novel 3D imaging approach for quantification of GLUT4 levels across the intact myocardium.","authors":"Angéline Geiser, Susan Currie, Hadi Al-Hasani, Alexandra Chadt, Gail McConnell, Gwyn W Gould","doi":"10.1242/jcs.262146","DOIUrl":"10.1242/jcs.262146","url":null,"abstract":"Cellular heterogeneity is a well-accepted feature of tissues, and both transcriptional and metabolic diversity have been revealed by numerous approaches, including optical imaging. However, the high magnification objective lenses needed for high-resolution imaging provides information from only small layers of tissue, which can result in poor cell statistics. There is therefore an unmet need for an imaging modality that can provide detailed molecular and cellular insight within intact tissue samples in 3D. Using GFP-tagged GLUT4 as proof of concept, we present here a novel optical mesoscopy approach that allows precise measurement of the spatial location of GLUT4 within specific anatomical structures across the myocardium in ultrathick sections (5 mm×5 mm×3 mm) of intact mouse heart. We reveal distinct GLUT4 distribution patterns across cardiac walls and highlight specific changes in GLUT4 expression levels in response to high fat diet-feeding, and we identify sex-dependent differences in expression patterns. This method is applicable to any target that can be labelled for light microscopy, and to other complex tissues when organ structure needs to be considered simultaneously with cellular detail.","PeriodicalId":15227,"journal":{"name":"Journal of cell science","volume":null,"pages":null},"PeriodicalIF":3.3,"publicationDate":"2024-10-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141492071","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Immuno-scanning electron microscopy of islet primary cilia. 胰岛初级纤毛的免疫扫描电子显微镜。

IF 3.3 3区生物学

Journal of cell science Pub Date : 2024-10-15 Epub Date: 2024-05-28 DOI: 10.1242/jcs.262038

Sanja Sviben, Alexander J Polino, Isabella L Melena, Jing W Hughes

引用次数: 0

pHusion - a robust and versatile toolset for automated detection and analysis of exocytosis. pHusion：用于自动检测和分析外吞功能的强大而多用途的工具集。

IF 3.3 3区生物学

Journal of cell science Pub Date : 2024-10-15 Epub Date: 2024-06-07 DOI: 10.1242/jcs.261828

Ellen C O'Shaughnessy, Mable Lam, Samantha E Ryken, Theresa Wiesner, Kimberly Lukasik, J Bradley Zuchero, Christophe Leterrier, David Adalsteinsson, Stephanie L Gupton

{"title":"pHusion - a robust and versatile toolset for automated detection and analysis of exocytosis.","authors":"Ellen C O'Shaughnessy, Mable Lam, Samantha E Ryken, Theresa Wiesner, Kimberly Lukasik, J Bradley Zuchero, Christophe Leterrier, David Adalsteinsson, Stephanie L Gupton","doi":"10.1242/jcs.261828","DOIUrl":"10.1242/jcs.261828","url":null,"abstract":"Exocytosis is a fundamental process used by eukaryotes to regulate the composition of the plasma membrane and facilitate cell-cell communication. To investigate exocytosis in neuronal morphogenesis, previously we developed computational tools with a graphical user interface to enable the automatic detection and analysis of exocytic events from fluorescence timelapse images. Although these tools were useful, we found the code was brittle and not easily adapted to different experimental conditions. Here, we developed and validated a robust and versatile toolkit, named pHusion, for the analysis of exocytosis, written in ImageTank, a graphical programming language that combines image visualization and numerical methods. We tested pHusion using a variety of imaging modalities and pH-sensitive fluorophores, diverse cell types and various exocytic markers, to generate a flexible and intuitive package. Using this system, we show that VAMP3-mediated exocytosis occurs 30-times more frequently in melanoma cells compared with primary oligodendrocytes, that VAMP2-mediated fusion events in mature rat hippocampal neurons are longer lasting than those in immature murine cortical neurons, and that exocytic events are clustered in space yet random in time in developing cortical neurons.","PeriodicalId":15227,"journal":{"name":"Journal of cell science","volume":null,"pages":null},"PeriodicalIF":3.3,"publicationDate":"2024-10-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11190432/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140848842","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Lipid droplet dynamics are essential for the development of the malaria parasite Plasmodium falciparum. 脂滴动力学对恶性疟原虫的发育至关重要。

IF 3.3 3区生物学

Journal of cell science Pub Date : 2024-10-15 Epub Date: 2024-08-08 DOI: 10.1242/jcs.262162

Jiwon Lee, Kai Matuschewski, Giel van Dooren, Alexander G Maier, Melanie Rug

{"title":"Lipid droplet dynamics are essential for the development of the malaria parasite Plasmodium falciparum.","authors":"Jiwon Lee, Kai Matuschewski, Giel van Dooren, Alexander G Maier, Melanie Rug","doi":"10.1242/jcs.262162","DOIUrl":"10.1242/jcs.262162","url":null,"abstract":"Lipid droplets (LDs) are organelles that are central to lipid and energy homeostasis across all eukaryotes. In the malaria-causing parasite Plasmodium falciparum the roles of LDs in lipid acquisition from its host cells and their metabolism are poorly understood, despite the high demand for lipids in parasite membrane synthesis. We systematically characterised LD size, composition and dynamics across the disease-causing blood infection. Applying split fluorescence emission analysis and three-dimensional (3D) focused ion beam-scanning electron microscopy (FIB-SEM), we observed a decrease in LD size in late schizont stages. LD contraction likely signifies a switch from lipid accumulation to lipid utilisation in preparation for parasite egress from host red blood cells. We demonstrate connections between LDs and several parasite organelles, pointing to potential functional interactions. Chemical inhibition of triacylglyerol (TAG) synthesis or breakdown revealed essential LD functions for schizogony and in counteracting lipid toxicity. The dynamics of lipid synthesis, storage and utilisation in P. falciparum LDs might provide a target for new anti-malarial intervention strategies.","PeriodicalId":15227,"journal":{"name":"Journal of cell science","volume":null,"pages":null},"PeriodicalIF":3.3,"publicationDate":"2024-10-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141498149","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Mature microRNA-binding protein QKI suppresses extracellular microRNA let-7b release. 成熟 microRNA 结合蛋白 QKI 可抑制细胞外 microRNA let-7b 的释放。

IF 3.3 3区生物学

Journal of cell science Pub Date : 2024-09-23 DOI: 10.1242/jcs.261575

Kyung-Won Min, Kyoung-Min Choi, Hyejin Mun, Seungbeom Ko, Ji Won Lee, Cari A Sagum, Mark T Bedford, Young-Kook Kim, Joe R Delaney, Jung-Hyun Cho, Ted M Dawson, Valina L Dawson, Waleed Twal, Dong-Chan Kim, Clarisse H Panganiban, Hainan Lang, Xin Zhou, Seula Shin, Jian Hu, Tilman Heise, Sang-Ho Kwon, Dongsan Kim, Young Hwa Kim, Sung-Ung Kang, Kyungmin Kim, Sydney Lewis, Ahmet Eroglu, Seonghyun Ryu, Dongin Kim, Jeong Ho Chang, Junyang Jung, Je-Hyun Yoon

{"title":"Mature microRNA-binding protein QKI suppresses extracellular microRNA let-7b release.","authors":"Kyung-Won Min, Kyoung-Min Choi, Hyejin Mun, Seungbeom Ko, Ji Won Lee, Cari A Sagum, Mark T Bedford, Young-Kook Kim, Joe R Delaney, Jung-Hyun Cho, Ted M Dawson, Valina L Dawson, Waleed Twal, Dong-Chan Kim, Clarisse H Panganiban, Hainan Lang, Xin Zhou, Seula Shin, Jian Hu, Tilman Heise, Sang-Ho Kwon, Dongsan Kim, Young Hwa Kim, Sung-Ung Kang, Kyungmin Kim, Sydney Lewis, Ahmet Eroglu, Seonghyun Ryu, Dongin Kim, Jeong Ho Chang, Junyang Jung, Je-Hyun Yoon","doi":"10.1242/jcs.261575","DOIUrl":"https://doi.org/10.1242/jcs.261575","url":null,"abstract":"Argonaute (AGO), a component of RNA-induced silencing complexes (RISCs), is a representative RNA-binding protein (RBP) known to bind with mature microRNA (miRNA) and is directly involved in post-transcriptional gene silencing. However, despite the biological significance of miRNA, the roles of other micro RNA-binding proteins (miRBPs) remain unclear in regulation of miRNA loading, dissociation from RISC, and extracellular release. In this study, we perform protein arrays to profile miRBPs and identify 118 RNA-binding proteins directly binding with miRNAs. Among those proteins, RBP quaking (QKI) inhibits extracellular release of mature microRNA let-7b by controlling the loading of let-7b into extracellular vesicles via additional miRBPs such as hnRNPD/AUF1 and hnRNPK. The enhanced extracellular release of let-7b after QKI depletion activates the Toll-like Receptor 7 (TLR7) and promotes the production of proinflammatory cytokines in recipient cells, leading to brain inflammation in mouse cortex. Thus, this study reveals contribution of QKI to the inhibition of brain inflammation via regulation of extracellular let-7b release.","PeriodicalId":15227,"journal":{"name":"Journal of cell science","volume":null,"pages":null},"PeriodicalIF":3.3,"publicationDate":"2024-09-23","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142288103","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Precision in situ cryo-correlative light and electron microscopy of optogenetically-positioned organelles. 对光遗传定位细胞器进行精确的原位冷冻相关光镜和电子显微镜观察。

IF 3.3 3区生物学

Journal of cell science Pub Date : 2024-09-23 DOI: 10.1242/jcs.262163

V A Tillu, G M I Redpath, J Rae, J Ruan, Y Yao, M L Cagigas, R Whan, E C Hardeman, P W Gunning, V Ananthanarayanan, R G Parton, N A Ariotti

引用次数: 0