Pub Date : 2026-01-08DOI: 10.1140/epje/s10189-025-00542-y
Lucas Anger, Andreas Schoenit, Fanny Wodrascka, Carine Rossé, René-Marc Mège, Benoit Ladoux, Philippe Marcq
Cells within biological tissue are constantly subjected to dynamic mechanical forces. Measuring the internal stress of tissues has proven crucial for our understanding of the role of mechanical forces in fundamental biological processes like morphogenesis, collective migration, cell division or cell elimination and death. Previously, we have introduced Bayesian inversion stress microscopy (BISM), which is relying on measuring cell-generated traction forces in vitro and has proven particularly useful to measure absolute stresses in confined cell monolayers. We further demonstrate the applicability and robustness of BISM across various experimental settings with different boundary conditions, ranging from confined tissues of arbitrary shape to monolayers composed of different cell types. Importantly, BISM does not require assumptions on cell rheology. Therefore, it can be applied to complex heterogeneous tissues consisting of different cell types, as long as they can be grown on a flat substrate. Finally, we compare BISM to other common stress measurement techniques using a coherent experimental setup, followed by a discussion on its limitations and further perspectives.
{"title":"Tissue stress measurements with Bayesian inversion stress microscopy","authors":"Lucas Anger, Andreas Schoenit, Fanny Wodrascka, Carine Rossé, René-Marc Mège, Benoit Ladoux, Philippe Marcq","doi":"10.1140/epje/s10189-025-00542-y","DOIUrl":"10.1140/epje/s10189-025-00542-y","url":null,"abstract":"<p>Cells within biological tissue are constantly subjected to dynamic mechanical forces. Measuring the internal stress of tissues has proven crucial for our understanding of the role of mechanical forces in fundamental biological processes like morphogenesis, collective migration, cell division or cell elimination and death. Previously, we have introduced Bayesian inversion stress microscopy (BISM), which is relying on measuring cell-generated traction forces <i>in vitro</i> and has proven particularly useful to measure absolute stresses in confined cell monolayers. We further demonstrate the applicability and robustness of BISM across various experimental settings with different boundary conditions, ranging from confined tissues of arbitrary shape to monolayers composed of different cell types. Importantly, BISM does not require assumptions on cell rheology. Therefore, it can be applied to complex heterogeneous tissues consisting of different cell types, as long as they can be grown on a flat substrate. Finally, we compare BISM to other common stress measurement techniques using a coherent experimental setup, followed by a discussion on its limitations and further perspectives.\u0000</p>","PeriodicalId":790,"journal":{"name":"The European Physical Journal E","volume":"49 1-2","pages":""},"PeriodicalIF":2.2,"publicationDate":"2026-01-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145909033","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"物理与天体物理","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2025-12-26DOI: 10.1140/epje/s10189-025-00547-7
Simone Napolitano
In the early 2000s, Long and Lequeux established the first quantitative link between dynamic heterogeneity in the bulk and shifts in the glass transition temperature (T_g) of thin films. Their minimal mean-field model demonstrated that equilibrium density fluctuations give rise to nanometric slow domains, the percolation of which governs vitrification. By showing how geometrical confinement alters this percolation pathway, they predicted (T_g) shifts using only bulk properties, without fitting interfacial parameters. This conceptual breakthrough, in which finite-size effects emerge from projecting bulk dynamic heterogeneity onto a restricted geometry, constitutes the enduring legacy of their work. Subsequent experiments have confirmed this picture, showing that (T_g) depression in free-standing films scales with the thickness of a liquid-like surface layer, while in supported systems mobility gradients reflect the reorganization of slow domains anchored at the interface. Looking forward, I outline at the end of this perspective several possible directions for refining this framework so as to capture a broader spectrum of relaxation channels, thereby enriching our understanding of dynamics in both bulk and confined polymer melts.
{"title":"Projecting dynamic heterogeneity into nanoconfinement: the enduring legacy of the Long–Lequeux model","authors":"Simone Napolitano","doi":"10.1140/epje/s10189-025-00547-7","DOIUrl":"10.1140/epje/s10189-025-00547-7","url":null,"abstract":"<p>In the early 2000s, Long and Lequeux established the first quantitative link between dynamic heterogeneity in the bulk and shifts in the glass transition temperature <span>(T_g)</span> of thin films. Their minimal mean-field model demonstrated that equilibrium density fluctuations give rise to nanometric slow domains, the percolation of which governs vitrification. By showing how geometrical confinement alters this percolation pathway, they predicted <span>(T_g)</span> shifts using only bulk properties, without fitting interfacial parameters. This conceptual breakthrough, in which finite-size effects emerge from projecting bulk dynamic heterogeneity onto a restricted geometry, constitutes the enduring legacy of their work. Subsequent experiments have confirmed this picture, showing that <span>(T_g)</span> depression in free-standing films scales with the thickness of a liquid-like surface layer, while in supported systems mobility gradients reflect the reorganization of slow domains anchored at the interface. Looking forward, I outline at the end of this perspective several possible directions for refining this framework so as to capture a broader spectrum of relaxation channels, thereby enriching our understanding of dynamics in both bulk and confined polymer melts.</p>","PeriodicalId":790,"journal":{"name":"The European Physical Journal E","volume":"48 10-12","pages":""},"PeriodicalIF":2.2,"publicationDate":"2025-12-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145831210","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"物理与天体物理","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2025-12-20DOI: 10.1140/epje/s10189-025-00539-7
Niloofar Pishkari, Eloina Corradi, Gawoon Shim, Daniel Cohen, Marine Luciano, Sylvain Gabriele, Giovanni Cappello, Thomas Boudou, Martial Balland
Cell migration is a cornerstone of biological systems, enabling organisms to adapt to environmental stimuli and maintain homeostasis. Disruptions in this process can lead to functional impairment or system failure. In many cases, cells do not move randomly; instead, they migrate directionally in response to external cues, allowing them to perform essential biological functions. This directed movement is especially important in processes such as morphogenesis, cancer invasion, and wound healing. To unravel the complexities of directional cell migration, investigating natural guiding stimuli is crucial. Among these, electrical fields stand out as precise and physiologically relevant stimulus. Using a platform designed to apply programmable electric fields, the SCHEEPDOG device, we applied controlled electric field of varying intensities to keratocytes and quantitatively analyzed their migratory behavior. Our findings reveal that electric field stimulation not only induces robust directional migration but also enhances migration speed in an intensity-dependent manner. Additionally, cells initially moving in random directions gradually align with the field vector, with higher intensities accelerating the alignment. Intriguingly, while both speed and alignment time can be modulated through stimulation, the overall shape of migration trajectories remains unchanged. In other terms, for cells initially moving to the opposite direction of the field, the alignment is accompanied by making a turn and the size and shape of this turn are not affected by the magnitude of the electrical stimulation. Together, these results demonstrate that electrical stimulation can tune the speed and directional alignment of keratocyte migration without altering turning dynamics. These findings contribute to a deeper understanding of electrotaxis and offers new insights into how biophysical cues regulate cell migration in both physiological and pathological contexts.
Graphic abstract
Schematic represents cell alignment behavior under increasing electric field. Electrical stimulation tune cell speed and directional alignment without altering their turning dynamics
{"title":"Electric field intensity modulates keratocyte migration without altering turning dynamics","authors":"Niloofar Pishkari, Eloina Corradi, Gawoon Shim, Daniel Cohen, Marine Luciano, Sylvain Gabriele, Giovanni Cappello, Thomas Boudou, Martial Balland","doi":"10.1140/epje/s10189-025-00539-7","DOIUrl":"10.1140/epje/s10189-025-00539-7","url":null,"abstract":"<div><p>Cell migration is a cornerstone of biological systems, enabling organisms to adapt to environmental stimuli and maintain homeostasis. Disruptions in this process can lead to functional impairment or system failure. In many cases, cells do not move randomly; instead, they migrate directionally in response to external cues, allowing them to perform essential biological functions. This directed movement is especially important in processes such as morphogenesis, cancer invasion, and wound healing. To unravel the complexities of directional cell migration, investigating natural guiding stimuli is crucial. Among these, electrical fields stand out as precise and physiologically relevant stimulus. Using a platform designed to apply programmable electric fields, the SCHEEPDOG device, we applied controlled electric field of varying intensities to keratocytes and quantitatively analyzed their migratory behavior. Our findings reveal that electric field stimulation not only induces robust directional migration but also enhances migration speed in an intensity-dependent manner. Additionally, cells initially moving in random directions gradually align with the field vector, with higher intensities accelerating the alignment. Intriguingly, while both speed and alignment time can be modulated through stimulation, the overall shape of migration trajectories remains unchanged. In other terms, for cells initially moving to the opposite direction of the field, the alignment is accompanied by making a turn and the size and shape of this turn are not affected by the magnitude of the electrical stimulation. Together, these results demonstrate that electrical stimulation can tune the speed and directional alignment of keratocyte migration without altering turning dynamics. These findings contribute to a deeper understanding of electrotaxis and offers new insights into how biophysical cues regulate cell migration in both physiological and pathological contexts.</p><h3>Graphic abstract</h3><div><figure><div><div><picture><source><img></source></picture></div><div><p>Schematic represents cell alignment behavior under increasing electric field. Electrical stimulation tune cell speed and directional alignment without altering their turning dynamics</p></div></div></figure></div></div>","PeriodicalId":790,"journal":{"name":"The European Physical Journal E","volume":"48 10-12","pages":""},"PeriodicalIF":2.2,"publicationDate":"2025-12-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145779244","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"物理与天体物理","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2025-12-17DOI: 10.1140/epje/s10189-025-00535-x
Kamel Berkache, Ismail Daoud, Mohamed Deghmoum, Jean François Ganghoffer
Our study provides predictive tools for formulating agri-food products with controlled rheological properties containing mixtures. We investigated the rheological properties of binary biopolymer mixtures composed of xanthan gum (XG) and carboxymethyl cellulose (CMC), with a focus on their synergistic interactions and applications in dysphagia management. Through steady and dynamic rheological tests, we characterized the flow behavior, viscoelastic properties, and thermal stability of XG/CMC blends at varying ratios (100/0 to 0/100). Principal outcomes reveal that XG-rich blends ((ge 70%) XG) exhibit pronounced elastic behavior ((mathrm {G' > G''})), high yield stress, and strong shear-thinning properties, making them suitable for texture-modified foods requiring cohesive bolus formation. In particular, the apparent viscosity at (dot{gamma } = 50~mathrm {s^{-1}})—a critical shear rate for swallowing—was found to be (sim 350~mathrm {mPacdot s}) for pure XG ((1~textrm{wt}%)), classifying it as “honey-like” according to dysphagia standards. Blends with (ge ,70%) of XG maintained viscosities in the nectar-like to honey-like range (51–(1750~mathrm {mPacdot s})), while CMC-rich blends ((mathrm {ge 60%}) CMC) fell below (50~mathrm {mPacdot s}) (“thin”), rendering them unsuitable for dysphagia without reformulation. The Benhadid and Cross models effectively described the rheology of XG- and CMC-rich blends, respectively. Temperature studies highlighted XG’s enhanced thermal stability (20–(30%) viscosity loss at 20–(60,^{circ }textrm{C})) compared to CMC ((>,60%) loss above (30,^{circ }textrm{C})). These results provide predictive tools for designing dysphagia-friendly formulations that balance rheological performance, safety, and sensory acceptability, with XG-dominant blends offering the most promising formulations for meeting IDDSI guidelines.
Effect of temperature and CMC ratio on the apparent viscosity (50 (s^{-1})) of XG/CMC blends, with inset analysis of viscosity and viscoelastic damping factor versus CMC content
{"title":"Molecular interactions and rheological characterization of binary biopolymer mixtures","authors":"Kamel Berkache, Ismail Daoud, Mohamed Deghmoum, Jean François Ganghoffer","doi":"10.1140/epje/s10189-025-00535-x","DOIUrl":"10.1140/epje/s10189-025-00535-x","url":null,"abstract":"<p>Our study provides predictive tools for formulating agri-food products with controlled rheological properties containing mixtures. We investigated the rheological properties of binary biopolymer mixtures composed of xanthan gum (XG) and carboxymethyl cellulose (CMC), with a focus on their synergistic interactions and applications in dysphagia management. Through steady and dynamic rheological tests, we characterized the flow behavior, viscoelastic properties, and thermal stability of XG/CMC blends at varying ratios (100/0 to 0/100). Principal outcomes reveal that XG-rich blends (<span>(ge 70%)</span> XG) exhibit pronounced elastic behavior (<span>(mathrm {G' > G''})</span>), high yield stress, and strong shear-thinning properties, making them suitable for texture-modified foods requiring cohesive bolus formation. In particular, the apparent viscosity at <span>(dot{gamma } = 50~mathrm {s^{-1}})</span>—a critical shear rate for swallowing—was found to be <span>(sim 350~mathrm {mPacdot s})</span> for pure XG (<span>(1~textrm{wt}%)</span>), classifying it as “honey-like” according to dysphagia standards. Blends with <span>(ge ,70%)</span> of XG maintained viscosities in the nectar-like to honey-like range (51–<span>(1750~mathrm {mPacdot s})</span>), while CMC-rich blends (<span>(mathrm {ge 60%})</span> CMC) fell below <span>(50~mathrm {mPacdot s})</span> (“thin”), rendering them unsuitable for dysphagia without reformulation. The Benhadid and Cross models effectively described the rheology of XG- and CMC-rich blends, respectively. Temperature studies highlighted XG’s enhanced thermal stability (20–<span>(30%)</span> viscosity loss at 20–<span>(60,^{circ }textrm{C})</span>) compared to CMC (<span>(>,60%)</span> loss above <span>(30,^{circ }textrm{C})</span>). These results provide predictive tools for designing dysphagia-friendly formulations that balance rheological performance, safety, and sensory acceptability, with XG-dominant blends offering the most promising formulations for meeting IDDSI guidelines.</p><p>Effect of temperature and CMC ratio on the apparent viscosity (50 <span>(s^{-1})</span>) of XG/CMC blends, with inset analysis of viscosity and viscoelastic damping factor versus CMC content</p>","PeriodicalId":790,"journal":{"name":"The European Physical Journal E","volume":"48 10-12","pages":""},"PeriodicalIF":2.2,"publicationDate":"2025-12-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145766810","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"物理与天体物理","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2025-12-17DOI: 10.1140/epje/s10189-025-00536-w
Martin H. Essink, Stefan Karpitschka, Hamza K. Khattak, Kari Dalnoki-Veress, Harald van Brummelen, Jacco H. Snoeijer
Liquid drops slide more slowly over soft, deformable substrates than over rigid solids. This phenomenon can be attributed to the viscoelastic dissipation induced by the moving wetting ridge, which inhibits a rapid motion, and is called “viscoelastic braking”. Experiments on soft dynamical wetting have thus far been modeled using linear theory, assuming small deformations, which captures the essential scaling laws. Quantitatively, however, some important disparities have suggested the importance of large deformations induced by the sliding drops. Here we compute the dissipation occurring below a contact line moving at constant velocity over a viscoelastic substrate, for the first time explicitly accounting for large deformations. It is found that linear theory becomes inaccurate for thin layers and for ridge angles that are typically encountered in experiments. We explore neo-Hookean and strain-stiffening solids and discuss our findings in light of recent experiments.
Maps of the reversible work and the dissipation induced by a contact line moving over a viscoelastic substrate
{"title":"Wetting ridge dissipation at large deformations","authors":"Martin H. Essink, Stefan Karpitschka, Hamza K. Khattak, Kari Dalnoki-Veress, Harald van Brummelen, Jacco H. Snoeijer","doi":"10.1140/epje/s10189-025-00536-w","DOIUrl":"10.1140/epje/s10189-025-00536-w","url":null,"abstract":"<p>Liquid drops slide more slowly over soft, deformable substrates than over rigid solids. This phenomenon can be attributed to the viscoelastic dissipation induced by the moving wetting ridge, which inhibits a rapid motion, and is called “viscoelastic braking”. Experiments on soft dynamical wetting have thus far been modeled using linear theory, assuming small deformations, which captures the essential scaling laws. Quantitatively, however, some important disparities have suggested the importance of large deformations induced by the sliding drops. Here we compute the dissipation occurring below a contact line moving at constant velocity over a viscoelastic substrate, for the first time explicitly accounting for large deformations. It is found that linear theory becomes inaccurate for thin layers and for ridge angles that are typically encountered in experiments. We explore neo-Hookean and strain-stiffening solids and discuss our findings in light of recent experiments.</p><p>Maps of the reversible work and the dissipation induced by a contact line moving over a viscoelastic substrate</p>","PeriodicalId":790,"journal":{"name":"The European Physical Journal E","volume":"48 10-12","pages":""},"PeriodicalIF":2.2,"publicationDate":"2025-12-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145766813","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"物理与天体物理","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2025-12-15DOI: 10.1140/epje/s10189-025-00540-0
Finn Bastian Molzahn, Julien Husson
The actomyosin cortex is a highly dynamic cellular structure that regulates cell shape, migration, and division, while also contributing to specialized functions such as microvillar search. Previous studies have documented fluctuations in microvillar shape and cortical thickness over time. Building on these observations, we investigated whether these morphological changes are accompanied by corresponding fluctuations in cellular stiffness. We used profile microindentation and micropipette aspiration to examine the mechanical properties of human CD4 + T cells. Our results revealed that a substantial proportion of T cells exhibit spontaneous stiffness fluctuations, with approximately one-third displaying clear, periodic peaks with an average period of 30–35 s. Disrupting the actin cytoskeleton with Latrunculin A eliminated these fluctuations, confirming their actin-dependent nature. Low-pressure micropipette aspiration experiments showed periodic movements of cell bodies within the micropipette that correlated with stiffness peaks. These findings demonstrate that the mechanical properties of resting T cells are far from static. Instead, T cells exist in a highly dynamic state characterized by significant stiffness oscillations that may be integral to the microvillar search process. This work raises questions about whether similar mechanical dynamics occur in other cell types and how these periodic stiffness changes might influence T cell immune functions. Our study underscores the importance of temporal resolution when investigating cellular mechanics, as static measurements may miss these fundamental dynamic properties.
Graphic Abstract
Caption for Graphical abstract: Profile microindentation of a T cell by a hook-shaped glass probe. The overlay plot reveals substantial spontaneous stiffness fluctuations over 200 seconds, demonstrating that T cell stiffness is highly dynamic rather than static
{"title":"Stiffness fluctuations in T cells","authors":"Finn Bastian Molzahn, Julien Husson","doi":"10.1140/epje/s10189-025-00540-0","DOIUrl":"10.1140/epje/s10189-025-00540-0","url":null,"abstract":"<div><p>The actomyosin cortex is a highly dynamic cellular structure that regulates cell shape, migration, and division, while also contributing to specialized functions such as microvillar search. Previous studies have documented fluctuations in microvillar shape and cortical thickness over time. Building on these observations, we investigated whether these morphological changes are accompanied by corresponding fluctuations in cellular stiffness. We used profile microindentation and micropipette aspiration to examine the mechanical properties of human CD4 + T cells. Our results revealed that a substantial proportion of T cells exhibit spontaneous stiffness fluctuations, with approximately one-third displaying clear, periodic peaks with an average period of 30–35 s. Disrupting the actin cytoskeleton with Latrunculin A eliminated these fluctuations, confirming their actin-dependent nature. Low-pressure micropipette aspiration experiments showed periodic movements of cell bodies within the micropipette that correlated with stiffness peaks. These findings demonstrate that the mechanical properties of resting T cells are far from static. Instead, T cells exist in a highly dynamic state characterized by significant stiffness oscillations that may be integral to the microvillar search process. This work raises questions about whether similar mechanical dynamics occur in other cell types and how these periodic stiffness changes might influence T cell immune functions. Our study underscores the importance of temporal resolution when investigating cellular mechanics, as static measurements may miss these fundamental dynamic properties.</p><h3>Graphic Abstract</h3><div><figure><div><div><picture><img></picture></div><div><p>Caption for Graphical abstract: Profile microindentation of a <i>T</i> cell by a hook-shaped glass probe. The overlay plot reveals substantial spontaneous stiffness fluctuations over 200 seconds, demonstrating that <i>T</i> cell stiffness is highly dynamic rather than static</p></div></div></figure></div></div>","PeriodicalId":790,"journal":{"name":"The European Physical Journal E","volume":"48 10-12","pages":""},"PeriodicalIF":2.2,"publicationDate":"2025-12-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145761841","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"物理与天体物理","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2025-12-12DOI: 10.1140/epje/s10189-025-00541-z
Julien Leblanc, Alain H. Lombard, Adrien Saumureau, Sylvie Costrel, Jean Revilloud, Alexis Coullomb, Aurélie Dupont
Simplified protocol for quantitative FRET in living cells with direct QuanTI-FRET calibration from the images of interest
Genetically encoded biosensors based on the fluorescence resonance energy transfer (FRET) between two fluorescent proteins have the power to measure biochemical activity in living cells with the spatio-temporal resolution given by optical microscopy. The generalization of their usage is limited by the difficulties in obtaining quantitative results independent of the instrumental system or the expression level. We recently developed quantitative three-image FRET (QuanTI-FRET), a method for calibrating the system and obtaining absolute values of the FRET probabilities. The method proved to be efficient but required additional constructs for the calibration, thereby adding experimental steps. Here, we propose taking advantage of the constant and known stoichiometry of intramolecular FRET biosensors to directly calibrate the system using the dataset of interest, e.g., biosensor experiments. We demonstrate this idea by comparing the results of both standard calibration and autocalibration obtained on live-cell images of the FAK biosensor. This autocalibration is possible because of the strong robustness of the QuanTI-FRET calibration with respect to the quality of the calibration dataset. With this work, we simplify the experimental protocol to obtain quantitative FRET by autocalibration, and we make it accessible through a publicly available Python software and a napari plug-in.
Graphical abstract
Simplified protocol for quantitative FRET in living cells with direct QuanTI-FRET calibration from the images of interest
{"title":"Live-cell quantitative FRET imaging made simple by autocalibration in QuanTI-FRET","authors":"Julien Leblanc, Alain H. Lombard, Adrien Saumureau, Sylvie Costrel, Jean Revilloud, Alexis Coullomb, Aurélie Dupont","doi":"10.1140/epje/s10189-025-00541-z","DOIUrl":"10.1140/epje/s10189-025-00541-z","url":null,"abstract":"<div><h3>Simplified protocol for quantitative FRET in living cells with direct QuanTI-FRET calibration from the images of interest</h3><p>Genetically encoded biosensors based on the fluorescence resonance energy transfer (FRET) between two fluorescent proteins have the power to measure biochemical activity in living cells with the spatio-temporal resolution given by optical microscopy. The generalization of their usage is limited by the difficulties in obtaining quantitative results independent of the instrumental system or the expression level. We recently developed quantitative three-image FRET (QuanTI-FRET), a method for calibrating the system and obtaining absolute values of the FRET probabilities. The method proved to be efficient but required additional constructs for the calibration, thereby adding experimental steps. Here, we propose taking advantage of the constant and known stoichiometry of intramolecular FRET biosensors to directly calibrate the system using the dataset of interest, e.g., biosensor experiments. We demonstrate this idea by comparing the results of both standard calibration and autocalibration obtained on live-cell images of the FAK biosensor. This autocalibration is possible because of the strong robustness of the QuanTI-FRET calibration with respect to the quality of the calibration dataset. With this work, we simplify the experimental protocol to obtain quantitative FRET by autocalibration, and we make it accessible through a publicly available Python software and a napari plug-in.</p><h3>Graphical abstract</h3><p>Simplified protocol for quantitative FRET in living cells with direct QuanTI-FRET calibration from the images of interest</p><div><figure><div><div><picture><source><img></source></picture></div></div></figure></div></div>","PeriodicalId":790,"journal":{"name":"The European Physical Journal E","volume":"48 10-12","pages":""},"PeriodicalIF":2.2,"publicationDate":"2025-12-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145730305","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"物理与天体物理","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2025-12-09DOI: 10.1140/epje/s10189-025-00538-8
Nida Ahsan, Atef F. Hashem, Muhammad Faisal Hanif, Muhammad Farhan Hanif, Hani Shaker, Muhammad Kamran Siddiqui
This paper delves into the intricate relationship between the magnesium nitrogen ((MgN_4))network and its connection to topological indices and the heat of formation. By analyzing a variety of topological indices, we utilize a curve fitting model to predict and clarify the heat of formation—-a vital thermodynamic factor that impacts the stability and reactivity of (MgN_4).Through a detailed correlation analysis, we uncover significant trends and relationships linking the heat of formation with topological indices like the Gutman, Randić, and Zagreb indices. Our findings indicate that the curve fitting model not only yields accurate predictions but also enhances our understanding of the molecular interactions within the (MgN_4) network. Regression techniques will be employed to obtain a curve fitting model, which correlates such indices with experimentally determined heats of formation. These analyses illustrate the accuracy with which thermodynamic properties have been reproduced using the model; it outlines the relevance that topological descriptors have received in computational chemistry so far. By analyzing these results, several insights were obtained into the energetic behavior of magnesium-nitrogen compounds and are pointed out with respect to which role graph-theoretical approaches so far played for the development of material science and chemical engineering.
{"title":"Investigating topological indices and heat of formation for magnesium nitride using a curve fitting approach","authors":"Nida Ahsan, Atef F. Hashem, Muhammad Faisal Hanif, Muhammad Farhan Hanif, Hani Shaker, Muhammad Kamran Siddiqui","doi":"10.1140/epje/s10189-025-00538-8","DOIUrl":"10.1140/epje/s10189-025-00538-8","url":null,"abstract":"<p>This paper delves into the intricate relationship between the magnesium nitrogen (<span>(MgN_4)</span>)network and its connection to topological indices and the heat of formation. By analyzing a variety of topological indices, we utilize a curve fitting model to predict and clarify the heat of formation—-a vital thermodynamic factor that impacts the stability and reactivity of <span>(MgN_4)</span>.Through a detailed correlation analysis, we uncover significant trends and relationships linking the heat of formation with topological indices like the Gutman, Randić, and Zagreb indices. Our findings indicate that the curve fitting model not only yields accurate predictions but also enhances our understanding of the molecular interactions within the <span>(MgN_4)</span> network. Regression techniques will be employed to obtain a curve fitting model, which correlates such indices with experimentally determined heats of formation. These analyses illustrate the accuracy with which thermodynamic properties have been reproduced using the model; it outlines the relevance that topological descriptors have received in computational chemistry so far. By analyzing these results, several insights were obtained into the energetic behavior of magnesium-nitrogen compounds and are pointed out with respect to which role graph-theoretical approaches so far played for the development of material science and chemical engineering.</p>","PeriodicalId":790,"journal":{"name":"The European Physical Journal E","volume":"48 10-12","pages":""},"PeriodicalIF":2.2,"publicationDate":"2025-12-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145713016","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"物理与天体物理","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2025-12-06DOI: 10.1140/epje/s10189-025-00537-9
Konstantin S. Kolegov, Viktor M. Fliagin, Natalia A. Ivanova
Evaporative lithography in cells of arbitrary configuration allows for the creation of diverse particle deposition patterns due to the formation of a specific flow structure in the liquid caused by non-uniform evaporation. The latter in turn is determined by the shape of the liquid layer surface and the wetting menisci on the cell walls. Thus, predicting the shape of the wetting menisci can serve as a tool for controlling the process of creating desired particle deposition patterns and evaporation dynamics. Here, we propose a simple and sufficiently accurate methodology for determining the shape of the liquid meniscus in cells of arbitrary geometric shape, based on a combination of mathematical modeling and a series of experimental measurement techniques. The surface profiles of the liquid meniscus in cylindrical, square, and triangular cells were determined by measuring the change in the reflection angle of a laser beam from the free liquid surface while scanning from the cell wall to its center. The height of the wetting meniscus on the inner cell wall and the minimum liquid layer thickness at the center of the cell were measured by analyzing optical images and using a contact method, respectively. 3D meniscus profiles were obtained by numerically solving the Helmholtz equation. The boundary conditions and the unknown constant in the equation were determined based on experimental data obtained for several local points or cross sections. The simulated meniscus shapes showed satisfactory agreement with the experimental local measurements, with a maximum relative error of less than 14%.
{"title":"Shape of liquid meniscus in open cells of varying geometry: a combined study via simulation and experiment","authors":"Konstantin S. Kolegov, Viktor M. Fliagin, Natalia A. Ivanova","doi":"10.1140/epje/s10189-025-00537-9","DOIUrl":"10.1140/epje/s10189-025-00537-9","url":null,"abstract":"<p>Evaporative lithography in cells of arbitrary configuration allows for the creation of diverse particle deposition patterns due to the formation of a specific flow structure in the liquid caused by non-uniform evaporation. The latter in turn is determined by the shape of the liquid layer surface and the wetting menisci on the cell walls. Thus, predicting the shape of the wetting menisci can serve as a tool for controlling the process of creating desired particle deposition patterns and evaporation dynamics. Here, we propose a simple and sufficiently accurate methodology for determining the shape of the liquid meniscus in cells of arbitrary geometric shape, based on a combination of mathematical modeling and a series of experimental measurement techniques. The surface profiles of the liquid meniscus in cylindrical, square, and triangular cells were determined by measuring the change in the reflection angle of a laser beam from the free liquid surface while scanning from the cell wall to its center. The height of the wetting meniscus on the inner cell wall and the minimum liquid layer thickness at the center of the cell were measured by analyzing optical images and using a contact method, respectively. 3D meniscus profiles were obtained by numerically solving the Helmholtz equation. The boundary conditions and the unknown constant in the equation were determined based on experimental data obtained for several local points or cross sections. The simulated meniscus shapes showed satisfactory agreement with the experimental local measurements, with a maximum relative error of less than 14%.</p>","PeriodicalId":790,"journal":{"name":"The European Physical Journal E","volume":"48 10-12","pages":""},"PeriodicalIF":2.2,"publicationDate":"2025-12-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145686707","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"物理与天体物理","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}