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Bermudez A, Latham ZD, Ma AJ, Bi D, Hu JK, Lin NYC. Regulation of chromatin modifications through coordination of nucleus size and epithelial cell morphology heterogeneity. Commun Biol 2025; 8:269. [PMID: 39979587 PMCID: PMC11842846 DOI: 10.1038/s42003-025-07677-w] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/18/2024] [Accepted: 02/05/2025] [Indexed: 02/22/2025] Open
Abstract
Cell morphology heterogeneity is pervasive in epithelial collectives, yet the underlying mechanisms driving such heterogeneity and its consequential biological ramifications remain elusive. Here, we observed a consistent correlation between the epithelial cell morphology and nucleus morphology during crowding, revealing a persistent log-normal probability distribution characterizing both cell and nucleus areas across diverse epithelial model systems. We showed that this morphological diversity arises from asymmetric partitioning during cell division. Next, we provide insights into the impact of nucleus morphology on chromatin modifications. We demonstrated that constraining nucleus leads to downregulation of the euchromatic mark H3K9ac and upregulation of the heterochromatic mark H3K27me3. Furthermore, we showed that nucleus size regulates H3K27me3 levels through histone demethylase UTX. These findings highlight the significance of cell morphology heterogeneity as a driver of chromatin state diversity, shaping functional variability within epithelial tissues.
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Affiliation(s)
- Alexandra Bermudez
- Bioengineering Department, University of California Los Angeles, Los Angeles, CA, USA
| | - Zoe D Latham
- Bioengineering Department, University of California Los Angeles, Los Angeles, CA, USA
| | - Alex J Ma
- Bioengineering Department, University of California Los Angeles, Los Angeles, CA, USA
| | - Dapeng Bi
- Department of Physics, Northeastern University, Boston, MA, USA
| | - Jimmy K Hu
- School of Dentistry, University of California Los Angeles, Los Angeles, CA, USA.
- Molecular Biology Institute, University of California Los Angeles, Los Angeles, CA, USA.
- Broad Stem Cell Center, University of California Los Angeles, Los Angeles, CA, USA.
| | - Neil Y C Lin
- Bioengineering Department, University of California Los Angeles, Los Angeles, CA, USA.
- Broad Stem Cell Center, University of California Los Angeles, Los Angeles, CA, USA.
- Mechanical and Aerospace Engineering Department, University of California Los Angeles, Los Angeles, CA, USA.
- Jonsson Comprehensive Cancer Center, University of California Los Angeles, Los Angeles, CA, USA.
- Institute for Quantitative and Computational Biosciences, University of California Los Angeles, Los Angeles, CA, USA.
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2
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Bermudez A, Latham ZD, Ma AJ, Bi D, Hu JK, Lin NYC. Regulation of Chromatin Modifications through Coordination of Nucleus Size and Epithelial Cell Morphology Heterogeneity. BIORXIV : THE PREPRINT SERVER FOR BIOLOGY 2025:2024.04.18.590164. [PMID: 38712099 PMCID: PMC11071433 DOI: 10.1101/2024.04.18.590164] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/08/2024]
Abstract
Cell morphology heterogeneity is pervasive in epithelial collectives, yet the underlying mechanisms driving such heterogeneity and its consequential biological ramifications remain elusive. Here, we observed a consistent correlation between the epithelial cell morphology and nucleus morphology during crowding, revealing a persistent log-normal probability distribution characterizing both cell and nucleus areas across diverse epithelial model systems. We further showed that this morphological diversity arises from asymmetric partitioning during cell division. Moreover, we provide insights into the impact of nucleus morphology on chromatin modifications. We demonstrated that constraining nucleus leads to downregulation of the euchromatic mark H3K9ac and upregulation of the heterochromatic mark H3K27me3. Furthermore, we showed that nucleus size regulates H3K27me3 levels through histone demethylase UTX. These findings highlight the significance of cell morphology heterogeneity as a driver of chromatin state diversity, shaping functional variability within epithelial tissues.
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Haas PA, Höhn SSMH. Cut it out: Out-of-plane stresses in cell sheet folding of Volvox embryos. Phys Rev E 2025; 111:014420. [PMID: 39972828 DOI: 10.1103/physreve.111.014420] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/25/2024] [Accepted: 12/03/2024] [Indexed: 02/21/2025]
Abstract
The folding of cellular monolayers pervades embryonic development and disease, and is often caused by cell shape changes such as cell wedging. However, the function and mechanical role of different active cellular changes in different regions of folding tissues remain unclear in many cases, at least partially because the quantification of out-of-plane mechanical stresses in complex three-dimensional tissues has proved challenging. The gastrulationlike inversion process of the green alga Volvox provides a unique opportunity to overcome this difficulty: Combining laser ablation experiments and a mechanical model, we infer the mechanical properties of the curved tissue from its unfurling on ablation. We go on to reproduce the tissue shapes at different developmental timepoints quantitatively using our mechanical model. Strikingly, this reveals out-of-plane stresses associated with additional cell shape changes away from those regions where cell wedging bends the tissue. Moreover, the fits indicate an adaptive response of the tissue to these stresses. In this way, our paper provides not only the experimental and theoretical framework to quantify out-of-plane stresses in tissue folding, but it also shows how additional cell shape changes can provide another source of out-of-plane stresses in development complementing cell wedging.
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Affiliation(s)
- Pierre A Haas
- Max Planck Institute for the Physics of Complex Systems, Nöthnitzer Straße 38, 01187 Dresden, Germany
- Center for Systems Biology Dresden, Pfotenhauerstraße 108, 01307 Dresden, Germany
- Max Planck Institute of Molecular Cell Biology and Genetics, Pfotenhauerstraße 108, 01307 Dresden, Germany
| | - Steph S M H Höhn
- University of Cambridge, Department of Applied Mathematics and Theoretical Physics, Wilberforce Road, Cambridge CB3 0WA, England, United Kingdom
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Dow LP, Parmar T, Marchetti MC, Pruitt BL. Engineering tools for quantifying and manipulating forces in epithelia. BIOPHYSICS REVIEWS 2023; 4:021303. [PMID: 38510344 PMCID: PMC10903508 DOI: 10.1063/5.0142537] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/14/2023] [Accepted: 04/20/2023] [Indexed: 03/22/2024]
Abstract
The integrity of epithelia is maintained within dynamic mechanical environments during tissue development and homeostasis. Understanding how epithelial cells mechanosignal and respond collectively or individually is critical to providing insight into developmental and (patho)physiological processes. Yet, inferring or mimicking mechanical forces and downstream mechanical signaling as they occur in epithelia presents unique challenges. A variety of in vitro approaches have been used to dissect the role of mechanics in regulating epithelia organization. Here, we review approaches and results from research into how epithelial cells communicate through mechanical cues to maintain tissue organization and integrity. We summarize the unique advantages and disadvantages of various reduced-order model systems to guide researchers in choosing appropriate experimental systems. These model systems include 3D, 2D, and 1D micromanipulation methods, single cell studies, and noninvasive force inference and measurement techniques. We also highlight a number of in silico biophysical models that are informed by in vitro and in vivo observations. Together, a combination of theoretical and experimental models will aid future experiment designs and provide predictive insight into mechanically driven behaviors of epithelial dynamics.
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Affiliation(s)
| | - Toshi Parmar
- Department of Physics, University of California Santa Barbara, Santa Barbara, California 93106, USA
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5
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Matejčić M, Trepat X. Mechanobiological approaches to synthetic morphogenesis: learning by building. Trends Cell Biol 2023; 33:95-111. [PMID: 35879149 DOI: 10.1016/j.tcb.2022.06.013] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/26/2022] [Revised: 06/23/2022] [Accepted: 06/27/2022] [Indexed: 01/25/2023]
Abstract
Tissue morphogenesis occurs in a complex physicochemical microenvironment with limited experimental accessibility. This often prevents a clear identification of the processes that govern the formation of a given functional shape. By applying state-of-the-art methods to minimal tissue systems, synthetic morphogenesis aims to engineer the discrete events that are necessary and sufficient to build specific tissue shapes. Here, we review recent advances in synthetic morphogenesis, highlighting how a combination of microfabrication and mechanobiology is fostering our understanding of how tissues are built.
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Affiliation(s)
- Marija Matejčić
- Institute for Bioengineering of Catalonia (IBEC), The Barcelona Institute for Science and Technology (BIST), Barcelona, Spain.
| | - Xavier Trepat
- Institute for Bioengineering of Catalonia (IBEC), The Barcelona Institute for Science and Technology (BIST), Barcelona, Spain; Facultat de Medicina, Universitat de Barcelona, Barcelona, Spain; Institució Catalana de Recerca i Estudis Avançats (ICREA), Barcelona, Spain; Centro de Investigación Biomédica en Red en Bioingeniería, Biomateriales y Nanomedicina (CIBER-BBN), Barcelona, Spain.
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Rodrigues FS, Ciccarelli FD, Malanchi I. Reflected stemness as a potential driver of the tumour microenvironment. Trends Cell Biol 2022; 32:979-987. [PMID: 35589467 DOI: 10.1016/j.tcb.2022.04.007] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/17/2022] [Revised: 04/19/2022] [Accepted: 04/20/2022] [Indexed: 01/21/2023]
Abstract
A fundamental requirement for cancer initiation is the activation of developmental programmes by mutant cells. Oncogenic signals often confer an undifferentiated, stem cell-like phenotype that supports the long-term proliferative potential of cancer cells. Although cancer is a genetically driven disease, mutations in cancer-driver genes alone are insufficient for tumour formation, and the proliferation of cells harbouring oncogenic mutations depends on their microenvironment. In this Opinion article we discuss how the reprogrammed status of cancer cells not only represents the essence of their tumorigenicity but triggers 'reflected stemness' in their surrounding normal counterparts. We propose that this reciprocal interaction underpins the establishment of the tumour microenvironment (TME).
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Affiliation(s)
- Felipe S Rodrigues
- Tumour-Host Interaction Laboratory, The Francis Crick Institute, London NW1 1AT, UK
| | - Francesca D Ciccarelli
- Cancer Systems Biology Laboratory, The Francis Crick Institute, London NW1 1AT, UK; School of Cancer and Pharmaceutical Sciences, King's College London, London SE1 1UL, UK
| | - Ilaria Malanchi
- Tumour-Host Interaction Laboratory, The Francis Crick Institute, London NW1 1AT, UK.
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Brun-Cosme-Bruny M, Pernet L, Blonski S, Zaremba D, Fraboulet S, Dolega ME. Microfluidic system for in vitro epithelial folding and calcium waves induction. STAR Protoc 2022; 3:101683. [PMID: 36116075 PMCID: PMC9490192 DOI: 10.1016/j.xpro.2022.101683] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/05/2022] [Revised: 07/07/2022] [Accepted: 08/12/2022] [Indexed: 01/25/2023] Open
Abstract
Epithelial folding is a fundamental process where initially flat monolayers transform into functional 3D structures. This protocol details fabrication steps for a polycarbonate microfluidic platform which enables triggering epithelial folds that recapitulate stereotypical cell shape changes and folding-associated mechanical stresses. We describe the steps for cell seeding to form a monolayer on the chip, and subsequent approach to trigger calcium waves in the epithelial monolayer through local epithelial deformation. Lastly, we outline quantitative analysis steps of the epithelial response. For complete details on the use and execution of this protocol, please refer to Blonski et al. (2021).
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Affiliation(s)
- Marvin Brun-Cosme-Bruny
- Institute for Advanced Biosciences, University of Grenoble-Alpes, CNRS UMR5309, INSERM U1209, 38700 La Tronche, France
| | - Lydia Pernet
- Institute for Advanced Biosciences, University of Grenoble-Alpes, CNRS UMR5309, INSERM U1209, 38700 La Tronche, France
| | - Slawomir Blonski
- Institute of Fundamental Technological Research, IPPT, Polish Academy of Sciences, Department of Biosystems and Soft Matter, 02106 Warsaw, Poland
| | - Damian Zaremba
- Institute of Fundamental Technological Research, IPPT, Polish Academy of Sciences, Department of Biosystems and Soft Matter, 02106 Warsaw, Poland
| | - Sandrine Fraboulet
- Institute for Advanced Biosciences, University of Grenoble-Alpes, CNRS UMR5309, INSERM U1209, 38700 La Tronche, France
| | - Monika Elzbieta Dolega
- Institute for Advanced Biosciences, University of Grenoble-Alpes, CNRS UMR5309, INSERM U1209, 38700 La Tronche, France.
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Tomba C, Luchnikov V, Barberi L, Blanch-Mercader C, Roux A. Epithelial cells adapt to curvature induction via transient active osmotic swelling. Dev Cell 2022; 57:1257-1270.e5. [PMID: 35568030 PMCID: PMC9165930 DOI: 10.1016/j.devcel.2022.04.017] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/29/2021] [Revised: 02/11/2022] [Accepted: 04/21/2022] [Indexed: 11/29/2022]
Abstract
Generation of tissue curvature is essential to morphogenesis. However, how cells adapt to changing curvature is still unknown because tools to dynamically control curvature in vitro are lacking. Here, we developed self-rolling substrates to study how flat epithelial cell monolayers adapt to a rapid anisotropic change of curvature. We show that the primary response is an active and transient osmotic swelling of cells. This cell volume increase is not observed on inducible wrinkled substrates, where concave and convex regions alternate each other over short distances; and this finding identifies swelling as a collective response to changes of curvature with a persistent sign over large distances. It is triggered by a drop in membrane tension and actin depolymerization, which is perceived by cells as a hypertonic shock. Osmotic swelling restores tension while actin reorganizes, probably to comply with curvature. Thus, epithelia are unique materials that transiently and actively swell while adapting to large curvature induction. Rapid inward and outward epithelial rolling triggers cell volume increase Epithelial folding induces a mechano-osmotic feedback loop that involvs ion channels Cell volume regulation in curved tissues involves actin, membrane tension, and mTORC2
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Affiliation(s)
- Caterina Tomba
- Department of Biochemistry, University of Geneva, Quai Ernest Ansermet 30, Geneva 1211, Switzerland.
| | - Valeriy Luchnikov
- Université de Haute Alsace, CNRS, IS2M UMR 7361, 15, rue Jean Starcky, Mulhouse 68100, France
| | - Luca Barberi
- Department of Biochemistry, University of Geneva, Quai Ernest Ansermet 30, Geneva 1211, Switzerland
| | - Carles Blanch-Mercader
- Department of Biochemistry, University of Geneva, Quai Ernest Ansermet 30, Geneva 1211, Switzerland
| | - Aurélien Roux
- Department of Biochemistry, University of Geneva, Quai Ernest Ansermet 30, Geneva 1211, Switzerland; National Center of Competence in Research Chemical Biology, University of Geneva, Quai Ernest Ansermet 30, Geneva 1211, Switzerland.
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Luciano M, Versaevel M, Vercruysse E, Procès A, Kalukula Y, Remson A, Deridoux A, Gabriele S. Appreciating the role of cell shape changes in the mechanobiology of epithelial tissues. BIOPHYSICS REVIEWS 2022; 3:011305. [PMID: 38505223 PMCID: PMC10903419 DOI: 10.1063/5.0074317] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 10/07/2021] [Accepted: 02/23/2022] [Indexed: 03/21/2024]
Abstract
The wide range of epithelial cell shapes reveals the complexity and diversity of the intracellular mechanisms that serve to construct their morphology and regulate their functions. Using mechanosensitive steps, epithelial cells can sense a variety of different mechanochemical stimuli and adapt their behavior by reshaping their morphology. These changes of cell shape rely on a structural reorganization in space and time that generates modifications of the tensional state and activates biochemical cascades. Recent studies have started to unveil how the cell shape maintenance is involved in mechanical homeostatic tasks to sustain epithelial tissue folding, identity, and self-renewal. Here, we review relevant works that integrated mechanobiology to elucidate some of the core principles of how cell shape may be conveyed into spatial information to guide collective processes such as epithelial morphogenesis. Among many other parameters, we show that the regulation of the cell shape can be understood as the result of the interplay between two counteracting mechanisms: actomyosin contractility and intercellular adhesions, and that both do not act independently but are functionally integrated to operate on molecular, cellular, and tissue scales. We highlight the role of cadherin-based adhesions in force-sensing and mechanotransduction, and we report recent developments that exploit physics of liquid crystals to connect cell shape changes to orientational order in cell aggregates. Finally, we emphasize that the further intermingling of different disciplines to develop new mechanobiology assays will lead the way toward a unified picture of the contribution of cell shape to the pathophysiological behavior of epithelial tissues.
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Affiliation(s)
- Marine Luciano
- University of Mons, Interfaces and Complex Fluids Laboratory, Mechanobiology and Biomaterials Group, Research Institute for Biosciences, CIRMAP, 20 Place du Parc, B-7000 Mons, Belgium
| | - Marie Versaevel
- University of Mons, Interfaces and Complex Fluids Laboratory, Mechanobiology and Biomaterials Group, Research Institute for Biosciences, CIRMAP, 20 Place du Parc, B-7000 Mons, Belgium
| | - Eléonore Vercruysse
- University of Mons, Interfaces and Complex Fluids Laboratory, Mechanobiology and Biomaterials Group, Research Institute for Biosciences, CIRMAP, 20 Place du Parc, B-7000 Mons, Belgium
| | - Anthony Procès
- University of Mons, Interfaces and Complex Fluids Laboratory, Mechanobiology and Biomaterials Group, Research Institute for Biosciences, CIRMAP, 20 Place du Parc, B-7000 Mons, Belgium
| | - Yohalie Kalukula
- University of Mons, Interfaces and Complex Fluids Laboratory, Mechanobiology and Biomaterials Group, Research Institute for Biosciences, CIRMAP, 20 Place du Parc, B-7000 Mons, Belgium
| | - Alexandre Remson
- University of Mons, Interfaces and Complex Fluids Laboratory, Mechanobiology and Biomaterials Group, Research Institute for Biosciences, CIRMAP, 20 Place du Parc, B-7000 Mons, Belgium
| | - Amandine Deridoux
- University of Mons, Interfaces and Complex Fluids Laboratory, Mechanobiology and Biomaterials Group, Research Institute for Biosciences, CIRMAP, 20 Place du Parc, B-7000 Mons, Belgium
| | - Sylvain Gabriele
- University of Mons, Interfaces and Complex Fluids Laboratory, Mechanobiology and Biomaterials Group, Research Institute for Biosciences, CIRMAP, 20 Place du Parc, B-7000 Mons, Belgium
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Abstract
Both biochemical and mechanical signals coordinate all processes at the origin of the formation of functional organs, including tissue folding, cell shape, and differentiation. In this issue of Developmental Cell, Blonski et al. establish a direct consequence of epithelial monolayer folding on nuclear shape and gene expression.
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Affiliation(s)
- Caterina Tomba
- Université de Lyon, CNRS, INSA Lyon, Ecole Centrale de Lyon, Université Claude Bernard Lyon 1, CPE Lyon, INL, UMR5270, 69622 Villeurbanne, France
| | - Aurélien Roux
- Department of Biochemistry & National Center of Competence in Research Chemical Biology, University of Geneva, 1211 Geneva, Switzerland.
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