bims-ecemfi Biomed News
on ECM and fibroblasts
Issue of 2026–01–25
fourteen papers selected by
Badri Narayanan Narasimhan, University of California, San Diego



  1. J Cell Biol. 2026 Mar 02. pii: e202504025. [Epub ahead of print]225(3):
      Cell migration and cytoskeletal remodeling are energetically demanding processes. Reorganizing the cytoskeleton requires ATP to fuel the actomyosin complex, enabling cells to adhere to and migrate through a matrix. While it is known that energy is required for cell migration, the mechanism by which cell-extracellular matrix adhesion influences cell energetics is unclear. Here, we investigated the relationship between cell-extracellular matrix adhesion and cellular metabolic state with a focus on vinculin given its role in connecting the cytoskeleton to focal adhesions and extracellular space. Knocking out vinculin increases the metabolic activity in cells and results in fast, frequent Rho kinase activity-dependent changes in cell shape and protrusions. The cellular protrusion dynamics and bioenergetics are interrelated processes, as stimulating RhoA/Rho kinase activity increases dynamic blebbing protrusions and energy production, and inhibiting metabolism decreases the frequency of blebbing cell protrusions. This link between cell-extracellular matrix adhesion and bioenergetics provides a novel basis by which cellular metabolism and cell migration could be controlled.
    DOI:  https://doi.org/10.1083/jcb.202504025
  2. J Cell Biol. 2026 Mar 02. pii: e202507211. [Epub ahead of print]225(3):
      Collective cell migration is essential for development and tissue homeostasis and plays a central role in pathological processes such as tumor metastasis. While extensively studied in epithelial cells, collective migration is also observed in mesenchymal cells, though the mechanistic similarities and differences between these modes remain unclear. Here, we use neural crest (NC) cells to investigate collective chemotaxis in epithelial and mesenchymal states within the same lineage. Mesenchymal NC clusters migrate collectively toward the chemoattractant SDF-1 through rear-directed contractility of supracellular actomyosin cables and polarized front-edge protrusions. In contrast, epithelial NC cells exhibit polarized cryptic protrusions and increased active Rac1 localization at E-cadherin-mediated junctions. During epithelial chemotaxis, traction forces originate from internal cell-cell junctions, whereas in mesenchymal clusters, they remain peripheral. Our findings reveal that mesenchymal collective chemotaxis relies on supracellular force coordination, while epithelial chemotaxis depends on force generation by individual cells within the collective.
    DOI:  https://doi.org/10.1083/jcb.202507211
  3. Biomater Sci. 2026 Jan 22.
      Granular hydrogels are an emerging biomaterial platform increasingly used in biomedical applications, including therapeutic delivery and tissue regeneration. Assembled from micron-scale hydrogel particles through physical assembly or chemical cross-linking, granular hydrogels possess micro- and macroscopic pores that facilitate molecular transport and cell migration. However, current granular hydrogels are typically fabricated with defined stiffness, porosity, and compositions that do not recapitulate the dynamic nature of native tissues, including the tumor microenvironment. To address this challenge, we have developed dynamic granular hydrogels formed by gelatin-norbornene-carbohydrazide (GelNB-CH) microgels. GelNB-CH microgels were first prepared from a microfluidic droplet generator coupled with the rapid thiol-norbornene photo-click gelation. The collected microgels were annealed via inverse electron-demand Diels-Alder (iEDDA) click reaction to form granular hydrogels, which were dynamically stiffened via hydrazone bonding. Notably, adjusting the concentration of the stiffening reagent (i.e., oxidized dextran, oDex) enabled dynamic stiffening of the granular hydrogels without affecting the void fraction. Pancreatic cancer-associated fibroblasts (CAFs) seeded in the granular hydrogels spread rapidly throughout the scaffold and induced cancer cell migration. This work enhances the design of granular hydrogels, offering a highly adaptable biomaterial platform for in vitro cancer modeling.
    DOI:  https://doi.org/10.1039/d5bm00997a
  4. Adv Sci (Weinh). 2026 Jan 21. e16300
      Achieving robust, cytocompatible bonding of hydrogels to solid substrates remains a long-lasting challenge in the development of hybrid solid-hydrogel (HSH) systems for biomedical applications. Current strategies for hydrogel-solid bonding suffer from the complexity of processes, toxicity from residual crosslinkers, and substrate dependency; issues that hinder clinical adoption of HSH structures (HSHs). Overcoming these impediments, a dry, reagent-free strategy is presented to create radical-rich interlayers that enable initiator- and crosslinker-free covalent attachment of hydrogels for the fabrication of robust HSHs. Evidence is provided in which long-lived radicals embedded in ion-assisted plasma polymerized coatings simultaneously drive hydrogel anchoring and in situ crosslinking on diverse non-polymeric substrates, including titanium, stainless steel, and glass. GelMA, chitosan, and PVA-Tyr hydrogels are immobilized with high stability, with coatings remaining intact after two months in aqueous media. Tuning the substrate bias voltage modulates radical concentration, enabling precise control over hydrogel thickness and crosslinking density with no need for extra reagents and/or crosslinkers. Cytocompatibility is confirmed with human mesenchymal stem cells and macrophages, with negligible inflammatory activation detected under the tested conditions. To showcase one application among many, fibroblasts on GelMA-based HSHs exhibited enhanced early attachment, spreading, and proliferation, supporting their application in promoting soft tissue integration. This substrate-independent, additive- and initiator-free strategy embodies high-quality-by-design principles, enabling a universal and scalable platform for the fabrication of HSH systems, particularly suited for applications requiring seamless integration between soft and hard materials, such as biomedical coatings, tissue-interfacing constructs, and next-generation soft robotics.
    Keywords:  covalent bonding; hydrogel–solid hybrids; plasma polymerization; radical‐mediated crosslinking; soft tissue integration
    DOI:  https://doi.org/10.1002/advs.202516300
  5. Front Bioeng Biotechnol. 2025 ;13 1740135
      Articular cartilage is a highly specialized connective tissue with a hierarchically organized extracellular matrix (ECM) that provides the mechanical resilience necessary for joint function. Central to this functionality is the depth-dependent architecture of collagen-primarily type II-interwoven with proteoglycans, enabling efficient resistance to compressive and shear stresses. This review synthesizes recent advances in ECM dynamics, emphasizing the interplay between collagen organization, viscoelastic microenvironments, and pericellular-matrix (PCM)-mediated mechanotransduction. Emerging evidence implicates type III collagen as a regulator of early cartilage remodeling and a putative biomarker of osteoarthritis (OA) progression. Additionally, we highlight cutting-edge studies on the synergistic effects of mechanical loading and enzymatic degradation on collagen integrity, providing novel insights into ECM deterioration in disease contexts. We evaluate next-generation biomaterials-including viscoelastic hydrogels, anisotropic scaffolds, and magnetic field-assisted fiber alignment-designed to recapitulate the native anisotropy and multiscale mechanics of cartilage. Together, these recent developments redefine the landscape of cartilage repair and delineate promising avenues for translational regenerative therapies.
    Keywords:  articular cartilage; collagen fiber organization; extracellular matrix dynamics; mesenchymal stem cells; osteoarthritis; viscoelastic properties
    DOI:  https://doi.org/10.3389/fbioe.2025.1740135
  6. Acta Biomater. 2026 Jan 20. pii: S1742-7061(26)00054-1. [Epub ahead of print]
      The tumor microenvironment is complex and cannot be adequately recapitulated using conventional two-dimensional in vitro assays. Three-dimensional multicellular tumor spheroids (MCTS) offer a versatile platform to study heterotypic cell interactions, extracellular matrix (ECM) deposition, and drug screening in a controlled setting. Although technical advances have been made, there is still a lack of standardization among the different MCTS-forming methodologies. In fibroblast-containing MCTS, it is unclear how the initial cancer cell-fibroblast ratio affects MCTS architecture, functionality, and resemblance to in vivo tumors. Here, we systematically investigated how varying stromal content shapes MCTS architectural, molecular, and functional characteristics. Four cancer cell lines with distinct in vivo stromal signatures were co-cultured with fibroblasts at defined ratios to generate spheroids with increasing stromal content. At defined time points, spheroids were analyzed via histology, live fluorescence microscopy, immunofluorescence, flow cytometry, and gene expression assays to quantify growth kinetics, cell organization, proliferation, ECM deposition, and phenotypic states. We demonstrated that cancer cell identity and fibroblast proportion determine spheroid compactness, internal architecture, desmoplastic activity, and proliferation. Notably, fibroblast-rich spheroids displayed an increased ECM deposition and upregulation of genes related to fibroblast activation and ECM remodeling. These trends observed in MCTS were in line with patterns identified in in vivo mouse xenograft and patient-derived samples. Finally, a drug testing proof-of-concept validation revealed that increasing stromal content reduces sensitivity to chemotherapeutics, with cancer cell-fibroblast MCTS recapitulating treatment responses more accurately than cancer cell homospheroids. Taken together, our study enables the standardization of parameters and identification of variables that influence the desmoplastic reaction within MCTS. This knowledge may contribute to the manufacturing of MCTS with desired morphological and functional features, aiming to support their integration in bioreactor-based advanced in vitro models for tackling complex biological questions. STATEMENT OF SIGNIFICANCE: We established a reproducible strategy to engineer fibroblast-containing multicellular tumor spheroids (MCTS) with tunable stromal content and desmoplastic activity. By systematically varying the cancer cell-fibroblast ratio, we demonstrated a proportional and controllable increase in extracellular matrix deposition. Furthermore, fibroblast inclusion induced coordinated transcriptional, secretory, and functional changes that scale with stromal abundance and recapitulate key tumor-type-specific phenotypic states observed in murine xenografts and human tumor specimens. Together, these findings provide a standardized and scalable framework for generating MCTS with defined stromal properties, enhancing the relevance and reproducibility of 3D in vitro tumor models. This platform enables controlled interrogation of tumor-stroma interactions and offers a practical foundation for studying stromal modulation of therapy response.
    Keywords:  Bioengineering; extracellular matrix; fibrosis; multicellular tumor spheroids; tumor microenvironment
    DOI:  https://doi.org/10.1016/j.actbio.2026.01.038
  7. ACS Appl Mater Interfaces. 2026 Jan 20.
      Dynamic extracellular matrix mechanics regulate fundamental cellular processes, yet precise control over spatiotemporal rigidity modulation remains challenging. Protein-based photoresponsive hydrogels offer a unique solution by coupling molecular conformational changes to macroscopic mechanics; however, the mechanisms governing this multiscale transition remain unclear. Here, we present a quantitative framework bridging single-molecule protein mechanics to bulk modulus modulation using photoactive yellow protein hydrogels. By engineering two cysteine linkage geometries, we show that anisotropic unfolding landscapes yield distinct rigidity change amplitudes under light/dark cycling. Using data from single-molecule atomic force microscopy, swelling equilibrium, and worm-like chain modeling, we develop a predictive model incorporating unfolding probabilities to explain these differences. Importantly, our model's control of amplitude reveals that fibroblast-to-myofibroblast transdifferentiation is coregulated by the frequency and magnitude of rigidity cycles. These results establish a mechanistic foundation for designing protein hydrogels with programmable dynamics and reveal how frequency-specific mechanical cues shape cell fate.
    Keywords:  cyclic mechanical stimulation; fibroblast-to-myofibroblast transdifferentiation; mechanical properties; mechanobiology; mechanotransduction; photoactive yellow protein; phototunable hydrogel; switchable hydrogel
    DOI:  https://doi.org/10.1021/acsami.5c23033
  8. Phys Rev E. 2025 Dec;112(6-1): 064408
      Bacteria benefit from cellular heterogeneity: cells differentiate into diverse gene expression states. As colonies grow, cellular phenotypes arrange into spatial patterns. To uncover the functional role of these emergent patterns, we must understand how they arise from cellular growth and mechanical interactions. Here we present a simple, agent-based model to predict patterns of motile and extracellular matrix-producing cells in biofilms of Bacillus subtilis. By incorporating phenotypic inheritance, mechanical interactions, and peripheral motile cell dispersal, our model predicts the emergence of a pattern: matrix cells surround a fractal-like interior motile population. We find that, while some properties of the motile-matrix interface depend on initial conditions, the motile distribution at large radii depends solely on the model's growth mechanism. The phenotypic interface exhibits a fractal dimension that increases as biofilms grow but reaches a maximum as the peripheral layer of matrix cells exceeds the capacity of the inner cells to push it out of the way. By varying parameters, we find correlations between the interface fractal dimension and expansion of motile cells. We validate findings using experiments on B. subtilis biofilms in microfluidics. Our model demonstrates the emergence of colony-level phenotypes from single cell-level interactions and cells modifying their own environment.
    DOI:  https://doi.org/10.1103/2zm9-r3qs
  9. iScience. 2026 Jan 16. 29(1): 114477
      Epithelia are continuously exposed to biomechanical forces such as compression, stretch, and shear stress arising from their dynamic microenvironments. Changes in tension, including stretch, trigger cell rearrangements, divisions, and transcriptional responses until mechanical stress is dissipated. Here, we focus on epithelial folding, a fundamental process by which flat monolayers transform into 3D functional tissues. Using an innovative method for fold generation combined with live imaging, mechanobiology tools, and chemical screening, we uncover the role of calcium waves in the mechanical adaptation of folded epithelia at both tissue and nuclear levels. Folding-associated tension induces nuclear flattening that is recovered within minutes through calcium waves spreading outward across the epithelium. By creating an LBR-overexpressing mutant that relaxes the nuclear envelope, we show that, despite calcium waves, nuclear tension is required for shape recovery via cPLA2-dependent contractility. Our results identify the mechanism of nuclear shape recovery and reveal nuclei as internal tension sensors.
    Keywords:  Cell biology; Mechanobiology
    DOI:  https://doi.org/10.1016/j.isci.2025.114477
  10. Elife. 2026 Jan 23. pii: RP104528. [Epub ahead of print]14
      Asymmetric partition of fate determinants during cell division is a hallmark of cell differentiation. Recent work suggested that such a mechanism is hijacked by cancer cells to increase both their phenotypic heterogeneity and plasticity and, in turn, their fitness. To quantify fluctuations in the partitioning of cellular elements, imaging-based approaches are used, whose accuracy is limited by the difficulty of detecting cell divisions. Our work addresses this gap, proposing a general method based on high-throughput flow cytometry measurements coupled with a theoretical framework. We applied our method to a panel of both normal and cancerous human colon cells, showing that different kinds of colon adenocarcinoma cells display very distinct extents of fluctuations in their cytoplasm partition, explained by an asymmetric division of their size. To test the accuracy of our population-level protocol, we directly measure the inherited fractions of cellular elements from extensive time lapses of live-cell laser scanning microscopy, finding excellent agreement across the cell types. Ultimately, our flow cytometry-based method promises to be accurate and easily applicable to a wide range of biological systems where the quantification of partition fluctuations would help account for the observed phenotypic heterogeneity and plasticity.
    Keywords:  Caco2; HTC-116; cancer; cancer biology; division noise; human; physics of living systems
    DOI:  https://doi.org/10.7554/eLife.104528
  11. Nat Mater. 2026 Jan 19.
      Metastases arise from a multistep process during which tumour cells face several microenvironmental mechanical challenges, which influence metastatic success. However, how circulating tumour cells (CTCs) adapt their mechanics to such microenvironments is not fully understood. Here we report that the deformability of CTCs affects their haematogenous dissemination and identify mechanical phenotypes that favour metastatic extravasation. Combining intravital microscopy with CTC-mimicking elastic beads, mechanical tuning in tumour lines and profiling of tumour-patient-derived cells, we demonstrate that the inherent mechanical properties of circulating objects dictate their ability to enter constraining vessels. We identify cellular viscosity as a rheostat of CTC circulation and arrest, and show that cellular viscosity is crucial for efficient extravasation. Moreover, we find that mechanical properties that favour extravasation and subsequent metastatic outgrowth can be opposite. Altogether, our results establish CTC viscosity as a key biomechanical parameter that shapes several steps of metastasis.
    DOI:  https://doi.org/10.1038/s41563-025-02462-w
  12. ACS Appl Mater Interfaces. 2026 Jan 19.
      Polyacrylamide (PAM) hydrogels are extensively used as extracellular matrix mimics to study specific cell-material interactions. However, conventional biofunctionalization strategies lack chemo-selectivity and control over ligand density, compromising reproducibility and experimental reliability. In this work, we introduce firefly luciferin-inspired click ligation to enable efficient and tunable biofunctionalization of PAM hydrogels. A novel acrylamide-based comonomer containing cyanobenzothiazole (CBT) moieties is synthesized and incorporated into PAM hydrogels. CBT mediates biofunctionalization of PAM with N-Cys bearing biomolecules via luciferin click chemistry. Biofunctionalization occurs within only a few minutes, under mild conditions, with high efficiency, not requiring light exposure. Compared to the widely used sulfo-SANPAH (SS)-based approach, our method offers enhanced biofunctionalization efficiency, homogeneity, and control over biomolecule loading while preserving biochemical functionality. This translates into improved presentation of cell-adhesive cues, resulting in significantly increased cell attachment, spreading, and proliferation, as demonstrated by using label-free holotomography. The novel luciferin click ligation offers a robust, efficient, and reproducible alternative for PAM biofunctionalization, providing precise control over the ligand density while maintaining bioactivity. As PAM hydrogels continue to evolve into increasingly sophisticated mechanobiology tools, our approach may serve as a new standard for engineering the interfacial properties of these materials to achieve robust two-dimensional (2D) cell culture platforms for fundamental studies in cell-material interactions.
    Keywords:  bioconjugation; biofunctionalization; cell–material interactions; chemical selectivity; ligand loading; poly(acrylamide) hydrogels
    DOI:  https://doi.org/10.1021/acsami.5c20298
  13. Phys Rev E. 2025 Dec;112(6-1): 064403
      In eukaryotic cells, the nucleolus is a pivotal subnuclear organelle, instrumental in ribosomal RNA synthesis and nuclear organization. Although the unique viscoelastic properties of the nucleolus are associated with transient interactions between chromatin and regulatory proteins, the specific mechanistic details driving nucleolar phase separation and mechanical responses have remained largely undefined. In this study, we employ a computational approach to elucidate chromatin-protein interactions within the nucleolus of budding yeast, using a sophisticated bead-spring polymer model. This model integrates DNA and nucleolar architectures with dynamic simulations of interactions involving chromosomal structural maintenance proteins and rDNA transcriptional regulators through systematically varied cross-linking kinetics. Our findings reveal that modulations in protein-DNA interactions critically dictate the phase behavior, relaxation dynamics, and viscoelastic properties of the nucleolus, underscoring a complex but precise regulatory mechanism at play. Notably, protein-mediated bridging emerges as a critical factor enhancing nucleolar condensation and modulating stress relaxation, highlighting the transformative role of transient cross-linking in nuclear mechanics regulation. These insights not only deepen our understanding of nucleolar function but also open avenues for interventions in genetic engineering and disease therapeutics.
    DOI:  https://doi.org/10.1103/tn2w-kzb8
  14. Commun Eng. 2026 Jan 19.
      Accurately predicting long-term degradation in chaotic systems remains a fundamental challenge due to their sensitive dependence on initial conditions and non-periodic dynamics. Conventional numerical models, which rely on fine time-step integration, are computationally demanding and prone to cumulative errors. Here we present a phase-space random walk framework for degradation modeling in chaotic systems. The approach characterizes local degradation velocity distributions through short-time averaging and reconstructs the long-term evolution as stochastic transitions across phase-space regions. Validation on chaotic electronic and mechanical systems demonstrates that the method improves computational efficiency by over two orders of magnitude while maintaining prediction errors below five percent. The analysis further reveals that chaotic systems experience transitions among dynamic regimes with varying degrees of chaos during degradation. This framework provides an efficient and generalizable way to modeling complex degradation processes, offering a other insights into the reliability design of electronic, mechanical, and mechatronic systems.
    DOI:  https://doi.org/10.1038/s44172-026-00587-7