Cell Reports Physical Science
○ Elsevier BV
Preprints posted in the last 90 days, ranked by how well they match Cell Reports Physical Science's content profile, based on 19 papers previously published here. The average preprint has a 0.01% match score for this journal, so anything above that is already an above-average fit.
Manoj, K. M.; Jaeken, L.; Tamagawa, H.; Burra, V. L. S. P.
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Hydrated extracellular polymeric phases (such as mucus, biofilms, and extracellular matrices) have traditionally been viewed as passive barriers. We complement and extend this view by analysing these systems through the murburn framework and liquid-liquid phase separation (LLPS) biophysics. Using quantitative modeling, we first demonstrate how frothy mucus in amphibian egg-masses enhances oxygen delivery while buffering diffusible reactive species (DRS), leading to improved developmental synchrony. We then model the human cervical mucus system, showing its cycle-dependent transitions between coherent barriers (pregnancy), active transduction media (ovulation), and controlled inflammatory remodeling (labor). Finally, we present thiolated polyglycerol sulfate (dPGS-SH) as a synthetic validation (another groups recently published work): this rationally designed mucolytic agent recapitulates native mucuss DRS-modulating properties and shows superior efficacy for addressing cystic fibrosis pathology. With such pan-systemic perspectives, we argue that phase-separated hydrated polymeric matrices represent one of evolutions most conserved solutions for regulating stochastic murburn chemistry, enabling organisms to exploit oxygen while preserving biological coherence. From biofilms to birth, this framework unifies the physicochemical basis of lifes most fundamental processes.
Ferrari, C.; Dehkohneh, A.; Schumacher, J.; Ogawa, Y.; Gerrits, R.; Fratzl, P.; Gorbushina, A. A.; Bidan, C. M.
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Black extremotolerant fungi form persistent biofilms on a wide range of natural and engineered substrates. Able to weather minerals, affect stone monument surfaces, and colonize solar panels, they demonstrate a strong capacity to interact with and modify material surfaces, even under most extreme conditions. In this study, we establish a methodological workflow for the structural and mechanical characterization of melanized biofilms formed by the black fungus Knufia petricola. This species represents a broader group of resilient surface colonizers and provides a model for in-depth investigation. When grown on solid agar/air interface, this species predominantly forms a compact biofilm, composed of spherical cells, while retaining the capacity for filamentous growth, providing a suitable framework to explore morphology-dependent biomechanical responses. The proposed toolbox combines complementary analytical techniques spanning multiple spatial scales, including shear-rheology to quantify bulk viscoelastic behavior, micro-indentation to resolve local stiffness of the biofilm surface, micro-computed tomography for non-destructive three-dimensional visualization of biofilm architecture, and cryogenic preparation methods and electron microscopy for high-resolution ultrastructural analysis. As a case study, we applied this workflow to compare biofilms grown on two nitrogen sources (NO3- vs. NH4+). Our results reveal that the nitrogen source plays a key role in biofilm morphology across multiple hierarchical levels - ranging from cell division patterns and distribution of extracellular polymeric substances (EPS) to overall mechanical properties, where NO3- leads to budding-dominated growth and increased stiffness, whereas NH4+ promotes meristematic growth and softer biofilms. The successful transfer and integration of methods originally developed for bacterial biofilm research highlights the feasibility of quantitative mechanical analyses in fungal systems. This multiscale toolbox provides a foundation for advancing the mechanistic understanding of fungal biofilms and biofilm-material interactions, with implications for geomicrobiology, material biodeterioration, and the design of bio-inspired functional materials. Graphical Abstract O_FIG O_LINKSMALLFIG WIDTH=200 HEIGHT=147 SRC="FIGDIR/small/720134v1_ufig1.gif" ALT="Figure 1"> View larger version (41K): org.highwire.dtl.DTLVardef@7fd08borg.highwire.dtl.DTLVardef@15476c2org.highwire.dtl.DTLVardef@40be50org.highwire.dtl.DTLVardef@8e9410_HPS_FORMAT_FIGEXP M_FIG C_FIG
Tsugawa, S.; Kikuchi, K.; Date, K.; Nonoyama, T.; Kang, Z.; Ueno, T.
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Spiral geometries commonly occur in natural and engineered systems and are fundamentally described by curvature and torsion. In deformation-dominated systems, these variables evolve dynamically, requiring a continuum mechanical framework to link geometry and deformation. This study focused on refractile bodies (R-bodies), protein supramolecular assemblies that undergo reversible roll-spiral transformations in response to stimuli such as pH changes. Although multiple R-body types with distinct morphologies and unrolling behaviours were experimentally identified, their deformation mechanisms lack quantitative theoretical descriptions. We proposed a deformation-gradient-tensor-based continuum model incorporating geometrical mapping from the rolled to spiral state within a unified framework. The model successfully reconstructed macroscopic deformation behaviours of types 51, 7, and Pa R-bodies by capturing differences in unrolling behaviours, tapered geometry, and spatio-temporal evolution. The analysis revealed that deformation proceeds through a coupled process in which the curvature decreases via straightening, while the torsion increases by twisting. Importantly, the framework connected the macroscopic morphology with microscopic lattice deformation, enabling quantitative inference of lattice intervals and angles. The proposed comprehensive geometric model of the R-body roll-spiral transformation offers a general mathematical foundation for understanding deformation-driven spiral transformations in soft matter systems.
Gopalakrishnan, A.; Denduluri, A. J.; Gallegos, S.; Ramirez, I.; Schneider, S. E.; Cetinkaya, Z.; Kabutz, H.; Hedrick, A.; Jayaram, K.; Neu, C.; Whiting, G. L.
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Organ-on-chip (OoC) systems enable the recapitulation of key structural and functional characteristics of human tissues within controlled micro-engineered environments. In mechanically active tissues such as musculoskeletal, cardiac, and vascular systems, the incorporation of dynamic physical forces is essential for replicating the biomechanical cues governing cellular morphology and functional responses in-vivo. Without such stimuli, OoC models may fail to capture physiologically relevant tissue behaviors. Porous and semi-permeable membranes are critical components of OoCs, facilitating selective transport of nutrients, gases, and signaling molecules between cellular compartments to support biologically accurate barrier replication. Hence, fabrication strategies that permit precise modulation of membrane permeability are desirable to accommodate for the varying needs in pore size and porosity across organ systems. This study presents a two-stage fabrication process for stretchable, microporous polydimethylsiloxane (PDMS) membranes using femtosecond (fs-) pulse laser drilling. The laser-ablated pores exhibit a characteristic conical morphology, with diameters tapering from the laser entry to exit point. By modulating laser power and number of pulses, 6-15 m exit-end pore diameters were achieved in 50 m thick PDMS films. The membranes demonstrated strong mechanical resilience, with a 5-12% reduction in Youngs modulus after 500 cycles of strain loading. Furthermore, membranes fabricated at lower laser powers exhibited superior retention of elasticity, highlighting the influence of processing parameters on mechanical behavior. Cytocompatibility and permeability assessments confirmed that the membranes supported sustained cell viability and proliferation over at least three days. In size-restricted membrane pore geometries, cellular migration was constrained without any inhibition of biomolecular transport. This selective permeability is critical in multilayer OoC architectures, where a balance between biomolecular diffusion and cellular compartmentalization is necessary to preserve distinct tissue interfaces and functional organization. This work presents fs-laser micro-drilling as a robust and tunable fabrication strategy for producing mechanically resilient, selectively permeable PDMS membranes for physiologically relevant OoC applications.
San Segundo-Acosta, P.; Le Coq, J.; Boskovic, J.; Aglietti, R. A.; Bowers, P.; Yeates, T. O.; Castells-Graells, R.
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Self-assembling protein cages are versatile nanoscale architectures with broad applications in drug delivery, vaccine development, and structural biology. Historically, two main strategies have been used to construct such cages: genetic fusion of oligomeric domains connected by helical linkers, and computational interface design using either physics-based or machine learning-based methods. Here, we extend the original fusion approach using modern AI algorithms and more sophisticated treatments of helix bending to create protein cages with novel architectures composed exclusively of trimeric building blocks arranged in tetrahedral symmetry. Of fifteen designs tested experimentally, multiple sequence variants of two of these designs assembled predominantly into soluble, monodisperse particles of the expected size, with native molecular masses of 633 kDa (T33-Fus-1A, B) and 638 kDa (T33-Fus-2). Cryo-electron microscopy (cryo-EM) structures of three distinct sequence variants spanning from 3.0-3.9 [A] in resolution confirmed the intended structures in atomic detail, with C-alpha RSMD values over the entire assemblies as low as 2 [A]. The predicted modes of helix bending were similarly validated. The results highlight the impact of methodological improvements for achieving a level of regularity and design precision that has largely evaded prior applications of the fusion approach. These findings expand the prospects and accessible design space for self-assembling protein nanomaterials.
Aljabbari, A.; Binion, H.; Dasaro, S.; Mitra, H.; Bethiana, T.; Harris, G.; Zhou, X.; Baghbanbashi, M.; Barrio-Zhang, A.; Perez Herrera, D.; Figueiredo, M.; Wilson, B.; Ardekani, A. M.; Ristroph, K.
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Lipid nanoparticles (LNPs) are conventionally produced through mixing of lipids dissolved in ethanol against a buffer containing RNA. An alternative strategy offering improved cold-chain stability involves formulating empty LNPs (eLNPs), removing ethanol, and post hoc loading (PHL) RNA into the aqueous eLNPs. The kinetics of this approach remain unknown. Here, we employ a flowthrough small-angle X-ray scattering (SAXS) setup based on a confined impinging jets (CIJ) mixer to probe PHL kinetics. We show that RNA PHL in a scalable CIJ mixer is efficient and reproducible, and that SAXS data confirms that this process concludes within ~12 ms under favorable conditions in rapid turbulent micromixing, suggesting a diffusion-limited aggregation mechanism. Favorable conditions were identified as an acidic pH 5.5 buffer combined with turbulent CIJ mixing. In contrast, PHL performed with a neutral pH 7.4 buffer using a CIJ mixer or under laminar flow with a pH 5.5 buffer resulted in inefficient PHL.
Aye, S. L.; Fadaei, F.; Gomibuchi, Y.; Suzuki, Y.; Prakash, P. S.; Chandrasekhar, S.; Yasunaga, T.; Schmidt, T.-L.; Sato, Y.
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Membrane models of scaffolded discoidal lipid bilayers called nanodiscs have proven to be a valuable tool for the study of membrane proteins in a native environment. DNA-scaffolded membrane model has emerged as an alternative tool for membrane protein studies. Taking advantage of the designability of DNA nanostructure, we created a double-decker double-stranded DNA ring (DDring) to self-assemble DNA-based nanodiscs (DNA-ND). The DDring is 17 nm wide and 4 nm high, and equipped with 28 alkyl chains on the inside that can interact with each hydrophobic leaflet of the lipid bilayer. We further demonstrate the functionality of DNA-ND membrane model with the assembly of membrane proteins. DDrings are suited to neutral or cationic charged phospholipids and detergents. This study provides more insights into the potential use of DNA- assisted nanodiscs for membrane protein characterization.
Lin, Y. J.; Feng, L.; Khan, A.; Park, K.-c.; Jung, S.
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Hygroscopic surfaces act as local vapor sinks that reshape the condensation field around them, but whether distributed biological structures do the same has not been investigated. We have established that hyphae of fungal colonies functionally behave as vapor sinks, creating a dry region of width{delta} around themselves when placed on a cooled substrate. In addition, the radial distribution of droplet sizes steepens during condensation, and the rate at which droplets evaporate locally after chamber drying increases. In order to quantify this behavior, we employed a combination of time-resolved imaging and survival analysis to determine how long individual droplets persist on the surface surrounding the colony. These data were used to derive three quantitative measures of the vapor-sink effect. Each measure was found to be directly proportional to the vapor-sink strength of the substrate, as calibrated against NaCl-agar hydrogels of known water activity (LOOCV RMSE = 0.031 for recovered aw). These findings were consistent across three fungal genera (35 experiments), and all species fell along calibration lines defined by the hydrogel standards. This result is consistent with a diffusion-limited vapor-depletion framework. The measured genus-level{delta} ratios agreed to within 6% of predictions from structural absorbing capacity, and field measurements on Gymnosporangium-infected apple leaves were consistent with the same signatures under natural conditions. These results establish a non-contact method for inferring the material properties of thin hygroscopic biological surfaces from their condensation patterns.
Rios Carrasco, M.; Tambuwun, D. Y. E. L.; Ducarne, Z.; Turner, H. L.; Uslu, E.; Ward, A. B.; Boons, G.-J.; Huskens, J.; de Vries, R. P.
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The multivalent display of surface glycoprotein hemagglutinin (HA) on Influenza A viruses (IAVs) enhances the overall binding avidity to sialylated glycans on host cell surfaces. While precomplexing HA trimers with antibodies increases multivalency and avidity, this method does not replicate the virions geometry and limits insights into the multivalent binding process. Here, we use perfectly controllable icosahedral protein nanoparticles to examine the multivalent HA receptor-binding properties. We compare three HA presentation systems with varying degrees of multivalency: single HA trimers, antibody-precomplexed HA trimers, and HA trimers on nanoparticles. Our results indicate that increasing HA valency enhances binding avidity across various glycan surfaces, including erythrocytes, cells, and lipid bilayers with varying glycan densities, while maintaining receptor specificity. By combining functional and non-functional HA trimers during nanoparticle formation, we create statistical mixtures of nanoparticles with varying valencies. At high receptor densities, nanoparticles with few functional trimers still bind strongly, whereas at low receptor densities, a patch of five HA trimers appears necessary for binding. As a key finding, we observe that such a statistical mixture of nanoparticles with functional and nonfunctional HAs binds to glycan surfaces in a stronger density-dependent manner than fully functional particles. We also observe differences in binding modes that correlate with the number of functional trimers, the glycan structure (linear vs branched), and the densities achievable with these glycans. Overall, our findings demonstrate that the presentation of multivalent HA plays an enormous role in the response to glycan receptor type and density, with implications for the future design of virus monitoring, viral inhibitors, and targeting vectors.
Fan, Q.; Chen, J.; Mishra, A.; Bock, M.; Stewart, A.; Cai, C.; Dominguez, J.; Liu, J.; Chen, Y.; Wu, R.; Chen, T.-H.; Huang, J.; Payne, C.; Lipkin, M.; Zhong, P.; Hsu, P.-C.
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Laser lithotripsy (LL) is the gold standard for urinary stone management yet maximizing ablation efficiency while maintaining procedural safety remains clinically challenging. Here, we present a visibly transparent, near-infrared (NIR)-absorbing ITO@SiO2 nanofluid irrigation strategy that significantly enhances LL efficiency without compromising endoscopic visibility. By spectrally matching the absorption profile of ITO@SiO2 with the clinical Holmium:YAG laser wavelength, ablation efficiency improved by >200% in the bench-top spot treatments and >100% in the hydrogel kidney model. Mechanistic investigations revealed that the enhanced optical absorption of the nanofluid modifies bubble dynamics and synergistically amplifies photothermal/microexplosion effects and cavitation damage. Importantly, both in-vitro hydrogel and in-vivo porcine kidney models demonstrated a substantial thermal safety margin (maximum temperatures <35 {degrees}C) and excellent acute biocompatibility, with no evidence of thermal tissue injury. Integrating seamlessly into established clinical workflows without requiring stone pretreatment, this strategy offers a highly translatable, safe, and efficient platform for next-generation endoscopic lithotripsy.
Letchumanan, J. S.; Gandhi, S.; Yin, H.; Blackman, S.; Fabbri, J.; Konofagou, E.; Kessler, D.; Shepard, K.
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Point-of-care ultrasound has transformed bedside diagnostics, yet current systems remain limited by rigid form factors, bulky external electronics and the need for skilled operators. Here we report a conformable ultrasound imaging patch that integrates a 1024-channel CMOS ultrasound application-specific integrated circuit (ASIC) directly beneath a conformable piezocomposite transducer array. The 10 mm X 8 mm, 1024-element ASIC contains on-chip transmit and receive beamforming, reducing the effective off-chip channel count by 16X while preserving image fidelity. Fabricated on a flexible polyimide substrate and bonded using anisotropic conductive film, the patch operates untethered from conventional ultrasound consoles and requires only a laptop for control and data acquisition. The device supports focused, plane-wave and diverging-wave transmission with steering over {+/-}30{degrees} in azimuth and {+/-}15{degrees} in elevation, achieving peak-to-peak acoustic pressures up to 7 MPa at a 4.4-MHz center frequency (mechanical index of 1.7), within diagnostic safety limits. Phantom experiments demonstrate three-dimensional imaging with axial and lateral resolutions (in both XZ and YZ planes) of 0.5 mm and 2 mm, respectively, and accurate contrast reproduction in tissue-mimicking phantoms. Human studies further demonstrate three-dimensional (3D) visualization of the internal jugular vein and carotid artery, as well as rib-shadow-free imaging of pleural motion during respiration. This work establishes a scalable architecture for chronic, wearable ultrasound imaging and highlights the potential of CMOS-integrated, conformable ultrasound systems for continuous physiological monitoring and remote diagnostics.
Labib, S.; Liu, J.
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Transcranial focused ultrasound is an emerging noninvasive neuromodulation technique offering high spatial precision and deep penetration. However, in deep brain neuromodulation in mice, the skull base attenuates the signal, distorting the focal region and creating off-target peaks. This study presents a machine-learning-driven simulation framework to optimize a bowl-shaped phased-array transducer design for hypothalamic targeting and compares its performance with that of time-reversal phase conjugation and a single-element baseline. A computed tomography-based mouse head model was used for full-wave acoustic simulations with a fixed bowl geometry (10 mm aperture, 6 mm radius of curvature). Designs were evaluated across various parameters, including operating frequency (0.2-1.5 MHz), active element count (16, 32, 64, 128), and element diameter (300-550 m). The evaluation employed four metrics: the presence of a -3 dB focal region within the hypothalamic area, axial focal length defined by the -3 dB full-width at half maximum, focal fragmentation measured by the -3 dB blob count, and targeting displacement. Random Forest surrogate models were trained in simulation outputs and paired with the Non-dominated Sorting Genetic Algorithm II to reduce computational costs during multi-objective optimization. The forward-excitation-optimized phased-array design (0.73 MHz, 128 elements, 381 m element diameter) achieved a focal region at the hypothalamic target with a full width at half maximum of 0.67 mm, a blob count of 1, and a targeting displacement of 0.38 mm when placed 1 mm below the nominal position. Time-reversal phase conjugation further improved confinement and targeting (full width at half maximum: 0.59 mm; displacement: 0.37 mm). Limitations include reliance on a single mouse anatomy, and incorporating additional CT-derived anatomies should enhance generalizability across strains, ages, and sexes. O_FIG O_LINKSMALLFIG WIDTH=200 HEIGHT=96 SRC="FIGDIR/small/727023v1_ufig1.gif" ALT="Figure 1"> View larger version (28K): org.highwire.dtl.DTLVardef@62de15org.highwire.dtl.DTLVardef@e26e57org.highwire.dtl.DTLVardef@1ba4893org.highwire.dtl.DTLVardef@f2c77a_HPS_FORMAT_FIGEXP M_FIG C_FIG HighlightsO_LIA CT-based acoustic simulation and machine-learning framework was developed to optimize bowl-shaped phased-array transducers for mouse hypothalamic tFUS neuromodulation. C_LIO_LIRandom Forest surrogate models coupled with NSGA-II efficiently identified optimized array designs across frequency, element count, and element diameter. C_LIO_LIThe optimized phased-array design produced a compact hypothalamic focus with submillimeter targeting displacement, with further confinement achieved using time-reversal phase conjugation. C_LI
Appak-Baskoy, S.; Khan, M. S.; Ghaderi, F.; Exner, A. A.; Kolios, M. C.; Coe, I. R.
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Pancreatic ductal adenocarcinoma (PDAC) remains one of the most lethal malignancies due to its dense stroma, which limits drug delivery and therapeutic efficacy. Ultrasound (US) mediated strategies using nanobubbles (NBs) offer a promising approach to enhance treatment, yet the biological effects of NB exposure and the timing of US application remain unclear. Here, we investigated how NB exposure with immediate (0h) or delayed (1h) US affects viability, proliferation, metabolism, and stress signaling in PANC-1 and BxPC-3 cells. Immediate US exposure in the presence of extracellular nanobubbles resulted in a greater reduction in cell viability at 24 h compared to delayed US application. Proliferation analysis showed that Ki67 positivity decreased following USNB treatments in both cell lines. Metabolically, NB treatment alone increased cellular activity, whereas combined USNB treatment reduced metabolic activity over time. Seahorse analysis revealed higher basal respiration in PANC-1 cells compared to BxPC-3 cells, consistent with a more glycolytic phenotype, while USNB treatment enhanced glycolytic responses, particularly in PANC-1. Moreover, stress responses were also more pronounced in PANC-1 cells, with HSP70 expression increasing up to 2-fold in NB incubated group and decreasing in USNB groups compared to untreated, whereas BxPC-3 cells exhibited only modest and opposite changes to PANC-1 in HSP70 expression decreasing with NB incubation. Treatment timing critically influenced outcomes, with immediate US producing stronger antiproliferative and cytotoxic effects, highlighting the importance of sequencing in USNB therapeutic strategies. Moreover, NBs alone stimulated metabolic and stress responses that may promote proliferation, whereas NBs combined with US induced stronger stress responses associated with metabolic reprogramming and reduced proliferation.
Zhao, J.; Zhao, Z.; Huang, X.; Li, Y.; Wu, J.; Peng, S.; Wang, S.; Sun, G.; Luan, Z.
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Objective To verify the reliability of a self developed bowel sound monitoring device under real biological tissue acoustic propagation conditions using a controllable sound source, and to establish quantitative evidence for its translational applicability. Methods Freshly euthanized six month old Bama miniature pigs were used as an experimental model. A high fidelity Bluetooth audio playback device was implanted into the abdominal cavity to deliver manually annotated bowel sound recordings as controllable acoustic stimuli. A self developed bowel sound monitoring device was fixed on the abdominal surface for continuous signal acquisition. Playback timestamps were defined as the ground truth, and event level matching was performed within a predefined temporal tolerance window. Four performance indicators were evaluated: (1) bowel sound acquisition and energy amplification, (2) event matching accuracy, (3) acoustic feature consistency, and (4) subjective agreement assessed by blinded auscultation from gastroenterologists with different levels of clinical experience. Results The monitoring device exhibited stable detection capability and effectively covered the full spectral range of the original signals. It significantly enhanced bowel sound energy while preserving temporal and spectral characteristics, demonstrating high consistency in time and frequency domain features. Blinded clinician assessments showed a subjective agreement rate of 88.9% between original and surface recorded bowel sound events. Conclusions Under real tissue acoustic propagation conditions, the self-developed bowel sound monitoring device reliably captures bowel sound events with high temporal accuracy, acoustic fidelity, and clinical perceptual consistency. This controllable sound source based validation provides robust technical evidence for subsequent in vivo studies and clinical translation, supporting the development of objective and continuous gastrointestinal function monitoring.
Sklar, C.; Huh, S.; Chen, S.; Gray, J. J.
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Self-assembled peptide-based nanostructures have diverse applications in the pharmaceutical and materials fields, but accurately predicting their self-assembly behavior without time-intensive organic synthesis and characterization remains a significant challenge. Here, we assess the effectiveness of AlphaFold3 (AF3), a deep learning model for protein structure prediction, in modeling peptide-based nanostructures and the interactions driving supramolecular self-assembly. We designed amphiphilic peptides composed of alternating hydrophobic residues (valine, leucine, isoleucine, phenylalanine) and hydrophilic residues (glutamic acid), varying both sequence length and residue order. Using AF3s multimer mode, we modeled assemblies with copy numbers ranging from 10 to 1000, generating diverse morphologies such as micelles and nanotubes. We qualitatively analyzed hydrophobic regions, secondary structures, and intermolecular interactions, while also calculating radii of gyration, packing scores, and aspect ratios using PyRosetta. Our results indicate that AF3 predicts morphologies consistent with hydrophobic driving forces and steric constraints. Increased hydrophobicity correlates with smaller radii of gyration, while higher copy numbers correspond to smaller aspect ratios (more compact structures). Longer hydrophobic segments lead to disordered structures, whereas longer hydrophilic segments promote organization. While AF3 captures systemic trends consistent with biophysical principles, comparisons to literature reveal discrepancies driven by charge effects and secondary structure bias, including an overemphasis on helical propensity (e.g., alanine-rich sequences) and sensitivity to terminal charge repulsion. Additionally, since AF3 is predisposed to predict a single assembled entity rather than higher-order assemblies such as multiple micelles or fibers, finding the optimal copy number for the best prediction requires system-specific iteration. These limitations highlight the need for complementary approaches with controlled chemical potential and environmental conditions, though qualitative agreement with experimental trends in morphology and compactness supports AF3s utility for initial structure generation. Our findings highlight AF3s potential as a user-friendly design tool for structure generation in peptide design, aiding the efficient development of functional self-assembled peptide nanomaterials.
Ying, B.; Yu, K.-H.; Yang, S.; Yang, J.
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An e-GLUE is a polymer network containing interpenetrating polycations, which can bond the anionic network of mucosa through interfacial polycation bridging under an electric field. Such an electroadhesion involves electrophoresis of polycations, ionic complexation between polycations and the anionic network, and polycation-network entanglement, yet their quantitative understanding is lacking. Here, we formulate a theoretical model to describe electroadhesion of polymer networks by polycation interfacial bridging. We use a diffusion-drift model coupled with a Bell-like field-dependent chain friction to describe the sticky electrophoresis of polycations in an anionic sea. The formation of ionic bonds is determined by local availability of cations and anions over the penetration depth. To debond, a force must either pull polycations out from the e-GLUE network or first dissociate them from ionic complexes and then pull out from the anionic network. We model chain pullout from the bulk networks to the interface as a viscous drag against water. The adhesion strength is calculated by summing the debonding force for each polycation per unit area across all chains. Our model quantitatively links electric field strength, applied duration, polycation chain length, and cation concentration to polycation electrophoresis kinetics, ionic bond formation, and adhesion strength. We further conduct electroadhesion tests, and our model predicts well with the experimental data. Lastly, we discuss the use of the model to guide the e-GLUE design. TOC graphic O_FIG O_LINKSMALLFIG WIDTH=200 HEIGHT=90 SRC="FIGDIR/small/730541v1_ufig1.gif" ALT="Figure 1"> View larger version (45K): org.highwire.dtl.DTLVardef@16524c6org.highwire.dtl.DTLVardef@15163aeorg.highwire.dtl.DTLVardef@673949org.highwire.dtl.DTLVardef@e207a0_HPS_FORMAT_FIGEXP M_FIG C_FIG For Table of Contents use only
Klose, A.; Gounani, Z.; Raik, S.; Koivuniemi, A.; Korhonen, S.; Reinisalo, M.; Lajunen, T.; Linko, V.; Laaksonen, T.
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DNA origami nanoparticles (DONs) are attractive nanocarriers of controllable size, shape and addressability that have potential for treating eye diseases by overcoming ocular barriers. However, suboptimal physiological stability and poor cell uptake due to the negative charge may limit their use. Previous reports show that electrostatic complexation of DONs with cationic PEG-oligolysine block-copolymers like PEG5K-K10 can improve structural integrity and promote cell internalization. Here, we investigated a dual approach of PEG5K-K10 coatings and PL3 targeting peptides to improve uptake of 24-helix bundle (24HB) DONs into Y-79 retinoblastoma cells. Uptake studies revealed that PEG5K-K10 was essential for DON uptake in Y-79 cells, as uptake only occurred upon exceeding a distinct PEG5K-K10 amount. Longer exposure times or increased polymer amounts improved cell association. However, no beneficial effect of PL3 was observed. While free PEG5K-K10 reduced cell viability at higher concentrations (IC50 36.8 {micro}M), coated DONs were well-tolerated. Furthermore, single particle tracking in ex vivo porcine eyes revealed comparable vitreal mobility for uncoated and coated 24HB, with a slight decrease at higher coating amounts. Our findings highlight that PEG5K-K10 can enhance ocular cell uptake without limiting nanoparticle diffusivity in the vitreous, and support further optimization of DONs for ocular drug delivery.
Mohammadian, M.; Seemann, R.
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Enveloped viruses can enter host cells by fusing their membrane with that of the host cell, a process known as membrane fusion. This process depends on specific fusion proteins located on the viral particle surface, which contain a short, relatively hydrophobic segment called "fusion peptide" that binds to the host membrane. To investigate the fusion efficiency of various fusion peptides, we create simplified non-infectious virus like particles decorated with different fusion peptides and fuse them with an artificial cell membrane. For this purpose, microfluidic devices are used to create supported lipid bilayers while the result of the fusion process is studied by fluorescence microscopy. Our study provides structural insights into the interactions between virus particles and cell membranes, which can facilitate the development of new therapeutic strategies and more effective viral vectors for therapeutic applications.
Janarthanan, G.; Chand, R.; Vijayavenkataraman, S.
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Conventional extrusion-based 3D bioprinting encounters limitations in fabricating intricate tissue architectures due to fixed nozzle diameters and fixed deposition orientations. These constraints restrict conformal printing on curved or non-planar surfaces and often necessitate support-intensive fabrication strategies. This work introduces a mechanically simplified extrusion platform inspired by the swivel jet nozzle, featuring a free-degree-of-orientation extrusion head termed the universal extrusion head (Univ-Ex head), coupled with a modular nozzle architecture. The Univ-Ex head employs a swivel-like mechanical design that enables orientation freedom without external actuation in its current implementation, thereby minimizing mechanical complexity while supporting deposition on physiologically relevant, non-planar geometries. Multiple nozzle concepts were developed through comparative CAD iterations, with two representative geometries--a flat nozzle and a conical nozzle--selected for experimental validation. The platform is evaluated through parametric CAD design, stereolithography-printed prototypes, proof-of-concept extrusion experiments, and fluid dynamics simulations performed using FLOW-3D software. Numerical and experimental results demonstrate stable filament formation and clear diameter-dependent extrusion behavior, while simulations further confirm the feasibility of angled and non-planar deposition. A variable-diameter nozzle concept is proposed as a forward design direction to enable real-time adjustment of bioink flow rate and deposition resolution in principle; however, the present study intentionally validates the system using fixed-diameter nozzle variants to maintain stable numerical and experimental boundary conditions. A gear-integrated Univ-Ex head is also presented as a forward upgrade and demonstrated as a single-piece prototype. Collectively, this work establishes a scalable, hardware-focused pathway toward conformal bio-additive manufacturing. Graphical Abstract O_FIG O_LINKSMALLFIG WIDTH=200 HEIGHT=96 SRC="FIGDIR/small/734010v1_ufig1.gif" ALT="Figure 1"> View larger version (63K): org.highwire.dtl.DTLVardef@8833caorg.highwire.dtl.DTLVardef@33dforg.highwire.dtl.DTLVardef@14d8d11org.highwire.dtl.DTLVardef@685ef0_HPS_FORMAT_FIGEXP M_FIG C_FIG
Kafour, N.;Al-Maslamani, N.;Al-Sammak, B.;Horn, H.
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Mechanical forces have a major effect on cell behavior. Most cells in vitro are grown under static conditions on hard tissue culture plastic, conditions that do not accurately reflect living tissues. The ability of cells to sense and respond to mechanical forces is essential for key biological processes, including development, proliferation, and migration. Disruption of the ability to respond to mechanical forces are known to be a critical factor in many diseases, including cardiovascular disease, progeria, and cancer. Here, we present the design, fabrication, and biological testing of a custom-built cell-stretching device that applies controlled biaxial strain to cells cultured on a polydimethylsiloxane (PDMS) membrane. We then used this device to examine how cells respond to strain. In response to biaxial strain, MCF-7 cells activated the mechanosensitive immediate early gene (IEX-1), with its expression increasing significantly after 1 and 3 hours of stretching. Cells exposed to mechanical strain also remodeled their cytoskeleton in a direction-dependent manner. Under uniaxial strain, actin filaments reoriented perpendicular to the stretch direction, whereas biaxially stretched cells do not promote directional reorientation, but instead appear to reinforce actin at the cell periphery. Similarly, cells under uniaxial strain exhibited changes in nuclear orientation and shape that were not observed under biaxial strain. Nuclear area remained unchanged in either strain condition. These results highlight that the biaxial stretcher can be used to apply strain to cells, and that cells respond differently to biaxial strain compared to what has been reported for uniaxial strain.