Apr 13 26
Featured Papers
Pseudomonas aeruginosa deploys competitor-specific antagonistic strategies
Ziyang Chen, Ned S Wingreen, Zemer Gitai
The pathogen utilizes contact-dependent Type VI secretion against slower-growing competitors while employing a staged program of diffusible growth inhibition and lysis to overcome faster-growing rivals.
Guidance of cellular nematic elastomers into shape-programmable living surfaces
Pau Guillamat, Waleed Mirza, Pradeep K. Bal, Manuel Gómez-González, Pere Roca-Cusachs, Marino Arroyo, Xavier Trepat
Topological defects and programmed active stress fields drive the autonomous transformation of flat tissues into complex three-dimensional geometries through Gaussian morphing.
5′ UTR length shapes alternative N-terminal protein isoforms across cancers and in rare disease
Jimmy Ly, Eric M Smith, Matteo Di Bernardo, Yi Fei Tao, Elizabeth M Black, Ekaterina Khalizeva, Iain M Cheeseman
Leaky ribosome scanning driven by shortened sequences shifts start codon selection toward downstream sites, providing a mechanism for how alternative transcription initiation and noncoding mutations functionally diversify the proteome.
Protein-templated synthesis of dinucleotide repeat DNA by an antiphage reverse transcriptase
Pujuan Deng, Hyunbin Lee, Carlo Armijo, Haoqing Wang, and Alex Gao
These findings reveal a protein-templated mechanism for sequence-specific DNA synthesis.
Efficient genome editing with chimeric oligonucleotide-directed editing
Long T. Nguyen, Noah R. Rakestraw, Brianna L. M. Pizzano, Rajan Iyyappan, Cullen B. Young, Yujia Huang, Kate T. Beerensson, Anne Fang, Sydney G. Antal, Katerina V. Anamisis, Coleen M. D. Peggs, Jun Yan, Yangwode Jing, Jordan G. Lewis, Rebecca D. Burdine, Britt Adamson, Zongliang Jiang, Jared E. Toettcher, Cameron Myhrvold, Piyush K. Jain
RNA-DNA hybrid molecules facilitate precise site-specific mutations by stabilizing the alignment between the corrective sequence and the genomic target to activate endogenous repair pathways.
Some Papers
Capturing transient states of heterodimeric ABC transporter TM287/288 by Time-Resolved Small-Angle X-ray Scattering
Lea Schröder, Dario De Vecchis, Andrey Gruzinov, Lars V. Schäfer, Clement E. Blanchet, Markus A. Seeger, Henning Tidow, Inokentijs Josts
Stopped-flow mixing identifies previously elusive transient intermediates, such as the occluded state, to characterize the complete kinetic and structural pathway of the transporter’s reaction cycle.
Real-time snapping dynamics and nanoscale thickness profiling of salmon keratocyte tunneling nanotubes using partially coherent quantitative phase microscopy
Afzal, Bilal M., Mikkelborg, Marie K., Thiyagarajan, Dhivya B., Wolfson, Deanna L., Ahluwalia, Balpreet S., Dalmo, Roy A., Ahmad, Azeem
These intercellular bridges exhibit a predominantly flattened geometry with heights ranging from 100 to 900 nm and display mechanical behaviors ranging from sustained structural integrity to spontaneous rupture.
Hamiltonian model for energy condensation in classical systems: Relevance to proteins
Jordane Preto, Vania Calandrini, Elena Floriani, Gergely Katona, and Marco Pettini
Nonequilibrium conditions drive the preferential excitation of low-frequency vibrational modes even without strict Fröhlich resonance, providing a robust mechanism for energy redistribution in biological macromolecules.
Dynamics of Wound Closure in Living Nematic Epithelia
Henry Andralojc, Jake Turley, Helen Weavers, Paul Martin, Isaac V. Chenchiah, Rachel R. Bennett, and Tanniemola B. Liverpool
Theoretical modeling informed by in vivo Drosophila pupae experiments identifies the spatiotemporal mechanics governing the reepithelialization process.
Discreteness-induced spatial chaos versus fluctuation-induced spatial order in stochastic Turing pattern formation
Yusuke Yanagisawa and Shin-ichi Sasa
The ratio between reaction volume and lattice spacing dictates the transition between noise-stabilized and discreteness-driven regimes as the reaction length scale approaches the grid resolution.
External mechanical force drives axonal cytoskeletal rearrangements
Grace L. Swaim, Oliver V. Glomb, Yi Xie, Chloe Emerson, Zhuoyuan Li, Daniel Beaudet, Adam G. Hendricks, Shaul Yogev
Talin, RhoA, and myosin coordinate a mechanosensitive response that preserves the structural continuity of the axonal microtubule network.
Phase separation induced by active polymerization makes protocells robust against environmental changes
Xi Chen, Jens-Uwe Sommer, Tyler S. Harmon
Stationary hysteresis in fuel-driven polymerization allows droplets to remain stable even when energy levels drop significantly, providing a mechanism for early prebiotic structures to survive environmental famines.
Identifying statistical indicators of temporal asymmetry using a data-driven approach
Teresa Dalle Nogare and Ben D. Fulcher
A systematic evaluation of irreversibility metrics demonstrates that the most effective signatures of non-equilibrium behavior vary significantly depending on a system’s underlying dynamics and nonlinearities.
Local RhoA activation induces anillin-independent septin recruitment in interphase cells
Shreya Chandrasekar, Margaret E. Utgaard, Bradley Somerfield, Huini Wu, Jordan R. Beach, Patrick W. Oakes
RhoA signaling drives septin recruitment to stress fibers independently of myosin-mediated contractility, positioning these filaments as key downstream mediators of cytoskeletal remodeling.
Directed swimming of \(Chlamydomonas reinhardtii\) near complex microstructures
Chunhe Li, Hongyi Bian, Zixiang Lin, Yi Man, and Zijie Qu
Hydrodynamic and steric interactions between flagella and solid boundaries govern the cells’ navigation, allowing specific surface topographies to act as passive controllers for guiding or trapping the organisms.
Temperature of an active nematic
Jay Armas, Akash Jain, and Ruben Lier
Spontaneous flows in confined geometries generate inhomogeneous profiles that serve as a measurable signature of activity, while mechanosensitive fuel consumption stabilizes linear fluctuations against active driving.
More is Less in Unpercolated Active Solids
Jack Binysh, Guido Baardink, Jonas Veenstra, Corentin Coulais, and Anton Souslov
Internal forces fail to propagate across the structure when active components are sparse, causing the total mechanical output to vanish as local activity levels rise.
Phase separation in a mixture of proliferating and motile active matter
Lukas Hupe, Joanna M. Materska, David Zwicker, Ramin Golestanian, Bartlomiej Waclaw, and Philip Bittihn
Growth-induced fluctuations generate emergent attractive forces that aggregate particles into dense clusters, establishing a mechanical basis for organization in biological contexts like tumors and biofilms.
Variations on the Three-Sphere: Laves’ Labyrinth Lopped
Lauren Niu, Randall D. Kamien
A three-coordinated, double-twisted network derived from the vertices and edges of the 600-cell provides a spherical analogue to the entangled \(srs\) structures characteristic of the Euclidean gyroid.
More Papers
Peptide ligands to explore interactions with intrinsically disordered multidomain proteins: the case of SARS-CoV-2 nucleocapsid protein
Tino, A. S., Quagliata, M., Schiavina, M., Attanasio, L., Santos, B. P. O., Pacini, L., Papini, A. M., Pierattelli, R., Felli, I. C.
Modularly designed fluorinated peptides target the central RNA-binding groove through sequence-dependent mechanisms of helical propensity and conformational flexibility.
Ultra-high dose rate electron FLASH beam irradiation using a modified clinical linear accelerator
Gyu-Seok Cho, Kyo-Tae Kim, Soon-Sung Lee, Jeong-Hwan Kim, Dong-Han Lee, Hong-Suk Chang, Sang-Hyoun Choi, Kum-Bae Kim, Tae-Keun Yang, Dong-Hyun An, Geun-Beom Kim, Kun-Uk Kang, Jin-Kyu Kang, Eun-Ji Kim, Eun-Kyung Paik, Mi-Sook Kim, Won-Il Jang, Kwang-Mo Yang
A rapid conversion protocol between conventional and high-intensity modes achieves dose rates of 339.1 Gy/s and satisfies essential preclinical criteria for establishing a database of biological radiation effects.
Adaptive Mechanical Proofreading Toward Robust yet Tunable Humoral Immunity
Qing Xu, Hongda Jiang, and Shenshen Wang
Dynamic cell-cell interactions facilitate an enhanced selection mechanism that harmonizes reliable clonal identification with flexible specificity.
Making invisible excited-state structures of pro-interleukin-18 visible by combining NMR and machine learning
Jeffrey P. Bonin, Jin Sub Lee, Zi Hao Liu, Philip M. Kim, Lewis E. Kay
Experimental NMR data used to filter structural ensembles from the generative machine learning model AlphaFlow identifies the specific atomic-resolution conformers of the protein’s rare and transient excited states.
Morphological and nanomechanical insights into the selective targeting of breast cancer cells by novel nickel ferrite nanoparticles
Dhahri, Samia, Messat, Yassine, Younes, Richard, Nasraoui, Farah, Othman, Manel, Cuisinier, Frederic J. G., Gergely, Csilla, Mliki, Najeh Thabet, Martin, Marta, Estephan, Elias
Spinel ferrites synthesized via solvothermal and hydrothermal routes significantly decrease the stiffness and viability of MCF-7 cells while sparing non-tumorigenic MCF-10 epithelial controls.
Interaction of a biologically active Zn2+ complex with human serum albumin: experimental and theoretical insights
Hari, Suparna Rudra, Ghosh, Subrata, Sepay, Nayim, Mandal, Harasit Kumar
This novel therapeutic scaffold demonstrates antibacterial and cytotoxic efficacy while spontaneously binding to subdomain IB through non-covalent interactions that modify protein conformation and reduce esterase-like activity.
Single-mRNA imaging and modeling reveal coupled translation initiation and elongation rates
Cédric Gobet, Felix Naef, Irene Lamberti, Jeffrey A Chao
Proportional adjustments in initiation and elongation rates maintain a homeostatic, low-density ribosome environment that prevents molecular crowding across various coding sequences and cellular stressors.
Calcium dependent activation of the TMEM16F scramblase and ion channel
Feng, Zhang, Alvarenga, Omar E., Di Zanni, Eleonora, Lee, Sangyun, Khelashvili, George, Accardi, Alessio
Cryo-electron microscopy reveals a conformation with distinct pathways for ions and lipids, providing a structural basis for the protein’s dual functionality.
The schizophrenia associated protein DISC1 forms a multivalent tetrameric hub via conserved UVR dimers
Zhou, Jin Chuan, Kratochvil, Jiri, Ye, Fei, el Omari, Kamel, Kukura, Philipp, Zhang, Mingjie, Seiradake, Elena
Bacterial-derived dimerization domains facilitate the assembly of a tetrameric core that enables DISC1 to interact multivalently with its diverse functional partners.
Glycosylation-Modulated Conformational Diversity in Neurotrophin Receptors
Alexandros Tsengenes, Christina Athanasiou, Rebecca C. Wade
Molecular dynamics simulations of p75, TrkA, and TrkB extracellular domains characterize the structural impact of N-glycosylation on monomeric and dimeric receptor states in both the presence and absence of neurotrophin ligands.
Fragmentation and aggregation of cyanobacterial colonies
Jef Huisman, Maziyar Jalaal, Petra M Visser, Robert Uittenbogaard, Yuri Z Sinzato
Division-based growth produces more shear-resistant structures than fluid-driven collisions, positioning biological processes as the primary determinant of size distributions until hydrodynamic stress exceeds typical wind-driven levels.
Atomistic characterization of the maturation mechanisms in the HIV-1 capsid domain
Cannistra, Caroline, Wang, Ethan, Lee, Elizabeth M. Y., Yu, Alvin
Stepwise conformational changes and key molecular interactions define a metastable intermediate that governs the protein’s transition between its immature and mature forms.
Folded domains impose structural heterogeneity and attenuated dynamics in biomolecular condensates
Wang, Liguo, Marrink, Siewert J.
Natural assemblies utilize these architectural keystones to establish complex internal frameworks that are absent in simplified intrinsically disordered region models.
Self-organized dynamics and emergent shape spaces of active isotropic fluid surfaces
Da Gao, Huayang Sun, Rui Ma, and Alexander Mietke
Nonlinear feedback between local curvature and active stress generates a diverse repertoire of non-equilibrium steady states, ranging from stationary polyhedral patterns to persistent, time-periodic oscillations.
Initiation of swarming in Bacillus subtilis as a resolution for the sorites paradox in bacteria
Ajesh Jose, Shira Omer Bendori, Avigdor Eldar, Daniel B. Kearns, Gil Ariel, Avraham Be’er
Four distinct, nonoverlapping biological and physical stages characterize the development of collective motion from individual planktonic cells.
Compositional memory matters for early molecular systems
Barnabe Ledoux, Ryoka Kuwabara, Norikazu Ichihashi, Ryo Mizuuchi, David Lacoste
Incomplete pooling of compartment contents preserves molecular ratios across generations, providing a stabilization mechanism for the coevolutionary dynamics of early replicators and parasites.
A universal polymer signature in Hi-C resolves cohesin loop density and supports monomeric extrusion
Kirill Polovnikov, Dmitry Starkov
A conserved density of six loops per megabase, extracted from contact probability analysis, matches chromatin-bound cohesin levels to establish that individual motors drive the extrusion process in vivo.
In situ and real-time monitoring of intracellular activities in single live cells using a nanopore probe
Xiaobin Huang, Ziyi Li, Yanling Huang, Ke Zhou, Lei Liu, Hai-Chen Wu
A dual-membrane system combining aluminum oxide nanostraws for extraction and a glass nanopore for detection enables label-free, multiplexed tracking of glutamate, ascorbic acid, and ATP dynamics within individual neurons undergoing ischemia-hypoxia.
Heterogeneity of Sonic Hedgehog response dynamics and fate specification in single neural progenitors
Andrea R Tentner, Fengzhu Xiong, Peng Huang, Sandy Nandagopal, Sean G Tsung-Megason, Tom W Hiscock
Significant overlap between the signaling profiles of motor neuron and floor plate progenitors reveals the precision limits of genetic regulatory networks in translating morphogen gradients into discrete cell fates within small, dynamic target fields.
Endogenous precision of the number sense
Arthur Prat-Carrabin, Michael Woodford
Numerical imprecision scales sublinearly with the range of expected quantities and varies between different tasks, reflecting an endogenous optimization that balances cognitive resource costs with behavioral rewards.
N-Glycans modulate tilting of HIV-1 envelope glycoprotein
Shehata, Mohamed, Casalino, Lorenzo, Duquette, Madeleine, Chen, Siyu, Flaherty, Alex, Waller, Patrick M., Villa, Elizabeth, Amaro, Rommie E.
Increased exposure of membrane-proximal external region (MPER) epitopes results from glycan-mediated tilting, as demonstrated by molecular dynamics simulations and cryo-electron tomography.
Efficient and reversible chirality induction between protein and achiral plasmonic assemblies
Zhou, Ziwei, Sun, Ningwei, Tverdokhleb, Nina, Movsesyan, Artur, Steiner, Anja Maria, Probst, Patrick T., Gupta, Vaibhav, Yin, Bo, Pazos-Peréz, Nicolás, Álvarez-Puebla, Ramón A., Taube, Mirjam, Müller, Martin, Merlitz, Holger, Guskova, Olga, Yingling, Yaroslava G., Lissel, Franziska S. -C., König, Tobias A. F., Wang, Zhiming, Govorov, Alexander O., Kotov, Nicholas A., Fery, Andreas
Mechanical modulation of protein conformation drives the emergence of intense plasmon-coupled circular dichroism signals.
Effects of “antifreeze” oligopeptides and electric fields on unidirectional ice growth in thin water layer
Masato Katoh, Tomonori Waku, Yoshimichi Hagiwara
Synergistic application of these chemical and physical mechanisms significantly inhibits the advancement of the solidification front and alters crystal morphology to enhance the preservation of biological and food materials.
Simultaneous electrodeformation-electroporation in biomimetic nuclear and plasma membranes of compound vesicle
Rupesh Kumar, Mayank Kumar, Rajarshi Chakrabarti, Rochish M. Thaokar
Systematic microscopy under varied conductivity and electric field parameters reveals the mechanisms governing dual-membrane poration for applications in intracellular organelle targeting.
Stress-aided thermal activation of crack propagation in multidentate hydrogen bonding adhesives
Zachary Lamberty, Ngon T. Tran, Daniel B. Knorr, Joelle Frechette
Cooperative bond-breaking kinetics dictate the energetic requirements for interface failure, explaining how these molecular architectures achieve superior durability in aqueous environments.
Emergent synchronization and defect dynamics in confined chiral active suspensions
Zaiyi Shen, Leilei Wang, Shishuang Zhang, Chenlu Li, Kaili Xie, Xu Zheng, and Juho S. Lintuvuori
Inertial hydrodynamic coupling alone drives spontaneous self-organization across a hierarchy of spatial and temporal scales.
The FlEye camera: Sampling the joint distribution of natural scenes and motion
Charles J. Edelson, Paul Smith, Sima Setayeshgar, William Bialek, and Rob R. de Ruyter van Steveninck
Optimal motion estimators derived from natural input statistics indicate that biological visual performance is primarily limited by environmental factors rather than physiological constraints.
Quinones operate as proton-collecting antennas in energy-transducing membranes
Adel Beghiah, Niusha Bagheri, Sofia Badolato, Hyunho Kim, Timir Baran Sil, Maximilian C. Pöverlein, Jerker Widengren, Ville R. I. Kaila
Ubiquinone headgroups stabilize protonated water species at the membrane-water interface through cation–π and hydrogen-bonded interactions, thereby accelerating lateral proton exchange and facilitating the maintenance of localized proton circuits for energy conversion.
FRET-based analysis of guanine nucleotide binding to γ-tubulin
Can Yin, Wanxin Tang, Yihao Fu, Robert Z. Qi
γ-tubulin preferentially binds GTP over GDP via a Mg²⁺-dependent mechanism that is essential for its ability to nucleate microtubule assembly.
Effects of hydrostatic pressure on epithelial dome formation and stability
Jianfeng Meng, Guangsong Xie, Yifei Zheng, Huaixuan Chen, Peng Xia, Pengfei Xu, Yingke Xu, Liangfei Tian, Qi Gao, Youhua Tan, Dechang Li, Baohua Ji
Collective cellular behaviors driven by mechanical loading determine the morphological evolution and structural persistence of these hollow tissue formations.
Active regulation of the epidermal growth factor receptor by the membrane bilayer
Bin Zhang, Gabriela S Schlau-Cohen, Raju Regmi, Shwetha Srinivasan, Xingcheng Lin, Xuyan Chen
Anionic lipids characteristic of cancer cells sustain the receptor’s active conformation independently of ligand binding, while cholesterol suppresses its signaling response, demonstrating that the membrane environment can override external biochemical cues through interactions with conserved basic residues.
Phage-assisted evolution of allosteric protein switches
Southern, Nicholas T., von Bachmann, Anna, Hovsepyan, Alisa, Griebl, Marielouise, Wolf, Benedict, Lemmen, Nina, Kroell, Ann-Sophie, Westermann, Simon, Mathony, Jan, Niopek, Dominik
High-performance optogenetic transcription factors are generated through a methodology that streamlines the engineering of complex signal-responsive behaviors.
Enhanced bacterial chemotaxis in confined microchannels occurs at lane widths matching circular swimming radius
Caijuan Yue, Chi Zhang, Junhua Yuan, Rongjing Zhang
Escherichia coli maximize their chemotactic drift velocity through the alignment of intrinsic clockwise circular swimming paths against microchannel sidewalls.
Reconstitution of Metabolic Reactions within Self-assembled, Multi-compartment Protein Vesicles
Jooyong Shin, Webley Woods, Yeongseon Jang
Artificial cell platforms provide a controllable environment for investigating and managing complex biochemical networks.
Revealing global stoichiometry conservation architecture in cells from Raman spectral patterns
Hidenori Nakaoka, Ken-ichiro F Kamei, Koseki J Kobayashi-Kirschvink, Miki Umetani, Takashi Nozoe, Yuichi Wakamoto
A low-dimensional hierarchical proteome structure enables cells to balance homeostasis and environmental adaptation, with the centrality of individual genes within these networks reflecting their essentiality and evolutionary conservation from bacteria to humans.
Kinesin-1 conformational dynamics are controlled by a cargo-sensitive TPR switch
Christiane Schaffitzel, Derek N Woolfson, Jessica A Cross, Johannes F Weijman, Jonathan J Phillips, Judith Mantell, Laura O’Regan, Mark P Dodding, Monika Kish, Sathish KN Yadav, Shivam Shukla, Ufuk Borucu, Xiyue Leng
Cargo-mediated dislocation of the KLC TPR domains from the KHC coiled coil 1 unlocks the autoinhibited heterotetramer to release motor domains and facilitate recruitment of the microtubule-associated cofactor MAP7.
Accurate Size Measurement of Individual Polydispersed Hard Spheres from Blurry Video
Kaiyao Qiao and Yilong Han
A convolutional neural network architecture trained on synthetic data quantifies how subtle variations in particle volume influence local structural configurations and transport properties in dense suspensions.
Dynamics of inducible genetic circuits
Zitao Yang, Rebecca J. Rousseau, Sara D. Mahdavi, Hernan G. Garcia, and Rob Phillips
Fundamental motifs such as switches and oscillators govern the complex behaviors and state transitions resulting from transcription factor interactions.
Friction-induced budding of a cancer cell monolayer
Mathieu Dedenon, Jorge Barbazán, Carlos Peréz-González, Danijela Matic Vignjevic, and Pierre Sens
Cancer-associated fibroblasts exert collective tensile stress at the tumor periphery to trigger mechanical instabilities that drive the outward expansion and morphological remodeling of the cell cluster.
Universal Persistent Brownian Motions in Confluent Tissues
Alessandro Rizzi and Sangwoo Kim
Traction forces and junctional tension fluctuations produce nearly identical long-time dynamics in dense cellular layers, revealing that distinct active force-generation mechanisms result in a shared migratory behavior.
Dynamical diversity in conductance-based neuron response to kilohertz electrical stimulation
J. G. Polli, F. Kolbl, P. Lanusse, and M. G. E. da Luz
Variations in ionic current densities and kinetics determine the specific thresholds for conduction block and the emergence of distinct firing patterns across different cell types.
Stochastic Synaptic Dynamics Under Learning
Jakob Stubenrauch, Naomi Auer, Richard Kempter, and Benjamin Lindner
Interactions between plasticity, noise, and homeostasis establish a fundamental tradeoff between memory lifetime and early accuracy by linking spike timing to long-term memory limits.
Exploring functional transitions of the 2’-dG riboswitch aptamer
Erdong Ding, Susmit Narayan Chaudhury, Karissa Y. Sanbonmatsu, José N. Onuchic
Magnesium ions and ligand binding modulate the stability of the P1 helix across a multibasin free energy landscape to facilitate the slow conformational changes required for gene expression control.
Contact-induced differential persistence as a mechanism for cell sorting
Bothe, Marius, Poliakov, Alexei, Lardet, Eloise, Pruessner, Gunnar, Bertrand, Thibault, Bordeu, Ignacio
Brief heterotypic encounters enhance directional stability, facilitating the rapid and organized segregation of mixed cell populations into distinct groups.
Astrocyte-mediated higher-order control of synaptic plasticity
Menesse, Gustavo, Millán, Ana P., Torres, Joaquín J.
Tripartite interactions stabilize recurrent neuronal circuits and enhance responsiveness to stimuli.
Structure–rheology–thermal property correlation in graphene oxide reinforced gum acacia-g-poly(acrylic acid) nanocomposite hydrogels
Pragnesh N. Dave, Sanjay Bamaniya, Pallavi Singh
Rational design of sustainable systems enables tailored mechanical stability and tunable viscoelastic properties to address key challenges in soft materials science.
Integrated electrical modeling of circulating tumor cells for enhanced dielectrophoretic trapping and electroporation
Sherif, Sameh, Ghallab, Yehya H., Ismail, Yehea
Cell-specific pulse protocols ranging from 1 to 40 kV/cm optimize membrane charging and pore nucleation across different cell diameters and are validated using real-time impedance spectroscopy to track changes in suspension conductivity.
Blocking of 2D bistable reaction-diffusion fronts by obstacles
J. -G. Caputo, G. Cruz-Pacheco, J. Gatlik, B. Sarels
A reduced analytical model based on conservation laws predicts propagation thresholds across diverse geometries by quantifying the interplay between spatial constraints and front nonlinearity.
Orientational bistability and field-controlled switching of a superparamagnetic dimer
James R. N. Tett, Finlay Johnston, Brennan Sprinkle, Alice L. Thorneywork
Coupled roll-yaw rotations arising from the interplay between induced and permanent magnetic moments create a complex energy landscape that allows for the characterization of internal magnetic properties through observed hopping and switching behaviors.
Deformation of Bacterial Cell Membranes by Action of Metal Surface under Plasmon Resonance Condition
Taras Vasyliev, Saulius Juodkazis, Valeri Lozovski
Surface plasmon excitation significantly expands the effective interaction area between the bacterial cell wall and nanostructured surfaces, providing a qualitative basis for enhancing mechanical antibacterial strategies.
Passivity-Driven Order-Disorder Transitions in Self-Aligning Active Matter
Weizhen Tang, Amir Shee, Zhangang Han, Pawel Romanczuk, Yating Zheng, Cristián Huepe
Isotropic and anisotropic mobility determine whether order–disorder transitions are continuous or discontinuous, while the passive fraction regulates the emergence and transient exploration of metastable collective states.
Multispecific DNA-Coatings for Self-Assembly
T. C. M. Stevens, A. van der Sluis, I. K. Voets, P. G. Moerman
Isothermal DNA polymerization provides the compositional precision required to demonstrate that building complex architectures depends on designing sequential binding pathways rather than relying on simultaneous equilibrium interactions.
Unraveling the Mechanism of Drug Binding to SARS-CoV-2 RNA Pseudoknot with Thermodynamics-Driven Machine Learning
Mariia Ivonina, Jakub Rydzewski
Physiological protonation states and structural topologies determine which helical stems are destabilized by the ligand, with the zwitterionic form uniquely dictating the slow conformational dynamics of the viral complex.
Highly coarse-grained polarisable water models for mesoscopic simulations
Michael A. Seaton, Benjamin T. Speake, Ilian T. Todorov
Integrating polarisability into the nDPD water model enables the representation of complex dielectric phenomena and interface restructuring in soft matter systems like electrolytes and organic membranes while maintaining consistency with atomistic benchmarks.
Persistent Free Volume Governs (Anti-)plasticization in Chitosan-Water Mixtures
Baris E. Ugur, Michael A. Webb
Weakening polymer-polymer and strengthening polymer-water interactions, coupled with the connectivity of additive-accessible volume regions, drive the mechanical transitions observed at varying water concentrations.
Mapping Strigolactone Hydrolysis in DWARF14 via QM/MM String Method
Dean, T. J.; Chen, J.; Shukla, D.
Acyl substitution initiated by nucleophilic attack on the butenolide ring is the favored reaction pathway, producing a dynamic ensemble of covalent adducts that triggers receptor activation.
Seabird trajectories map onto a reduced optimal-control bound for dynamic soaring
Louis González, Saad Bhamla
A common speed-effort plane derived from optimal-control theory quantifies wind-harvesting efficiency across species, distinguishing between near-optimal soaring, mixed flap-gliding, and non-soaring flight regimes.
Self-contact in a buckled elastica
Krishnan Suryanarayanan, Parth Patel, Anup Kumar Pathak, Harmeet Singh
Scale-invariant onset conditions and a persistent Hamiltonian govern the transition to self-contact, revealing multiple post-contact configurations for high-order modes and an infinite force requirement for point-to-line contact transitions in symmetric odd modes.
Specific heat of thermally driven chains
Michiel Gautama, Faezeh Khodabandehlou, Christian Maes, Ion Santra
A well-defined heat capacity matrix for this setup demonstrates a thermokinetic dependence on friction coefficients and provides a nonequilibrium extension of the Dulong-Petit law for driven molecular systems.
A generative model for bipartite gene-sharing networks
Jaime Iranzo, Pedro Jódar, Eugene V. Koonin, Susanna Manrubia, José A. Cuesta
Fundamental evolutionary processes, primarily gene gain and horizontal transfer, reproduce the characteristic power-law and exponential degree distributions observed in viral and prokaryotic pangenomes.
Hierarchical Bayesian calibration of mesoscopic models for ultrasound contrast agents from force spectroscopy data
Brieuc Benvegnen, Nikolaos Ntarakas, Tilen Potisk, Ignacio Pagonabarraga, Matej Praprotnik
Deep neural network surrogates and transitional Markov chain Monte Carlo sampling facilitate the efficient quantification of diameter-dependent mechanical properties, such as stretching stiffness and bending moduli, for Definity and SonoVue agents.
Coarse-Grained Model of the Sodium Dodecyl Sulfate Anionic Surfactant Based on the MDPD-Martini Force Field
Luís H. Carnevale, Gabriela Niechwiadowicz, Panagiotis E. Theodorakis
Explicitly modeling charged groups within this framework captures surfactant distribution and reproduces experimental surface tension isotherms more accurately than traditional molecular dynamics, demonstrating the model’s transferability to complex aqueous systems.
Universal Scaling of Freezing Morphodynamics in Polymer Solution Droplets
Nicolas G. Ulrich, Pravin P. Aravindhan, Olivia Berger, Bryan S. Beckingham, Jean-François Louf
The Capillary-Lewis number collapses freezing kinetics and morphological deformations across nine orders of magnitude by balancing viscous stresses, capillarity, and solute transport until material elasticity begins to dominate the response.
Membrane Tension Governs Particle Wrapping-Unwrapping Transitions and Stalling
Yasin Ranjbar, Yujun Teng, Haleh Alimohammadi, Huajian Gao, Mattia Bacca
Non-contact membrane deformation energy establishes a physical boundary that determines whether the balance of adhesion and particle size leads to nanoparticle internalization, equilibrium stalling, or spontaneous expulsion.
Dynamical Theory of Elastic Synchronization of Cardiomyocytes
Akinari Tomiie, Nariya Uchida
Mutual orientation and spatial separation determine whether the cells converge to in-phase or anti-phase beating, establishing a geometry-dependent state map governed by mechanical substrate interactions.
Non-diffusive slow heat dissipation induces high local temperature in living cells
Takarada, M.; Shirakashi, R.; Takinoue, M.; Ishida, M.; Morita, M.; Noji, H.; Tabata, K. V.; Funatsu, T.; Okabe, K.
Intracellular structures and molecules delay thermal relaxation to a timescale of seconds, demonstrating a deviation from conventional heat conduction models that typically govern homogeneous aqueous environments.
Building and maintaining a System of Intracellular Compartments
Amit Kumar, Madan Rao
Mechanochemical fusion-fission cycles provide a unified nonequilibrium framework that reconciles vesicular transport and cisternal progression as distinct phases of organelle assembly while defining the physical parameters that regulate compartment size, number, and chemical identity.
Learning Parameterized Nonlinear Elasticity on Curved Surfaces
Yankang Liu, Ke Zhang, Maziar Raissi, Roya Zandi
Physics-informed neural networks enforce governing equations and boundary conditions to represent continuous families of elastic equilibria across varying geometric and material parameters, providing a scalable alternative to traditional solvers that require re-initialization for each configuration.
Systematic Design of Local Rules for Directing Emergent Structure in Bottom-Up Systems
Andrew Slezak, Varda F. Hagh
Simple agents with limited sensing and no memory construct networked architectures with targeted global geometric properties, such as area coverage and line density, by following behavioral rules derived from tuning local degrees of freedom.
Bicuspid Valve Closure and Backflow Prevention: Role of Leaflet Geometry
B. Kaoui, A. Bou Orm, P. Navet, J. Baish, L. L. Munn
Stiffness and length-dependent thresholds define the transition to full occlusion, explaining the incompetence observed in abnormal or immature valves.
Thermodynamic fluctuations in freely jointed chains under force
Michael R. Buche, Alvin Chen
Probability densities and standard deviations for extension components and link angles reveal that fluctuations are significant unless high force is applied and generally diminish with increasing chain length, demonstrating that ensemble averages should not be treated as deterministic constants in polymer mechanics.
From Sedimentation to Suspension: Critical Strain as a Predictor of Particle Resuspension Thresholds
Mohammadreza Mahmoudian, Simon A. Rogers, Parisa Mirbod
Collective particle interactions and effective collisions mediate the transition to a suspended state, enabling a unified state diagram that predicts behavior across both steady and oscillatory shear regimes.
Dynamic Functional Connectivity Resolves Brain Integration-Segregation Trade-off Under Costly Links
Simachew Abebe Mengiste, Demian Battaglia
Structured patterns of controlled persistence and renewal enable the brain to maximize global communication speed while maintaining the local information recirculation necessary for efficient processing in cost-constrained environments.
Machine Learning-Enabled Mechanical Analysis and Optimization of Bioinspired Functionally Graded Materials
Zhangke Yang, Zhaoxu Meng
Convolutional neural network-based field predictors identify the specific mineralization and collagen fibril orientation gradients that minimize mechanical vulnerability at the tendon-bone interface.
Regular and Anomalous Motion of Individual Magnetic Quincke Rollers Under Rotating Magnetic Field
Zoran M. Cenev, Ville S. I. Havu, Jaakko V. I. Timonen
Superparamagnetic-doped silica particles follow regular helical modes or anomalous counter-rotational paths depending on the interaction of their initial magnetic dipole moment, translational velocity, and the applied field frequency.
Non-Monotonic Marangoni Suppression of Hydrodynamic Coarsening in Bicontinuous Liquid-Liquid Phase Separation
Tian Liu, Haohao Hao, Jiaxi Liu, Yongjie Zhou, Feiyu An, Huanshu Tan
Soluble surfactants optimally hinder domain coalescence at intermediate Péclet numbers through a transport-controlled balance between diffusion-driven interface replenishment and the advective retention of sharp concentration gradients.
Plasma membrane order maps functional diversity in immune cells
Andronico, L. A.; Gurdap, C. O.; Arora, A.; Ragaller, F.; Sandoz, P. A.; Jiang, Y.; Giatrellis, S.; de Boer, L.; Carannante, V.; Iskrak, S.; Mikes, J.; Buggert, M.; Osterborg, A.; Onfelt, B.; Klymchenko, A. S.; Brodin, P.; Sezgin, E.
Multidimensional cytometry defines discrete immune cell states by linking biophysical heterogeneity to specific transcriptional and spatial proteomic landscapes.
A Soft Penetrable Sphere Colloid Model for the Description of Charge and Excluded Volume Interactions in Antibody Solutions
Peter Schurtenberger, Marco Polimeni, Sophia Marzouk, Robin Curtis, Emanuela Zaccarelli, Anna Stradner
Analogies to star polyelectrolytes and soft colloids enable the quantitative prediction of thermodynamic and dynamic properties using physical parameters derived directly from the protein’s molecular structure.
Concentration regimes in salt-free aqueous xanthan solutions under shear
Ammar El Menayyir, Markus Neuner, Polina Fuks, Vahid A. Z. Alashloo, Halim Altuntas, Zehau Luo, Melike Özgül, Claudia Seeberger, Sharadwata Pan, Andreas Wierschem
Power-law dependencies of specific viscosity reveal six distinct structural regions, including gelation and high-intensity flow states, proving that polyelectrolyte scaling laws and interaction mechanisms remain valid indicators of molecular behavior beyond thermodynamic equilibrium.