Filament Mechanism Research Articles

Small organic osmolytes accelerate actin filament assembly and stiffen filaments.

Actin filament assembly and mechanics are crucial for maintenance of cell structure, motility, and division. Actin filament assembly occurs in a crowded intracellular environment consisting of various types of molecules, including small organic molecules known as osmolytes. Ample evidence highlights the protective functions of osmolytes such as trimethylamine-N-oxide (TMAO), including their effects on protein stability and their ability to counteract cellular osmotic stress. Yet, how TMAO affects individual actin filament assembly dynamics and mechanics is not well understood. We hypothesize that, owing to its protective nature, TMAO will enhance filament dynamics and stiffen actin filaments due to increased stability. In this study, we investigate osmolyte-dependent actin filament assembly and bending mechanics by measuring filament elongation rates, steady-state filament lengths, and bending persistence lengths in the presence of TMAO using total internal reflection fluorescence microscopy and pyrene assays. Our results demonstrate that TMAO increases filament elongation rates as well as steady-state average filament lengths, and enhances filament bending stiffness. Together, these results will help us understand how small organic osmolytes modulate cytoskeletal protein assembly and mechanics in living cells.

High efficiency femtosecond laser ablation of alumina ceramics under the filament induced plasma shock wave

Femtosecond laser filament enables energy transfer over long distances, which is of great value for studying long-range ablation. However, the energy coupling of filament with the plasma generated by the ablation process leads to a very complex behavior which limits the ablation efficiency. This study systematically investigated the ablation mechanism of laser-induced filament in alumina ceramic. The plasma shock wave was initially investigated using spectral detection techniques combined with Sedov-Taylor theory. The results indicated that the maximum plasma shock wave reached 30 MPa under the irradiated by a 1 mJ fs laser. The theoretical analysis confirmed the effectiveness of the filament-induced plasma shock wave in enhancing the ablation rate of alumina ceramic. In this context, the experimental studies were conducted with varying filament positions and pulse energies, and the corresponding ablation rates for each parameter were investigated. The filament in the ablation process was found to has a secondary sputtering effect, which is an effective contributor to enhance the ablation rate. The corresponding ablation depth reach to 550 μm while achieving an ablation rate of 3.1 μm3/μJ. Finally, the coupling mechanism between the femtosecond laser filament and the plasma shock wave was systematically revealed. This research will facilitate future laser remote ablation applications with high efficiency.

Studying of Filamentation Mechanism for Nanosecond Surface Dielectric Barrier Discharge. Part 1. Local Field Approximation

The goal of this work is to check numerically whether or not the previously proposed mechanism for surface barrier discharge filamentation in nitrogen in the case of positive polarity nanosecond voltage pulse is applicable for similar process in nitrogen and air in the case of negative voltage polarity pulse. The results have shown, that in this case some signs of successful filamentation modeling are present both in nitrogen and air, but the whole dynamics of discharge development is qualitatively different from that one observed in experiment. It is assumed, that the failure of simulation is due to the usage of local field approximation, which is too rough inside a region with steep electron density gradient relevant to filamentation zone.

Growth-induced collective bending and kinetic trapping of cytoskeletal filaments.

Growth and turnover of actin filaments play a crucial role in the construction and maintenance of actin networks within cells. Actin filament growth occurs within limited space and finite subunit resources in the actin cortex. To understand how filament growth shapes the emergent architecture of actin networks, we developed a minimal agent-based model coupling filament mechanics and growth in a limiting subunit pool. We find that rapid filament growth induces kinetic trapping of highly bent actin filaments. Such collective bending patterns are long-lived, organized around nematic defects, and arise from competition between filament polymerization and bending elasticity. The stability of nematic defects and the extent of kinetic trapping are amplified by an increase in the abundance of the actin pool and by crosslinking the network. These findings suggest that kinetic trapping is a robust consequence of growth in crowded environments, providing a route to program shape memory in actin networks.

Filament formation mechanisms in yield-stress fluid-enabled embedded ink writing

Embedded ink writing (EIW), an emerging material extrusion-based three-dimensional (3D) printing strategy, has demonstrated great potential for diverse applications. EIW consists of three key components: support bath, ink, and printing conditions. Filament formation in EIW is significantly affected by the coupling effects of these components, which is still unclear. This work aims to fundamentally unveil the filament formation processes and mechanisms within support bath materials with various rheological properties. A broader range of path speed is utilized to ensure the formation of diverse representative filaments from low- and high-viscosity hydrogel inks. By varying the combination of support bath, ink, and printing conditions, ten types of filaments are observed during EIW and their formation mechanisms are explained in detail. Particularly, when designing a support bath for EIW, thixotropic time serves as the baseline to determine the functionality of the bath. A relatively long thixotropic time can facilitate the formation of well-defined filaments. In addition, the support bath’s yield stress decides the allowed maximum path speed. High yield stress is necessary if path speed is targeted in a higher range. Based on the experimental findings, a position-shape-size evaluation system is established and proposed for comprehensively evaluating printed filaments, which is helpful in filtering suitable filaments for EIW. Finally, complex 3D structures including a human nose and a human ear are printed at a high speed within the support bath with suitable rheological properties to bridge the gap between filament formation mechanisms and practical 3D printing applications.

Zinc mediates control of nitrogen fixation via transcription factor filamentation

Plants adapt to fluctuating environmental conditions by adjusting their metabolism and gene expression to maintain fitness1. In legumes, nitrogen homeostasis is maintained by balancing nitrogen acquired from soil resources with nitrogen fixation by symbiotic bacteria in root nodules2–8. Here we show that zinc, an essential plant micronutrient, acts as an intracellular second messenger that connects environmental changes to transcription factor control of metabolic activity in root nodules. We identify a transcriptional regulator, FIXATION UNDER NITRATE (FUN), which acts as a sensor, with zinc controlling the transition between an inactive filamentous megastructure and an active transcriptional regulator. Lower zinc concentrations in the nodule, which we show occur in response to higher levels of soil nitrate, dissociates the filament and activates FUN. FUN then directly targets multiple pathways to initiate breakdown of the nodule. The zinc-dependent filamentation mechanism thus establishes a concentration readout to adapt nodule function to the environmental nitrogen conditions. In a wider perspective, these results have implications for understanding the roles of metal ions in integration of environmental signals with plant development and optimizing delivery of fixed nitrogen in legume crops.

Cryo-EM structures reveal how phosphate release from Arp3 weakens actin filament branches formed by Arp2/3 complex

Arp2/3 complex nucleates branched actin filaments for cell and organelle movements. Here we report a 2.7 Å resolution cryo-EM structure of the mature branch junction formed by S. pombe Arp2/3 complex that provides details about interactions with both mother and daughter filaments. We determine a second structure at 3.2 Å resolution with the phosphate analog BeFx bound with ADP to Arp3 and ATP bound to Arp2. In this ADP-BeFx transition state the outer domain of Arp3 is rotated 2° toward the mother filament compared with the ADP state and makes slightly broader contacts with actin in both the mother and daughter filaments. Thus, dissociation of Pi from the ADP-Pi transition state reduces the interactions of Arp2/3 complex with the actin filaments and may contribute to the lower mechanical stability of mature branch junctions with ADP bound to the Arps. Our structures also reveal that the mother filament in contact with Arp2/3 complex is slightly bent and twisted, consistent with the preference of Arp2/3 complex binding curved actin filaments. The small degree of twisting constrains models of actin filament mechanics.

Efficient Spiking Neural Networks with Biologically Similar Lithium-Ion Memristor Neurons.

Benefiting from the brain-inspired event-driven feature and asynchronous sparse coding approach, spiking neural networks (SNNs) are becoming a potentially energy-efficient replacement for conventional artificial neural networks. However, neuromorphic devices used to construct SNNs persistently result in considerable energy consumption owing to the absence of sufficient biological parallels. Drawing inspiration from the transport nature of Na+ and K+ in synapses, here, a Li-based memristor (LixAlOy) was proposed to emulate the biological synapse, leveraging the similarity of Li as a homologous main group element to Na and K. The Li-based memristor exhibits ∼8 ns ultrafast operating speed, 1.91 and 0.72 linearity conductance modulation, and reproducible switching behavior, enabled by lithium vacancies forming a conductive filament mechanism. Moreover, these memristors are capable of simulating fundamental behaviors of a biological synapse, including long-term potentiation and long-term depression behaviors. Most importantly, a threshold-tunable leaky integrate-and-fire (TT-LIF) neuron is built using LixAlOy memristors, successfully integrating synaptic signals from both temporal and spatial levels and achieving an optimal threshold of SNNs. A computationally efficient TT-LIF-based SNN algorithm is also implemented for image recognition schemes, featuring a high recognition rate of 90.1% and an ultralow firing rate of 0.335%, which is 4 times lower than those of other memristor-based SNNs. Our studies reveal the ion dynamics mechanism of the LixAlOy memristor and confirm its potential in rapid switching and the construction of SNNs.

Single-Molecule Fluorescence Imaging Reveals Coassembly of CTPS and P5CS.

The cellular compartmentation induced by self-assembly of natural proteins has recently attracted widespread attention due to its structural-functional significance. Among them, as a highly conserved metabolic enzyme and one of the potential targets for cancers and parasitic diseases in drug development, CTP synthase (CTPS) has also been reported to self-assemble into filamentous structures termed cytoophidia. To elucidate the dynamical mechanism of cytoophidium filamentation, we utilize single-molecule fluorescence imaging to observe the real-time self-assembly dynamics of CTPS and the coordinated assembly between CTPS and its interaction partner, Δ1-pyrroline-5-carboxylate synthase (P5CS). Significant differences exist in the direction of growth and extension when the two proteins self-assemble. The oligomer state distribution analysis of the CTPS minimum structural subunit under different conditions and the stoichiometry statistics of binding CTPS and P5CS by single-molecule fluorescence photobleach counting further confirm that the CTPS cytoophidia are mainly stacked with tetramers. CTPS can act as the nucleation core to induce the subsequent growth of the P5CS filaments. Our work not only provide evidence from the molecular level for the self-assembly and coordinated assembly (coassembly) of CTPS with its interaction partner P5CS in vitro but also offer new experimental perspectives for the dynamics research of coordinated regulation between other protein polymers.

Highly flexible PEG-LifeAct constructs act as tunable biomimetic actin crosslinkers.

In vitro studies of actin filament networks crosslinked with dynamic actin binding proteins provide critical insights into cytoskeletal mechanics as well as inspiration for new adaptive materials design. However, discontinuous variance in the physiochemical properties of actin binding proteins impedes holistic relationships between crosslinker molecular parameters, network structure, and mechanics. Bio-synthetic constructs composed of synthetic polymer backbones and actin binding motifs would enable crosslinkers with engineered physiochemical properties to directly target the desired structure-property relationships. As a proof of concept, bio-synthetic crosslinkers composed of highly flexible polyethylene glycol (PEG) polymers functionalized with the actin binding peptide LifeAct, are explored as actin crosslinkers. Using bulk rheology and fluorescence microscopy, these constructs are shown to modulate actin filament network structure and mechanics in a contour length dependent manner, while maintaining the stress-stiffening behavior inherent to actin filament networks. These results encourage the design of more diverse and complex peptide-polymer crosslinkers to interrogate and control semi-flexible polymer networks.

Study of the Mechanism of Filamentation of Nanosecond Surface Barrier Discharge. Part 1. Local Field Approximation

Study of the Mechanism of Filamentation of Nanosecond Surface Barrier Discharge. Part 1. Local Field Approximation

Fluorescence and lasing of neutral nitrogen molecules inside femtosecond laser filaments in air: mechanism and applications.

High power femtosecond laser pulses launched in air undergo nonlinear filamentary propagation, featuring a bright and thin plasma channel in air with its length much longer than the Rayleigh length of the laser beam. During this nonlinear propagation process, the laser pulses experience rich and complex spatial and temporal transformations. With its applications ranging from supercontinuum generation, laser pulse compression, remote sensing to triggering of lightning, the underlying physical mechanism of filamentation has been intensively studied. In this review, we will focus on the fluorescence and cavity-free lasing effect of the plasma filaments in air. The different mechanisms underlying the fluorescence of the excited neutral nitrogen molecules will be throughly examined and it is concluded that the electron collision excitation is the dominant channel for the formation of the excited nitrogen molecules. The recently discovered "air lasing" effect, a cavity-free bidirectional lasing emission emitted by the filaments, will be introduced and its main properties will be emphasized. The applications of the fluorescence and lasing effect of the neutral nitrogen molecules will be introduced, with two examples on spectroscopy and detection of electric field. Finally, we discuss the quenching effect of the lasing effect in atmosphere and the mechanisms responsible will be analyzed. An outlook for the achievement of backward lasing in air will be briefly presented.

Cofilin-mediated actin filament network flexibility facilitates 2D to 3D actomyosin shape change

The organization of actin filaments (F-actin) into crosslinked networks determines the transmission of mechanical stresses within the cytoskeleton and subsequent changes in cell and tissue shape. Principally mediated by proteins such as α-actinin, F-actin crosslinking increases both network connectivity and rigidity, thereby facilitating stress transmission at low crosslinking yet attenuating transmission at high crosslinker concentration. Here, we engineer a two-dimensional model of the actomyosin cytoskeleton, in which myosin-induced mechanical stresses are controlled by light. We alter the extent of F-actin crosslinking by the introduction of oligomerized cofilin. At pH 6.5, F-actin severing by cofilin is weak, but cofilin bundles and crosslinks filaments. Given its effect of lowering the F-actin bending stiffness, cofilin- crosslinked networks are significantly more flexible and softer in bending than networks crosslinked by α-actinin. Thus, upon local activation of myosin-induced contractile stress, the network bends out-of-plane in contrast to the in-plane compression as observed with networks crosslinked by α-actinin. Here, we demonstrate that local effects on filament mechanics by cofilin introduces novel large-scale network material properties that enable the sculpting of complex shapes in the cell cytoskeleton.

Molecular mechanism of glutaminase activation through filamentation and the role of filaments in mitophagy protection.

Glutaminase (GLS), which deaminates glutamine to form glutamate, is a mitochondrial tetrameric protein complex. Although inorganic phosphate (Pi) is known to promote GLS filamentation and activation, the molecular basis of this mechanism is unknown. Here we aimed to determine the molecular mechanism of Pi-induced mouse GLS filamentation and its impact on mitochondrial physiology. Single-particle cryogenic electron microscopy revealed an allosteric mechanism in which Pi binding at the tetramer interface and the activation loop is coupled to direct nucleophile activation at the active site. The active conformation is prone to enzyme filamentation. Notably, human GLS filaments form inside tubulated mitochondria following glutamine withdrawal, as shown by in situ cryo-electron tomography of cells thinned by cryo-focused ion beam milling. Mitochondria with GLS filaments exhibit increased protection from mitophagy. We reveal roles of filamentous GLS in mitochondrial morphology and recycling.

Nonaffine Mechanics of Entangled Networks Inspired by Intermediate Filaments.

Inspired by massive intermediate filament (IF) reorganization in superstretched epithelia, we examine computationally the principles controlling the mechanics of a set of entangled filaments whose ends slide on the cell boundary. We identify an entanglement metric and threshold beyond which random loose networks respond nonaffinely and nonlinearly to stretch by self-organizing into structurally optimal star-shaped configurations. A simple model connecting cellular and filament strains links emergent mechanics to cell geometry, network topology, and filament mechanics. We identify a safety net mechanism in IF networks and provide a framework to harness entanglement in soft fibrous materials.

Activation of skeletal muscle is controlled by a dual-filament mechano-sensing mechanism

Contraction of skeletal muscle is triggered by a transient rise in intracellular calcium concentration leading to a structural change in the actin-containing thin filaments that allows binding of myosin motors from the thick filaments. Most myosin motors are unavailable for actin binding in resting muscle because they are folded back against the thick filament backbone. Release of the folded motors is triggered by thick filament stress, implying a positive feedback loop in the thick filaments. However, it was unclear how thin and thick filament activation mechanisms are coordinated, partly because most previous studies of the thin filament regulation were conducted at low temperatures where the thick filament mechanisms are inhibited. Here, we use probes on both troponin in the thin filaments and myosin in the thick filaments to monitor the activation states of both filaments in near-physiological conditions. We characterize those activation states both in the steady state, using conventional titrations with calcium buffers, and during activation on the physiological timescale, using calcium jumps produced by photolysis of caged calcium. The results reveal three activation states of the thin filament in the intact filament lattice of a muscle cell that are analogous to those proposed previously from studies on isolated proteins. We characterize the rates of the transitions between these states in relation to thick filament mechano-sensing and show how thin- and thick-filament-based mechanisms are coupled by two positive feedback loops that switch on both filaments to achieve rapid cooperative activation of skeletal muscle.

Keratin filament mechanics and energy dissipation are determined by metal-like plasticity

Cell mechanics are determined by an intracellular biopolymer network, including intermediate filaments that are expressed in a cell-type-specific manner. A prominent pair of intermediate filaments are keratin and vimentin, as they are expressed by non-motile and motile cells, respectively. Therefore, the differential expression of these proteins coincides with a change in cellular mechanics and dynamic properties of the cells. This observation raises the question of how the mechanical properties already differ on the single filament level. Here, we use optical tweezers and a computational model to compare the stretching and dissipation behavior of the two filament types. We find that keratin and vimentin filaments behave in opposite ways: keratin filaments elongate but retain their stiffness, whereas vimentin filaments soften but retain their length. This finding is explained by fundamentally different ways to dissipate energy: viscous sliding of subunits within keratin filaments and non-equilibrium α helix unfolding in vimentin filaments.

Robust Threshold-Switching Behavior Assisted by Cu Migration in a Ferroionic CuInP2S6 Heterostructure.

The two-dimensional layered material CuInP2S6 (CIPS) has attracted significant research attention due to its nontrivial physical properties, including room-temperature ferroelectricity at the ultrathin limit and substantial ionic conductivity. Despite many efforts to control its ionic conductance and develop electronic devices, such as memristors, improving the stability of these devices remains a challenge. This work presents a highly stable threshold-switching device based on the Cu/CIPS/graphene heterostructure, achieved after a comprehensive investigation of the activation of Cu's ionic conductivity. The device exhibits exceptional threshold-switching performance, including good cycling endurance, a high on/off ratio of up to 104, low operation voltages, and an ultrasmall subthreshold swing of less than 1.8 mV/decade for the resistance-switching process. Through temperature-dependent electrical and Raman spectroscopy measurements, the stable resistive-switching mechanism is interpreted with a drifting and diffusion model of Cu ions under the electric field, rather than the conventional conducting filament mechanism. These results make the layered ferroionic CIPS material a promising candidate for information storage devices, demonstrating a compelling approach to achieving high-performance threshold-switching memristor devices.

Lamin Filament Assembly Derived from the Atomic Structure of the Antiparallel Four-Helix Bundle.

The nucleoskeletal protein lamin is primarily responsible for the mechanical stability of the nucleus. The lamin assembly process requires the A11, A22, and ACN binding modes of the coiled-coil dimers. Although X-ray crystallography and chemical cross-linking analysis of lamin A/C have provided snapshots of A11 and ACN binding modes, the assembly mechanism of the entire filament remains to be explained. Here, we report a crystal structure of a coil 2 fragment, revealing the A22 interaction at the atomic resolution. The structure showed detailed structural features, indicating that two coiled-coil dimers of the coil 2 subdomain are separated and then re-organized into the antiparallel-four-helix bundle. Furthermore, our findings suggest that the ACN binding mode between coil 1a and the C-terminal part of coil 2 when the A11 tetramers are arranged by the A22 interactions. We propose a full assembly model of lamin A/C with the curvature around the linkers, reconciling the discrepancy between the in situ and in vitro observations. Our model accounts for the balanced elasticity and stiffness of the nuclear envelopes, which is essential in protecting the cellular nucleus from external pressure.

Complementary bipolar resistive switching behavior in lithium titanate memory device

In this paper, we report the coexistence of usual bipolar and unique complementary bipolar resistive switching behaviors in an Ag/Li x Ti5O12/Pt memory device. The SET and RESET polarities of the complementary bipolar resistive switching mode were found to be opposite to those of the usual bipolar resistive switching mode. The two bipolar switching modes can be freely converted without altering the compliance current. Based on the conducting filament model, the normal bipolar resistive switching mode is explained by an Ag filament and electrochemical metallization mechanism. Whereas, the complementary bipolar resistive switching behavior is ascribed to Li diffusion and phase transition between Li x Ti5O12 and conducting lithium-rich Li x Ti5O12.