Frontiers in Physics最新文献

{"title":"Comparison of translational and rotational modes towards passive rheology of the cytoplasm of MCF-7 cells using optical tweezers.","authors":"Srestha Roy, Rahul Vaippully, Muruga Lokesh, Gokul Nalupurackal, Privita Edwina, Saumendra Bajpai, Basudev Roy","doi":"10.3389/fphy.2022.1099958","DOIUrl":"10.3389/fphy.2022.1099958","url":null,"abstract":"<p><p>A colloidal particle placed inside the cell cytoplasm is enmeshed within a network of cytoskeletal fibres immersed in the cytosolic fluid. The translational mode is believed to yield different rheological parameters than the rotational mode, given that these modes stretch the fibers differently. We compare the parameters for Michigan Cancer Foundation-7 (MCF-7) cells in this manuscript and find that the results are well comparable to each other. At low values of 0 Hz viscosity, the rotational and translational viscoelasticity matches well. However, discrepancies appear at higher values which may indicate that the cytoskeletal modes involved in rotation and translation of the particle are getting invoked. We also show that the 0 Hz viscosity increases as the cell ages under the conditions of constant room temperature of 25^°C on the sample chamber.</p>","PeriodicalId":12507,"journal":{"name":"Frontiers in Physics","volume":"10 ","pages":"1099958"},"PeriodicalIF":1.9,"publicationDate":"2023-01-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7614090/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"10612847","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"物理与天体物理","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Toward a 3D physical model of diffusive polymer chains.","authors":"Andras Karsai,&nbsp;Grace J Cassidy,&nbsp;Aradhya P Rajanala,&nbsp;Lixinhao Yang,&nbsp;Deniz Kerimoglu,&nbsp;James C Gumbart,&nbsp;Harold D Kim,&nbsp;Daniel I Goldman","doi":"10.3389/fphy.2023.1142004","DOIUrl":"https://doi.org/10.3389/fphy.2023.1142004","url":null,"abstract":"<p><p>Recent studies in polymer physics have created macro-scale analogs to solute microscopic polymer chains like DNA by inducing diffusive motion on a chain of beads. These bead chains have persistence lengths of O(10) links and undergo diffusive motion under random fluctuations like vibration. We present a bead chain model within a new stochastic forcing system: an air fluidizing bed of granular media. A chain of spherical 6 mm resin beads crimped onto silk thread are buffeted randomly by the multiphase flow of grains and low density rising air \"bubbles\". We \"thermalize\" bead chains of various lengths at different fluidizing airflow rates, while X-ray imaging captures a projection of the chains' dynamics within the media. With modern 3D printing techniques, we can better represent complex polymers by geometrically varying bead connections and their relative strength, e.g., mimicking the variable stiffness between adjacent nucleotide pairs of DNA. We also develop Discrete Element Method (DEM) simulations to study the 3D motion of the bead chain, where the bead chain is represented by simulated spherical particles connected by linear and angular spring-like bonds. In experiment, we find that the velocity distributions of the beads follow exponential distributions rather than the Gaussian distributions expected from polymers in solution. Through use of the DEM simulation, we find that this difference can likely be attributed to the distributions of the forces imparted onto the chain from the fluidized bed environment. We anticipate expanding this study in the future to explore a wide range of chain composition and confinement geometry, which will provide insights into the physics of large biopolymers.</p>","PeriodicalId":12507,"journal":{"name":"Frontiers in Physics","volume":"11 ","pages":""},"PeriodicalIF":3.1,"publicationDate":"2023-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10399318/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"10318749","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"物理与天体物理","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Critical brain wave dynamics of neuronal avalanches.","authors":"Vitaly L Galinsky,&nbsp;Lawrence R Frank","doi":"10.3389/fphy.2023.1138643","DOIUrl":"https://doi.org/10.3389/fphy.2023.1138643","url":null,"abstract":"<p><p>Analytical expressions for scaling of brain wave spectra derived from the general non-linear wave Hamiltonian form show excellent agreement with experimental \"neuronal avalanche\" data. The theory of the weakly evanescent non-linear brain wave dynamics reveals the underlying collective processes hidden behind the phenomenological statistical description of the neuronal avalanches and connects together the whole range of brain activity states, from oscillatory wave-like modes, to neuronal avalanches, to incoherent spiking, showing that the neuronal avalanches are just the manifestation of the different non-linear side of wave processes abundant in cortical tissue. In a more broad way these results show that a system of wave modes interacting through all possible combinations of the third order non-linear terms described by a general wave Hamiltonian necessarily produces anharmonic wave modes with temporal and spatial scaling properties that follow scale free power laws. To the best of our knowledge this has never been reported in the physical literature and may be applicable to many physical systems that involve wave processes and not just to neuronal avalanches.</p>","PeriodicalId":12507,"journal":{"name":"Frontiers in Physics","volume":"11 ","pages":""},"PeriodicalIF":3.1,"publicationDate":"2023-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10063224/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9636839","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"物理与天体物理","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Non-contact and label-free biomechanical imaging: Stimulated Brillouin microscopy and beyond.","authors":"Chenjun Shi, Hongyuan Zhang, Jitao Zhang","doi":"10.3389/fphy.2023.1175653","DOIUrl":"10.3389/fphy.2023.1175653","url":null,"abstract":"<p><p>Brillouin microscopy based on spontaneous Brillouin scattering has emerged as a unique elastography technique because of its merit of non-contact, label-free, and high-resolution mechanical imaging of biological cell and tissue. Recently, several new optical modalities based on stimulated Brillouin scattering have been developed for biomechanical research. As the scattering efficiency of the stimulated process is much higher than its counterpart in the spontaneous process, stimulated Brillouin-based methods have the potential to significantly improve the speed and spectral resolution of existing Brillouin microscopy. Here, we review the ongoing technological advancements of three methods, including continuous wave stimulated Brillouin microscopy, impulsive stimulated Brillouin microscopy, and laser-induced picosecond ultrasonics. We describe the physical principle, the representative instrumentation, and biological application of each method. We further discuss the current limitations as well as the challenges for translating these methods into a visible biomedical instrument for biophysics and mechanobiology.</p>","PeriodicalId":12507,"journal":{"name":"Frontiers in Physics","volume":"11 ","pages":""},"PeriodicalIF":1.9,"publicationDate":"2023-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10299794/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9726627","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"物理与天体物理","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Overview of Methods for Noise and Heat Reduction in MRI Gradient Coils.","authors":"Elizaveta Motovilova,&nbsp;Simone Angela Winkler","doi":"10.3389/fphy.2022.907619","DOIUrl":"https://doi.org/10.3389/fphy.2022.907619","url":null,"abstract":"<p><p>Magnetic resonance imaging (MRI) gradient coils produce acoustic noise due to coil conductor vibrations caused by large Lorentz forces. Accurate sound pressure levels and modeling of heating are essential for the assessment of gradient coil safety. This work reviews the state-of-the-art numerical methods used in accurate gradient coil modeling and prediction of sound pressure levels (SPLs) and temperature rise. We review several approaches proposed for noise level reduction of high-performance gradient coils, with a maximum noise reduction of 20 decibels (dB) demonstrated. An efficient gradient cooling technique is also presented.</p>","PeriodicalId":12507,"journal":{"name":"Frontiers in Physics","volume":"10 ","pages":""},"PeriodicalIF":3.1,"publicationDate":"2022-07-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9733908/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"10360147","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"物理与天体物理","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"The Accuracy of Cerenkov Photons Simulation in Geant4/Gate Depends on the Parameterization of Primary Electron Propagation.","authors":"Carlotta Trigila, Gerard Ariño-Estrada, Sun Il Kwon, Emilie Roncali","doi":"10.3389/fphy.2022.891602","DOIUrl":"10.3389/fphy.2022.891602","url":null,"abstract":"<p><p>Energetic electrons traveling in a dispersive medium can produce Cerenkov radiation. Cerenkov photons' prompt emission, combined with their predominantly forward emission direction with respect to the parent electron, makes them extremely promising to improve radiation detector timing resolution. Triggering gamma detections based on Cerenkov photons to achieve superior timing resolution is challenging due to the low number of photons produced per interaction. Monte Carlo simulations are fundamental to understanding their behavior and optimizing their pathway to detection. Therefore, accurately modeling the electron propagation and Cerenkov photons emission is crucial for reliable simulation results. In this work, we investigated the physics characteristics of the primary electrons (velocity, energy) and those of all emitted Cerenkov photons (spatial and timing distributions) generated by 511 keV photoelectric interactions in a bismuth germanate crystal using simulations with Geant4/GATE. Geant4 uses a stepwise particle tracking approach, and users can limit the electron velocity change per step. Without limiting it (default Geant4 settings), an electron mean step length of ~250 μm was obtained, providing only macroscopic modeling of electron transport, with all Cerenkov photons emitted in the forward direction with respect to the incident gamma direction. Limiting the electron velocity change per step reduced the electron mean step length (~0.200 μm), leading to a microscopic approach to its transport which more accurately modeled the electron physical properties in BGO at 511 keV. The electron and Cerenkov photons rapidly lost directionality, affecting Cerenkov photons' transport and, ultimately, their detection. Results suggested that a deep understanding of low energy physics is crucial to perform accurate optical Monte Carlo simulations and ultimately use them in TOF PET detectors.</p>","PeriodicalId":12507,"journal":{"name":"Frontiers in Physics","volume":"10 ","pages":""},"PeriodicalIF":1.9,"publicationDate":"2022-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10201934/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9761284","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"物理与天体物理","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Editorial: Innovations in MR hardware from ultra-low to ultra-high field.","authors":"Roberta Frass-Kriegl,&nbsp;Lionel Marc Broche,&nbsp;Jean-Christophe Ginefri,&nbsp;Mark E Ladd,&nbsp;Sigrun Roat,&nbsp;Mathieu Sarracanie,&nbsp;Simone Angela S Winkler,&nbsp;Elmar Laistler","doi":"10.3389/fphy.2022.1015289","DOIUrl":"https://doi.org/10.3389/fphy.2022.1015289","url":null,"abstract":"Center for Medical Physics and Biomedical Engineering, Medical University of Vienna, Vienna, Austria, Aberdeen Biomedical Imaging Centre, University of Aberdeen, Aberdeen, United Kingdom, Université Paris-Saclay, CEA, CNRS, Inserm, BioMaps, Service Hospitalier Frédéric Joliot, Orsay, France, Medical Physics in Radiology, German Cancer Research Center (DKFZ), Heidelberg, Germany, Center for Adaptable MRI Technology, Department of Biomedical Engineering, University of Basel, Allschwil, Switzerland, Weill Cornell Medicine, New York, NY, United States","PeriodicalId":12507,"journal":{"name":"Frontiers in Physics","volume":"10 ","pages":""},"PeriodicalIF":3.1,"publicationDate":"2022-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10414785/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"10104912","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"物理与天体物理","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Motor-driven advection competes with crowding to drive spatiotemporally heterogeneous transport in cytoskeleton composites.","authors":"Janet Y Sheung,&nbsp;Jonathan Garamella,&nbsp;Stella K Kahl,&nbsp;Brian Y Lee,&nbsp;Ryan J McGorty,&nbsp;Rae M Robertson-Anderson","doi":"10.3389/fphy.2022.1055441","DOIUrl":"https://doi.org/10.3389/fphy.2022.1055441","url":null,"abstract":"<p><p>The cytoskeleton-a composite network of biopolymers, molecular motors, and associated binding proteins-is a paradigmatic example of active matter. Particle transport through the cytoskeleton can range from anomalous and heterogeneous subdiffusion to superdiffusion and advection. Yet, recapitulating and understanding these properties-ubiquitous to the cytoskeleton and other out-of-equilibrium soft matter systems-remains challenging. Here, we combine light sheet microscopy with differential dynamic microscopy and single-particle tracking to elucidate anomalous and advective transport in actomyosin-microtubule composites. We show that particles exhibit multi-mode transport that transitions from pronounced subdiffusion to superdiffusion at tunable crossover timescales. Surprisingly, while higher actomyosin content increases the range of timescales over which transport is superdiffusive, it also markedly increases the degree of subdiffusion at short timescales and generally slows transport. Corresponding displacement distributions display unique combinations of non-Gaussianity, asymmetry, and non-zero modes, indicative of directed advection coupled with caged diffusion and hopping. At larger spatiotemporal scales, particles in active composites exhibit superdiffusive dynamics with scaling exponents that are robust to changing actomyosin fractions, in contrast to normal, yet faster, diffusion in networks without actomyosin. Our specific results shed important new light on the interplay between non-equilibrium processes, crowding and heterogeneity in active cytoskeletal systems. More generally, our approach is broadly applicable to active matter systems to elucidate transport and dynamics across scales.</p>","PeriodicalId":12507,"journal":{"name":"Frontiers in Physics","volume":"10 ","pages":""},"PeriodicalIF":3.1,"publicationDate":"2022-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10403238/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"10316271","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"物理与天体物理","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Disentangling the effects of restriction and exchange with diffusion exchange spectroscopy.","authors":"Teddy X Cai,&nbsp;Nathan H Williamson,&nbsp;Rea Ravin,&nbsp;Peter J Basser","doi":"10.3389/fphy.2022.805793","DOIUrl":"https://doi.org/10.3389/fphy.2022.805793","url":null,"abstract":"<p><p>Diffusion exchange spectroscopy (DEXSY) is a multidimensional NMR technique that can reveal how water molecules exchange between compartments within heterogeneous media, such as biological tissue. Data from DEXSY experiments is typically processed using numerical inverse Laplace transforms (ILTs) to produce a diffusion-diffusion spectrum. A tacit assumption of this ILT approach is that the signal behavior is Gaussian - i.e., the spin echo intensity decays exponentially with the degree of diffusion weighting. The assumptions that underlie Gaussian signal behavior may be violated, however, depending on the gradient strength applied and the sample under study. We argue that non-Gaussian signal behavior due to restrictions is to be expected in the study of biological tissue using diffusion NMR. Further, we argue that this signal behavior can produce confounding features in the diffusion-diffusion spectra obtained from numerical ILTs of DEXSY data - entangling the effects of restriction and exchange. Specifically, restricted signal behavior can result in broadening of peaks and in the appearance of illusory exchanging compartments with distributed diffusivities, which pearl into multiple peaks if not highly regularized. We demonstrate these effects on simulated data. That said, we suggest the use of features in the signal acquisition domain that can be used to rapidly probe exchange without employing an ILT. We also propose a means to characterize the non-Gaussian signal behavior due to restrictions within a sample using DEXSY measurements with a near zero mixing time or storage interval. We propose a combined acquisition scheme to independently characterize restriction and exchange with various DEXSY measurements, which we term Restriction and Exchange from Equally-weighted Double and Single Diffusion Encodings (REEDS-DE). We test this method on <i>ex vivo</i> neonatal mouse spinal cord - a sample consisting primarily of gray matter - using a low-field, static gradient NMR system. In sum, we highlight critical shortcomings of prevailing DEXSY analysis methods that conflate the effects of restriction and exchange, and suggest a viable experimental approach to disentangle them.</p>","PeriodicalId":12507,"journal":{"name":"Frontiers in Physics","volume":"10 ","pages":""},"PeriodicalIF":3.1,"publicationDate":"2022-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10104504/pdf/nihms-1835841.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9323173","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"物理与天体物理","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"The role of antifreeze glycoprotein (AFGP) and polyvinyl alcohol/polyglycerol (X/Z-1000) as ice modulators during partial freezing of rat livers.","authors":"Shannon N Tessier,&nbsp;Omar Haque,&nbsp;Casie A Pendexter,&nbsp;Stephanie E J Cronin,&nbsp;Ehab O A Hafiz,&nbsp;Lindong Weng,&nbsp;Heidi Yeh,&nbsp;James F Markmann,&nbsp;Michael J Taylor,&nbsp;Gregory M Fahy,&nbsp;Mehmet Toner,&nbsp;Korkut Uygun","doi":"10.3389/fphy.2022.1033613","DOIUrl":"https://doi.org/10.3389/fphy.2022.1033613","url":null,"abstract":"<p><strong>Introduction: </strong>The current liver organ shortage has pushed the field of transplantation to develop new methods to prolong the preservation time of livers from the current clinical standard of static cold storage. Our approach, termed partial freezing, aims to induce a thermodynamically stable frozen state at high subzero storage temperatures (-10°C to -15°C), while simultaneously maintaining a sufficient unfrozen fraction to limit ice-mediated injury.</p><p><strong>Methods and results: </strong>Using glycerol as the main permeating cryoprotectant agent, this research first demonstrated that partially frozen rat livers showed similar outcomes after thawing from either -10°C or -15°C with respect to subnormothermic machine perfusion metrics. Next, we assessed the effect of adding ice modulators, including antifreeze glycoprotein (AFGP) or a polyvinyl alcohol/polyglycerol combination (X/Z-1000), on the viability and structural integrity of partially frozen rat livers compared to glycerol-only control livers. Results showed that AFGP livers had high levels of ATP and the least edema but suffered from significant endothelial cell damage. X/Z-1000 livers had the highest levels of ATP and energy charge (EC) but also demonstrated endothelial damage and post-thaw edema. Glycerol-only control livers exhibited the least DNA damage on Terminal deoxynucleotidyl transferase dUTP nick end labeling (TUNEL) staining but also had the lowest levels of ATP and EC.</p><p><strong>Discussion: </strong>Further research is necessary to optimize the ideal ice modulator cocktail for our partial-freezing protocol. Modifications to cryoprotective agent (CPA) combinations, including testing additional ice modulators, can help improve the viability of these partially frozen organs.</p>","PeriodicalId":12507,"journal":{"name":"Frontiers in Physics","volume":"10 ","pages":""},"PeriodicalIF":3.1,"publicationDate":"2022-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10161798/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9439659","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"物理与天体物理","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}