The Role of Shear Rates on Amyloid Formation from Biofilm Peptides Phenol Soluble Modulins
Biophys J. 2024 Mar 28:S0006-3495(24)00217-0. doi: 10.1016/j.bpj.2024.03.036. Online ahead of print.ABSTRACTBiofilms, microbial communities enclosed in the self-produced extracellular matrix, have a significant impact on human health, environment, and industry. The pathogen Staphylococcus aureus (S. aureus) is recognized as one of the most frequent causes of biofilm-related infections. Phenol soluble modulins (PSMs) serve as a crucial component, fortifying S. aureus biofilm matrix through self-assembly into amyloid fibrils, which enhances S. aureus colonization and resistance to antibiotics. However, the role of shear rate...
Source: Biophysical Journal - March 29, 2024 Category: Physics Authors: Runyao Zhu Trevor Stone Yichun Wang Source Type: research
Kinetic Network Modeling with Molecular Simulation Inputs: A Proton-Coupled Phosphate Symporter
Biophys J. 2024 Mar 27:S0006-3495(24)00216-9. doi: 10.1016/j.bpj.2024.03.035. Online ahead of print.ABSTRACTPhosphate, an essential metabolite involved in numerous cellular functions, is taken up by proton-coupled phosphate transporters of plants and fungi within the major facilitator family. Similar phosphate transporters have been identified across a diverse range of biological entities, including various protozoan parasites linked to human diseases, breast cancer cells with increased phosphate requirements, and osteoclast-like cells engaged in bone resorption. Prior studies have proposed an overview of the functional cy...
Source: Biophysical Journal - March 29, 2024 Category: Physics Authors: Yu Liu Chenghan Li Meghna Gupta Robert M Stroud Gregory A Voth Source Type: research
Juggling Potassium: A Diverse Set of K < sup > + < /sup > Channels Tune the Excitability of Brain's Capillary Pericytes
Biophys J. 2024 Mar 27:S0006-3495(24)00239-X. doi: 10.1016/j.bpj.2024.03.037. Online ahead of print.NO ABSTRACTPMID:38549373 | DOI:10.1016/j.bpj.2024.03.037 (Source: Biophysical Journal)
Source: Biophysical Journal - March 29, 2024 Category: Physics Authors: Zhihui Fong L Fernando Santana Source Type: research
Particle-based simulations shed light on cytoskeleton-membrane dynamics in phagocytosis
Biophys J. 2024 Mar 27:S0006-3495(24)00213-3. doi: 10.1016/j.bpj.2024.03.032. Online ahead of print.NO ABSTRACTPMID:38549374 | DOI:10.1016/j.bpj.2024.03.032 (Source: Biophysical Journal)
Source: Biophysical Journal - March 29, 2024 Category: Physics Authors: Emmet A Francis Padmini Rangamani Source Type: research
Molecular Mechanisms of Na < sup > + < /sup > -driven Bile Acid Transport in Human NTCP
Biophys J. 2024 Mar 27:S0006-3495(24)00214-5. doi: 10.1016/j.bpj.2024.03.033. Online ahead of print.ABSTRACTHuman Na+ taurocholate co-transporting protein (hNTCP) is a key bile salt transporter to maintain enterohepatic circulation and is responsible for the recognition of hepatitis B and D viruses (HBV/HDV). Despite landmark cryo-EM studies revealing open-pore and inward-facing states of NTCP stabilized by antibodies, the transport mechanism remains largely unknown. To address this knowledge gap, we used molecular dynamics (MD) and enhanced sampling Metadynamics simulations to elucidate the intrinsic mechanism of hNTCP-me...
Source: Biophysical Journal - March 28, 2024 Category: Physics Authors: Xiaoli Lu Jing Huang Source Type: research
Single-cell mechanical assay unveils viscoelastic similarities between normal and neoplastic brain cells
Biophys J. 2024 Mar 27:S0006-3495(24)00215-7. doi: 10.1016/j.bpj.2024.03.034. Online ahead of print.NO ABSTRACTPMID:38544410 | DOI:10.1016/j.bpj.2024.03.034 (Source: Biophysical Journal)
Source: Biophysical Journal - March 28, 2024 Category: Physics Authors: Killian Onwudiwe Julian Najera Luke Holen Alice A Burchett Dorielis Rodriguez Maksym Zarodniuk Saeed Siri Meenal Datta Source Type: research
Small-angle x-ray scattering investigation of the integration of free fatty acids in polysorbate 20 micelles
Biophys J. 2024 Mar 27:S0006-3495(24)00211-X. doi: 10.1016/j.bpj.2024.03.030. Online ahead of print.NO ABSTRACTPMID:38547861 | DOI:10.1016/j.bpj.2024.03.030 (Source: Biophysical Journal)
Source: Biophysical Journal - March 28, 2024 Category: Physics Authors: J örg Ehrit Tobias W Gr äwert Hendrik G öddeke Petr V Konarev Dmitri I Svergun Norbert Nagel Source Type: research
Quantifying single-cell diacylglycerol signaling kinetics after uncaging
Biophys J. 2024 Mar 27:S0006-3495(24)00212-1. doi: 10.1016/j.bpj.2024.03.031. Online ahead of print.NO ABSTRACTPMID:38547862 | DOI:10.1016/j.bpj.2024.03.031 (Source: Biophysical Journal)
Source: Biophysical Journal - March 28, 2024 Category: Physics Authors: David T Gonzales Milena Schuhmacher H Mathilda Lennartz Juan M Iglesias-Artola Sascha M Kuhn Pavel Barahtjan Christoph Zechner Andre Nadler Source Type: research
Molecular Mechanisms of Na < sup > + < /sup > -driven Bile Acid Transport in Human NTCP
Biophys J. 2024 Mar 27:S0006-3495(24)00214-5. doi: 10.1016/j.bpj.2024.03.033. Online ahead of print.ABSTRACTHuman Na+ taurocholate co-transporting protein (hNTCP) is a key bile salt transporter to maintain enterohepatic circulation and is responsible for the recognition of hepatitis B and D viruses (HBV/HDV). Despite landmark cryo-EM studies revealing open-pore and inward-facing states of NTCP stabilized by antibodies, the transport mechanism remains largely unknown. To address this knowledge gap, we used molecular dynamics (MD) and enhanced sampling Metadynamics simulations to elucidate the intrinsic mechanism of hNTCP-me...
Source: Biophysical Journal - March 28, 2024 Category: Physics Authors: Xiaoli Lu Jing Huang Source Type: research
Single-cell mechanical assay unveils viscoelastic similarities between normal and neoplastic brain cells
Biophys J. 2024 Mar 27:S0006-3495(24)00215-7. doi: 10.1016/j.bpj.2024.03.034. Online ahead of print.NO ABSTRACTPMID:38544410 | DOI:10.1016/j.bpj.2024.03.034 (Source: Biophysical Journal)
Source: Biophysical Journal - March 28, 2024 Category: Physics Authors: Killian Onwudiwe Julian Najera Luke Holen Alice A Burchett Dorielis Rodriguez Maksym Zarodniuk Saeed Siri Meenal Datta Source Type: research
Two-component macrophage model for active phagocytosis with pseudopod formation
Biophys J. 2024 Mar 25:S0006-3495(24)00206-6. doi: 10.1016/j.bpj.2024.03.026. Online ahead of print.ABSTRACTMacrophage phagocytosis is critical for the immune response, homeostasis regulation and tissue repair. This intricate process involves complex changes in cell morphology, cytoskeletal reorganization, and various receptor-ligand interactions controlled by mechanical constraints. However, there is a lack of comprehensive theoretical and computational models that investigate the mechanical process of phagocytosis in the context of cytoskeletal rearrangement. To address this issue, we propose a novel coarse-grained mesos...
Source: Biophysical Journal - March 27, 2024 Category: Physics Authors: Shuo Wang Shuhao Ma He Li Ming Dao Xuejin Li George Em Karniadakis Source Type: research
Increased vesicular dynamics and nanoscale clustering of IL-2 after T cell activation
Biophys J. 2024 Mar 26:S0006-3495(24)00209-1. doi: 10.1016/j.bpj.2024.03.029. Online ahead of print.ABSTRACTT cells coordinate intercellular communication through the meticulous regulation of cytokine secretion. Direct visualization of vesicular transport and intracellular distribution of cytokines provides valuable insights into the temporal and spatial mechanisms involved in regulation. Employing Jurkat E6-1 T cells and interleukin-2 (IL-2) as a model system, we investigated vesicular dynamics using single-particle tracking and the nanoscale distribution of intracellular IL-2 in fixed T cells using superresolution micros...
Source: Biophysical Journal - March 27, 2024 Category: Physics Authors: Badeia Saed Neal T Ramseier Thilini Perera Jesse Anderson Jacob Burnett Hirushi Gunasekara Alyssa Burgess Haoran Jing Ying S Hu Source Type: research
Tradeoffs in concentration sensing in dynamic environments
Biophys J. 2024 Mar 25:S0006-3495(24)00205-4. doi: 10.1016/j.bpj.2024.03.025. Online ahead of print.ABSTRACTWhen cells measure concentrations of chemical signals, they may average multiple measurements over time in order to reduce noise in their measurements. However, when cells are in a environment that changes over time, past measurements may not reflect current conditions - creating a new source of error that trades off against noise in chemical sensing. What statistics in the cell's environment control this tradeoff? What properties of the environment make it variable enough that this tradeoff is relevant? We model a s...
Source: Biophysical Journal - March 27, 2024 Category: Physics Authors: Aparajita Kashyap Wei Wang Brian A Camley Source Type: research
Mechanical strengthening of cell-cell adhesion during mouse embryo compaction
Biophys J. 2024 Mar 25:S0006-3495(24)00208-X. doi: 10.1016/j.bpj.2024.03.028. Online ahead of print.ABSTRACTCompaction is the first morphogenetic movement of the eutherian mammals and involves a developmentally regulated adhesion process. Previous studies investigated cellular and mechanical aspects of compaction. During mouse and human compaction, cells spread onto each other as a result of a contractility-mediated increase in surface tension pulling at the edges of their cell-cell contacts. However, how compaction may affect the mechanical stability of cell-cell contacts remains unknown. Here, we used a dual pipette aspi...
Source: Biophysical Journal - March 26, 2024 Category: Physics Authors: Ludmilla de Plater Julie Firmin Jean-L éon Maître Source Type: research
Mechanical strengthening of cell-cell adhesion during mouse embryo compaction
Biophys J. 2024 Mar 25:S0006-3495(24)00208-X. doi: 10.1016/j.bpj.2024.03.028. Online ahead of print.ABSTRACTCompaction is the first morphogenetic movement of the eutherian mammals and involves a developmentally regulated adhesion process. Previous studies investigated cellular and mechanical aspects of compaction. During mouse and human compaction, cells spread onto each other as a result of a contractility-mediated increase in surface tension pulling at the edges of their cell-cell contacts. However, how compaction may affect the mechanical stability of cell-cell contacts remains unknown. Here, we used a dual pipette aspi...
Source: Biophysical Journal - March 26, 2024 Category: Physics Authors: Ludmilla de Plater Julie Firmin Jean-L éon Maître Source Type: research
