Article
Biochemical Research Methods
Rob Ward, Sapna Ravindran, Mariela R. Otazo, Braden Cradock, Ebubekir Avci, Graeme Gillies, Christina Coker, Martin A. K. Williams
Summary: The advancement in technologies allowing probing of individual microscopic particles has opened up new experimental possibilities in colloidal systems. However, due to the probabilistic nature of the process, testing a large number of particle pairs is necessary under each set of experimental conditions to obtain meaningful data.
Article
Materials Science, Multidisciplinary
J. Castrejon-Figueroa, J. A. Castellanos-Reyes, A. Reyes-Coronado
Summary: This study explores the transfer of linear momentum from swift electrons to metallic nanoparticles, demonstrating that noncausality and inadequate numerical convergence could result in incorrect repulsive momentum transfer. In contrast to previous studies, the findings show that the momentum transfer to spherical aluminum and gold nanoparticles is always attractive. Further theoretical analysis is needed to explain the experimentally observed repulsive interaction.
Article
Chemistry, Multidisciplinary
Vasilii S. Kolmogorov, Alexander S. Erofeev, Emily Woodcock, Yuri M. Efremov, Aleksei P. Iakovlev, Nikita A. Savin, Anna V. Alova, Svetlana V. Lavrushkina, Igor I. Kireev, Alexandra O. Prelovskaya, Elena V. Sviderskaya, Denis Scaini, Natalia L. Klyachko, Peter S. Timashev, Yasufumi Takahashi, Sergey V. Salikhov, Yuri N. Parkhomenko, Alexander G. Majouga, Christopher R. W. Edwards, Pavel Novak, Yuri E. Korchev, Petr V. Gorelkin
Summary: A high-resolution estimation method for mechanical properties and the possibility of qualitative and quantitative analysis of living cells have been demonstrated in this study. Forces applied using a nanopipette are much smaller than those using atomic force microscopy, with no detectable effect on live cells.
Article
Chemistry, Medicinal
Drago Kuzman, Urska Klancnik, Eva Grum, Jure Derganc
Summary: Protein particles in biological drugs can affect drug efficacy and have potential adverse effects. The understanding and control of particle formation in biopharmaceutical manufacturing are still incomplete, necessitating further investigation. Changes in intermolecular forces can lead to the reversible swelling and shrinkage of particles, highlighting the limited predictive power of commonly applied biophysical characterization methods for particle formation in early formulation development.
Article
Chemistry, Physical
Yao Song, Shuting Zhang, Chen Cao, Jia Yan, Mei Li, Xinyu Li, Feng Chen, Ning Gu
Summary: A novel method based on scanning ion conductance microscopy is employed to map the extracellular membrane, and it is observed that the surface charge becomes more negative after cellular senescence.
Article
Chemistry, Physical
Li Xu, Jingyu Wang, Aiting Zhang, Yuxia Pang, Dongjie Yang, Hongming Lou, Xueqing Qiu
Summary: Quantitative analysis of the intermolecular forces between lignin and cellulases at different temperatures revealed that increasing temperature improves adsorption capacity and total intermolecular forces. Hydrophobic forces and van der Waals forces contribute to long-range attractions, while electrostatic forces exhibit repulsive effects. Short-range forces including hydrogen bonding and 7L-7L stacking stabilize the non-specific binding of enzymes to lignin. Increasing temperature reduces hydrogen bond number and increases the relative contribution of long-range forces. The study also highlights the importance of hydrophobic interactions, hydrogen bonding, and steric effects in driving adsorption capacity and glucose yields.
JOURNAL OF COLLOID AND INTERFACE SCIENCE
(2023)
Article
Chemistry, Multidisciplinary
Anping Ji, Bo Wang, Guofeng Xia, Jinjie Luo, Zhenghua Deng
Summary: Experimental studies have shown that ion dynamics in single-digit nanopores of comparable dimensions to the Debye length deviate from bulk values, but there are still knowledge gaps in understanding ion transport in nanoconfinement. This study investigated the dynamics of monovalent ions in single-digit nanopores from the perspective of ionic conductance, providing a basic understanding and analysis of each conductance component.
Article
Chemistry, Multidisciplinary
Albert C. Aragones, Katrin F. Domke
Summary: The study introduces a plasmon-supported break-junction (PBJ) platform to significantly increase the lifetime of 1,4-benzenedithiol (BDT) molecular junctions without the need for chemical modification. Experimental results show that this platform can enhance the survival period of single molecule structures and pave the way for advancements in molecular electronics.
CELL REPORTS PHYSICAL SCIENCE
(2021)
Article
Chemistry, Applied
Junhua Li, Jing Wang, Jiali Zhai, Luping Gu, Yujie Su, Cuihua Chang, Yanjun Yang
Summary: The individual and synergistic effects of sodium chloride and sodium tripolyphosphate on the physicochemical properties of liquid whole eggs were studied. The combination of these salts led to an increase in intermolecular forces, resulting in improved structure and texture of whole egg gels.
Article
Chemistry, Analytical
Yasufumi Takahashi, Yuya Sasaki, Takeshi Yoshida, Kota Honda, Yuanshu Zhou, Takafumi Miyamoto, Tomoko Motoo, Hiroki Higashi, Andrew Shevchuk, Yuri Korchev, Hiroki Ida, Rikinari Hanayama, Takeshi Fukuma
Summary: Scanning ion conductance microscopy (SICM) is a promising tool for visualizing the dynamics of nanoscale cell surface topography. However, the lack of guidelines for fabricating nanopipettes with ideal shape has hindered SICM imaging at the submicron scale. In this study, we developed a simple and reproducible method for fabricating nanopipettes with sub-20nm apertures and demonstrated improved spatial resolution for nanoscale time-lapse topographic imaging.
ANALYTICAL CHEMISTRY
(2023)
Article
Multidisciplinary Sciences
Jie Yang, Huaizhou Jin, Yihao Liu, Yaya Guo, Yongli Zhang
Summary: Munc18 chaperones play a key role in mediating membrane fusion between vesicles and plasma membranes. Recent studies have revealed that Munc18-1 and Munc18-3 form ternary complexes with their cognate SNAREs, which facilitate the binding of SNAP-25 or SNAP-23 to conclude SNARE assembly. This study provides further insights into the structure, dynamics, and function of these template complexes. Our findings demonstrate that a highly dynamic template complex mediates efficient and specific SNARE assembly.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2022)
Article
Biology
Jennette M. Codjoe, Ryan A. Richardson, Fionn McLoughlin, Richard David Vierstra, Elizabeth S. Haswell
Summary: This study reveals that the Arabidopsis MSL10 channel is associated and functions with proteins at endoplasmic reticulum-plasma membrane contact sites (EPCSs). Mutations in the synaptotagmin genes were identified as suppressors of MSL10 gain-of-function phenotype. In addition, the expansion of EPCSs in msl10-3G plants provides new insights into the function and regulation of this subcellular compartment.
Article
Multidisciplinary Sciences
Michael W. Martynowycz, Anna Shiriaeva, Xuanrui Ge, Johan Hattne, Brent L. Nannenga, Vadim Cherezov, Tamir Gonen
Summary: This study demonstrates how the structure of a human A2A adenosine receptor can be determined using MicroED, and lays the groundwork for future structural studies of lipid-embedded membrane proteins using single microcrystals.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2021)
Article
Nanoscience & Nanotechnology
Christian Voelkner, Mirco Wendt, Regina Lange, Max Ulbrich, Martina Gruening, Susanne Staehlke, Barbara Nebe, Ingo Barke, Sylvia Speller
Summary: The study characterizes the 3D nanomorphology of living and fixed osteoblastic cells using scanning ion conductance microscopy, revealing the correlation between dynamic ruffles and overall surface corrugation. It discusses the role of apical membrane features and fluctuation dynamics in assessing adhesion and migration properties on a single-cell basis.
BEILSTEIN JOURNAL OF NANOTECHNOLOGY
(2021)
Article
Chemistry, Analytical
Giovana Rossi Mendes, Iago de Assis Modenez, Giovana Rosso Cagnani, Rafael N. P. Colombo, Frank Nelson Crespilho
Summary: Proteins immobilized on solid supports play critical roles in various industrial, technological, and medical applications. We used high-dimensional data spectromicroscopy analysis to study the conformational changes of enzymes adsorbed on solid matrices. The results showed that enzymes adsorb with different patterns on solid surfaces, and their secondary structures dynamically adjust to optimize the interactions with the surfaces. This method provides insights into investigating the structure of immobilized proteins on various solid surfaces.
ANALYTICAL CHEMISTRY
(2023)
Article
Biochemistry & Molecular Biology
Noemi Esteras, Franziska Kundel, Giuseppe F. Amodeo, Evgeny V. Pavlov, David Klenerman, Andrey Y. Abramov
Summary: The aggregation and phosphorylation of tau protein can lead to abnormal signal transduction and disruption of cellular homeostasis. Prolonged aggregation of tau can stimulate reactive oxygen species production and induce calcium signals in neurons, potentially leading to toxicity.
Article
Chemistry, Physical
Marco Fornasier, Andrea Porcheddu, Anna Casu, Srinivasa R. Raghavan, Peter Jonsson, Karin Schillen, Sergio Murgia
Summary: Nanoerythrosomes (NERs) are vesicle-like nanoparticles derived from red blood cells, offering high stability and excellent biocompatibility for delivering therapeutic molecules and imaging probes. Functionalization of NERs with fluorescent dyes using different methods showed promising potential for diagnostic purposes. Physicochemical characterization confirmed the stability and efficient loading of fluorophores on the NERs surface.
JOURNAL OF COLLOID AND INTERFACE SCIENCE
(2021)
Article
Physiology
Tommy Dam, Victoria Junghans, Jane Humphrey, Manto Chouliara, Peter Jonsson
Summary: Nickel-chelating lipids can induce calcium signaling in T cells independently, potentially acting as ligands to the cell's TCRs. This could lead to false signaling events in cell studies with SLBs if not accounted for. Increasing the amount of nickel-chelating lipids on the SLB can enhance signaling fraction, while adding CD48-ligand does not significantly affect the signaling intensity.
FRONTIERS IN PHYSIOLOGY
(2021)
Article
Biochemistry & Molecular Biology
Katarzyna Makasewicz, Stefan Wennmalm, Bjorn Stenqvist, Marco Fornasier, Alexandra Andersson, Peter Jonsson, Sara Linse, Emma Sparr
Summary: Cooperative binding is a crucial feature in metabolic pathways, signaling, and transport processes, allowing for tight regulation over a narrow concentration range. The study shows strong positive cooperativity of alpha-synuclein binding to phospholipid membranes, indicating that the protein has a higher affinity for a membrane where there is already bound protein, compared to a bare membrane.
ACS CHEMICAL NEUROSCIENCE
(2021)
Article
Multidisciplinary Sciences
Kevin Y. Chen, Edward Jenkins, Markus Korbel, Aleks Ponjavic, Anna H. Lippert, Ana Mafalda Santos, Nicole Ashman, Caitlin O'Brien-Ball, Jemma McBride, David Klenerman, Simon J. Davis
Summary: The study demonstrates that trapping TCRs in close contacts or simply slowing their diffusion in phosphatase-depleted regions of the cell surface is sufficient to initiate signaling. Ligands can act as receptor traps to trigger TCR signaling.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2021)
Article
Biophysics
Manto Chouliara, Victoria Junghans, Tommy Dam, Ana Mafalda Santos, Simon J. Davis, Peter Jonsson
Summary: The study introduced a method to measure 2D affinity on single cells using polyhistidine-tagged fluorescent ligands anchored to a supported lipid bilayer. By decreasing ligand density in the SLB, a new steady-state accumulation in the contact was obtained, allowing for determination of both 2D affinity and the number of receptors on the cell. The analysis showed that cell contact size increased with ligand density and the number of receptors per cell, but remained constant when lowering ligand density above a certain threshold, indicating a heterogeneous process.
BIOPHYSICAL JOURNAL
(2021)
Review
Biochemistry & Molecular Biology
Tommy Dam, Manto Chouliara, Victoria Junghans, Peter Jonsson
Summary: Binding between protein molecules on contacting cells is essential in initiating and regulating key biological processes. The use of model membranes, such as supported lipid bilayers, allows for the study of 2D binding kinetics in cell-SLB contacts, providing valuable insights into ligand-receptor interactions in vivo.
FRONTIERS IN MOLECULAR BIOSCIENCES
(2022)
Article
Multidisciplinary Sciences
Georg Meisl, Catherine K. Xu, Jonathan D. Taylor, Thomas C. T. Michaels, Aviad Levin, Daniel Otzen, David Klenerman, Steve Matthews, Sara Linse, Maria Andreasen, Tuomas P. J. Knowles
Summary: The study reveals that both disease-related proteins and proteins with functional roles in biology are capable of self-replication. However, the rate of self-replication is insignificant on the biologically relevant time scale for proteins fulfilling structural roles, while disease-related proteins can self-replicate quickly within the associated disease's time scale.
Article
Nanoscience & Nanotechnology
Sing Yee Yeung, Yulia Sergeeva, Guoqing Pan, Silvia Mittler, Thomas Ederth, Tommy Dam, Peter Jonsson, Zahra El-Schich, Anette Gjorloff Wingren, Adam Tillo, Sabrina Hsiung Mattisson, Bo Holmqvist, Maria M. Stollenwerk, Borje Sellergren
Summary: This study reports a supramolecular-based approach to control cell adhesion behavior by regulating surface composition. The results suggest that rSAMs featuring mobile bioactive ligands have great potential in biomaterial design, tissue engineering, and regenerative medicine.
ACS APPLIED MATERIALS & INTERFACES
(2022)
Article
Biochemical Research Methods
John S. H. Danial, Jeff Y. L. Lam, Yunzhao Wu, Matthew Woolley, Eleni Dimou, Matthew R. Cheetham, Derya Emin, David Klenerman
Summary: This article presents an economic and easy-to-assemble single-molecule localization microscopy setup called NanoPro for high-throughput super-resolution imaging. It provides step-by-step instructions and illustrations to aid researchers in constructing and utilizing NanoPro, as well as assessing its performance.
Article
Neurosciences
Alexandra Andersson, Marco Fornasier, Katarzyna Makasewicz, Tinna Palmadottir, Sara Linse, Emma Sparr, Peter Jonsson
Summary: Interactions among lipid vesicles are crucial in various functions and dysfunctions of the human body. This study presents a method using fluorescence microscopy and MATLAB analysis program to study protein-lipid interactions, vesicle fusion, fission, and lipid exchange. The method allows for quantitative analysis of single events and their frequency, providing valuable information for understanding the roles of lipid vesicles in healthy and degenerative pathways.
FRONTIERS IN MOLECULAR NEUROSCIENCE
(2022)
Article
Multidisciplinary Sciences
Alyssa Miller, Jiapeng Wei, Sarah Meehan, Christopher M. Dobson, Mark E. Welland, David Klenerman, Michele Vendruscolo, Francesco Simone Ruggeri, Tuomas P. J. Knowles
Summary: Neurodegenerative diseases such as Alzheimer's disease are caused by protein misfolding and aggregation into amyloid fibrils. This study uses atomic force microscopy and statistical theory to characterize amyloid ring structures derived from the brains of AD patients and explains the diversity in the structures formed from protein aggregation. The results show that ex vivo protofibril chains possess greater flexibility than mature amyloid fibrils, allowing them to form end-to-end connections and shedding light on their role in disease.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2023)
Correction
Biochemical Research Methods
John S. H. Danial, Jeff Y. L. Lam, Yunzhao Wu, Matthew Woolley, Eleni Dimou, Matthew R. Cheetham, Derya Emin, David Klenerman
Meeting Abstract
Biophysics
Georg Krainer, Kadi Liis Saar, William E. Arter, Tuomas P. J. Knowles
BIOPHYSICAL JOURNAL
(2021)
Article
Physics, Fluids & Plasmas
Richard W. Clarke
Summary: This paper evaluates the pressure between cell membranes and glass surfaces as functions of distance, explicitly including hydration and evaluating ion correlation and ion-screened electrostatics and electromagnetic fluctuations. The results align with data for tight adhesion energy, detachment pressure, and peak repulsion, showing a distance dependence on renormalization mainly from steric pressure caused by undulations in the cell membranes.