Article
Multidisciplinary Sciences
Shiori Iida, Soya Shinkai, Yuji Itoh, Sachiko Tamura, Masato T. Kanemaki, Shuichi Onami, Kazuhiro Maeshima
Summary: The study revealed that local chromatin motion remains steady in live human cells throughout the phases of G1, S, and G2, driven mainly by thermal fluctuations, with an increase in motion following a DNA damage response. These findings support the viscoelastic properties of chromatin and suggest that steady-state chromatin motion enables cells to perform housekeeping functions during interphase.
Review
Chemistry, Multidisciplinary
Zhao Wang, Xuejing Wang, Ying Zhang, Weili Xu, Xiaojun Han
Summary: Deciphering the complex relationships between cell behaviors and cellular physical properties has been a tough challenge for many decades. Single particle tracking (SPT) is extensively used in cell research to understand physicochemical properties of cells and their bio-functions by tracking probes. SPT has applications in intracellular mechanics, membrane dynamics, organelles distribution, and processes of internalization and transport. Challenges and future directions of SPT are also discussed in this review.
Article
Chemistry, Analytical
Hansen Zhao, Feng Ge, Yongyu Zhang, Zhenrong Huang, Xiangjun Shi, Bin Xiong, Xuebin Liao, Sichun Zhang, Yan He
Summary: Understanding spatiotemporal dynamics of particles in complex biological environments is crucial. SEES, a method based on historical experience vector analysis, automatically presents global trajectory patterns and local continuities without predefined models, showing greater sensitivity to rare events and multivariable observations compared to the Hidden Markov model. Application of SEES to analyze interactions between nanoparticles and PD-L1 expressing cells successfully pinpointed rare events, visualized Brownian motion, and evaluated different dynamics. These findings could help in designing highly efficient nanocargoes.
ANALYTICAL CHEMISTRY
(2021)
Article
Biochemical Research Methods
Barbora Spackova, Henrik Klein Moberg, Joachim Fritzsche, Johan Tenghamn, Gustaf Sjosten, Hana Sipova-Jungova, David Albinsson, Quentin Lubart, Daniel van Leeuwen, Fredrik Westerlund, Daniel Midtvedt, Elin K. Esbjorner, Mikael Kall, Giovanni Volpe, Christoph Langhammer
Summary: Nanofluidic scattering microscopy (NSM) is a label-free, real-time imaging technique that enables measurement of the molecular weight and hydrodynamic radius of biological molecules and nanoparticles inside a nanofluidic channel. It provides a method for characterizing single biomolecules without the need for labeling, which can compromise data interpretation.
Article
Multidisciplinary Sciences
J. J. Erik Maris, Freddy T. Rabouw, Bert M. Weckhuysen, Florian Meirer
Summary: Single-particle tracking is a powerful method for studying the motion of individual molecules and particles. The DiffusionLab software package provides motion analysis tools for challenging data sets, allowing trajectory classification based on motion type and computation of diffusion constants.
SCIENTIFIC REPORTS
(2022)
Article
Immunology
Wei-You Li, Shuhui Yin, Szu-Wei Huang, Ming-Hui Yang, Patricia MT. Chen, Shang-Rung Wu, Kevin Welsher, Haw Yang, Yi-Ming Arthur Chen
Summary: This study observed the interaction trajectories between HIV-1 virus-like particles (VLPs) and CD4 cells using a three-dimensional multi-resolution real-time microscope system (3D-MRM). It identified three distinct movement patterns and analyzed the spatial-temporal relationship between the VLP trajectories and CD4 cells. The encapsulating method used in this study increases the accuracy of real-time and three-dimensional observation of HIV-1-CD4 cell interaction.
JOURNAL OF MICROBIOLOGY IMMUNOLOGY AND INFECTION
(2023)
Article
Multidisciplinary Sciences
Jagadish Sankaran, Harikrushnan Balasubramanian, Wai Hoh Tang, Xue Wen Ng, Adrian Rollin, Thorsten Wohland
Summary: This study presents an experimental strategy that optimizes spatial and temporal resolution simultaneously by implementing a GPU-supported, camera-based measurement strategy. The results demonstrate the importance of pixel-wise cross-correlation of parameters obtained from different techniques on the same data set for robust physicochemical parameter estimation and providing unique biological knowledge.
NATURE COMMUNICATIONS
(2021)
Review
Chemistry, Multidisciplinary
Bertus van Heerden, Nicholas A. Vickers, Tjaart P. J. Kruger, Sean B. Andersson
Summary: This review article explores the applications and key components of real-time feedback-driven single-particle tracking (RT-FD-SPT) techniques, including feedback tracking and control, particle location estimation, and method calibration and characterization. It introduces a collection of metrics to guide experimentalists in selecting suitable methods and identifies opportunities for further development.
Article
Biology
Jaap van Krugten, Noemie Danne, Erwin J. G. Peterman
Summary: In this study, single-molecule tracking experiments were used to investigate the interplay of transport modes during intraflagellar transport in the cilium. The distribution of the sensory transmembrane protein OCR-2 was found to depend on the specific location in the cilium, with directed transport predominant in the dendrite and transition zone, normal diffusion and a small fraction of directed transport along the cilium, and subdiffusion at the ciliary tip.
COMMUNICATIONS BIOLOGY
(2022)
Article
Engineering, Chemical
Haichao Wu, Alexander Kanora, Daniel K. Schwartz
Summary: The study shows that internal membrane fouling consists of three stages: fouling site formation, fouling site growth, and fouling site coalescence. Larger particles are more likely to be retained initially, leading to the formation of fouling sites that gradually grow and coalesce with other particles, ultimately blocking a significant region of membrane pores. This information will assist in improving the design and optimization of filtration processes to reduce fouling and enhance our understanding of particle transport.
JOURNAL OF MEMBRANE SCIENCE
(2022)
Article
Multidisciplinary Sciences
Tobias F. Bartsch, Camila M. Villasante, Felicitas E. Hengel, Ahmed Toure, Daniel M. Firester, Aaron Oswald, A. J. Hudspeth
Summary: In high-speed single-molecule experiments, tethering proteins with force probes can avoid nonspecific interactions, but dissipate rapidly exerted forces through long linkers; due to the high frequency of mammalian hearing, short tethers are required for single-molecule experiments.
SCIENTIFIC REPORTS
(2021)
Article
Multidisciplinary Sciences
Xin Wang, Zhongju Ye, Shen Lin, Lin Wei, Lehui Xiao
Summary: In this study, a nanozyme-powered cup-shaped nanomotor was developed for active cellular targeting and synergistic photodynamic/thermal therapy. The nanomotor demonstrated asymmetric propulsion force and robust catalytic activity, allowing for more efficient cellular searching and uptake, as well as the generation of reactive oxygen species during therapy.
Article
Thermodynamics
D. Ning, Y. Shoshin, J. A. van Oijen, G. Finotello, L. P. H. de Goey
Summary: An improved particle generator based on electrodynamic powder fluidization was proposed and constructed for investigating the combustion of a single metal particle. Experimental results showed that the combustion process of particles is influenced by oxygen concentration, and the overall combustion process of iron particles is controlled by external and internal diffusion of oxygen.
COMBUSTION AND FLAME
(2021)
Article
Microbiology
Benjamin Mayer, Meike Schwan, Luis M. Oviedo-Bocanegra, Gert Bange, Kai M. Thormann, Peter L. Graumann
Summary: This study investigates the localization and dynamics of bacterial Ffh, SRP complex, its receptor FtsY, and ribosomes in Shewanella putrefaciens. Results show that ribosomes accumulate at cell poles, while SRP and FtsY are distributed along the cell membrane. Single molecule dynamics suggest that the proteins move in three distinguishable mobility fractions, with different diffusion constants suggesting interactions among them.
FRONTIERS IN MICROBIOLOGY
(2021)
Article
Polymer Science
Syoji Ito, Misato Funaoka, Itsuo Hanasaki, Satoshi Takei, Masakazu Morimoto, Masahiro Irie, Hiroshi Miyasaka
Summary: The research successfully measured thousands of single-molecule translational trajectories in a blended polymer solid using one-color fluorescence-switching of diarylethene derivatives (DAEs), and visualized the microstructure of the polymer blend through reconstruction of the localized positions of the DAEs. Additionally, the position dependence of the local properties around the phase-separated area was elucidated through the local diffusion behaviors of single DAEs in the host material.
Article
Oncology
Nikolaos I. Kanellakis, Anastasios D. Giannou, Mario A. A. Pepe, Theodora Agalioti, Dimitra E. Zazara, Ioanna Giopanou, Ioannis Psallidas, Magda Spella, Antonia Marazioti, Kristina A. M. Arendt, Anne Sophie Lamort, Spyridon Champeris Tsaniras, Stavros Taraviras, Helen Papadaki, Ioannis Lilis, Georgios T. Stathopoulos
Article
Oncology
Laura Klotz, Yves Courty, Michael Lindner, Agnes Petit-Courty, Anja Stowasser, Ina Koch, Martin E. Eichhorn, Ioannis Lilis, Alicia Morresi-Hauf, Kristina A. M. Arendt, Mario Pepe, Ioanna Giopanou, Giannoula Ntaliarda, Sabine J. Behrendt, Maria Oplopoious, Valerie Gissot, Serge Guyetant, Sylvain Marchand-Adam, Juergen Behr, Jan-Christian Kaiser, Rudolf A. Hatz, Anne-Sophie Lamort, Georgios T. Stathopoulos
Article
Biology
Magda Spella, Ioannis Lilis, Mario A. A. Pepe, Yuanyuan Chen, Maria Armaka, Anne-Sophie Lamort, Dimitra E. Zazara, Fani Roumelioti, Malamati Vreka, Nikolaos I. Kanellakis, Darcy E. Wagner, Anastasios D. Giannou, Vasileios Armenis, Kristina A. M. Arendt, Laura V. Klotz, Dimitrios Toumpanakis, Vassiliki Karavana, Spyros G. Zakynthinos, Ioanna Giopanou, Antonia Marazioti, Vassilis Aidinis, Rocio Sotillo, Georgios T. Stathopoulos
Article
Biochemistry & Molecular Biology
Anne-Sophie Lamort, Yveline Hamon, Cezary Czaplewski, Artur Gieldon, Seda Seren, Laurent Coquet, Fabien Lecaille, Adam Lesner, Gilles Lalmanach, Francis Gauthier, Dieter Jenne, Brice Korkmaz
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2019)
Review
Cell Biology
Anne-Sophie Lamort, Ioanna Giopanou, Ioannis Psallidas, Georgios T. Stathopoulos
Article
Oncology
Ioanna Giopanou, Nikolaos Kanellakis, Anastasios D. Giannou, Ioannis Lilis, Antonia Marazioti, Magda Spella, Vassilios Papaleonidopoulos, Davina C. M. Simoes, Dimitra E. Zazara, Theodora Agalioti, Charalampos Moschos, Sophia Magkouta, Ioannis Kalomenidis, Vily Panoutsakopoulou, Anne-Sophie Lamort, Georgios T. Stathopoulos, Ioannis Psallidas
Article
Chemistry, Analytical
Sandra Serres, Catherine Tardin, Laurence Salome
ANALYTICAL CHEMISTRY
(2020)
Review
Pharmacology & Pharmacy
Brice Korkmaz, Anne-Sophie Lamort, Roxane Domain, Celine Beauvillain, Artur Gieldon, Ali Oender Yildirim, Georgios T. Stathopoulos, Moez Rhimi, Dieter E. Jenne, Ralph Kettritz
Summary: Cathepsin C plays a crucial role in cancer development and metastasis, and is considered as a potential therapeutic target for various types of cancer. Recent studies have highlighted the important interaction between tumor-associated CatC, NSPs, and NETs in cancer progression, providing new insights for cancer treatment strategies.
BIOCHEMICAL PHARMACOLOGY
(2021)
Article
Medicine, Research & Experimental
Antonia Marazioti, Anthi C. Krontira, Sabine J. Behrend, Georgia A. Giotopoulou, Giannoula Ntaliarda, Christophe Blanquart, Hasan Bayram, Marianthi Iliopoulou, Malamati Vreka, Lilith Trassl, Mario A. A. Pepe, Caroline M. Hackl, Laura Klotz, Stefanie A. Weiss, Ina Koch, Michael Lindner, Rudolph A. Hatz, Juergen Behr, Darcy E. Wagner, Helen Papadaki, Sophia G. Antimisiaris, Didier Jean, Sophie Deshayes, Marc Gregoire, Ozgecan Kayalar, Deniz Mortazavi, Sukru Dilege, Serhan Tanju, Suat Erus, Omer Yavuz, Pinar Bulutay, Pinar Firat, Ioannis Psallidas, Magda Spella, Ioanna Giopanou, Ioannis Lilis, Anne-Sophie Lamort, Georgios T. Stathopoulos
Summary: A portion of human MPM cases have mutations in KRAS, and mouse models suggest that KRAS mutations can lead to MPM, especially when combined with TP53 deletion. These findings indicate that KRAS alterations may play an important and underestimated role in certain MPM patients.
EMBO MOLECULAR MEDICINE
(2022)
Article
Respiratory System
Anne-Sophie Lamort, Jan Christian Kaiser, Mario A. A. Pepe, Ioannis Lilis, Giannoula Ntaliarda, Kalman Somogyi, Magda Spella, Sabine J. Behrend, Georgia A. Giotopoulou, Willem Kujawa, Michael Lindner, Ina Koch, Rudolf A. Hatz, Juergen Behr, Rocio Sotillo, Andrea C. Schamberger, Georgios T. Stathopoulos
Summary: Two molecular subtypes of LUAD have been identified, and their identification provides important prognostic information.
EUROPEAN RESPIRATORY JOURNAL
(2022)
Article
Chemistry, Analytical
Diana Soukarie, Philippe Rousseau, Maya Salhi, Alexia de Caro, Jean-Marc Escudier, Catherine Tardin, Vincent Ecochard, Laurence Salome
Summary: This study successfully developed an aptasensor based on high-throughput single-molecule techniques, which enables rapid, simple, and sensitive detection of single target molecules. The presence and concentration of the target molecules can be monitored in real time by combining videomicroscopy and image analysis.
ANALYTICAL CHEMISTRY
(2022)
Article
Biochemistry & Molecular Biology
Kristina A. M. Arendt, Giannoula Ntaliarda, Vasileios Armenis, Danai Kati, Christin Henning, Georgia A. Giotopoulou, Mario A. A. Pepe, Laura Klotz, Anne-Sophie Lamort, Rudolf A. Hatz, Sebastian Kobold, Andrea C. Schamberger, Georgios T. Stathopoulos
Summary: KRAS-mutant tumor cells showed exclusive response to KRAS blockade in vivo by co-opting host myeloid cells through C-C-motif chemokine ligand 2 (CCL2)/interleukin-1 beta (IL-1 beta)-mediated signaling loop. In vitro cellular systems are suboptimal for anti-KRAS drug screens and IL-1 beta blockade might be suitable for therapy for KRAS-mutant cancers.
Article
Chemistry, Physical
Sandeep Shrivastava, Parijat Sarkar, Pascal Preira, Laurence Salome, Amitabha Chattopadhyay
Summary: Research has shown that the diffusion of serotonin(1A) receptors is restricted under cholesterol depletion conditions. The relative populations of receptors undergoing different modes of diffusion also change in response to cholesterol depletion, with an increase in the confined population and a reduction in diffusion coefficient for chronic cholesterol depletion.
JOURNAL OF PHYSICAL CHEMISTRY B
(2022)
Article
Biochemistry & Molecular Biology
Soojung Hahn, Gyuri Kim, Sang-Man Jin, Jae Hyeon Kim
Summary: This study utilized three-dimensional intestinal organoids to investigate the effects of metformin on inflammatory bowel disease (IBD) and found that metformin can enhance intestinal barrier function and reduce levels of inflammatory cytokines.
BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS
(2024)
Article
Biochemistry & Molecular Biology
V. V. Sudarev, M. S. Gette, S. V. Bazhenov, O. M. Tilinova, E. V. Zinovev, I. V. Manukhov, A. I. Kuklin, Yu. L. Ryzhykau, A. V. Vlasov
Summary: This study investigated the self-assembly processes of ferritin-based protein complexes and obtained structurally characterized oligomeric states. These results provide new potential and opportunities for the application of ferritin in various fields.
BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS
(2024)
Article
Biochemistry & Molecular Biology
Yalda Sabaghi, Farnaz Pourfarzad, Leila Zolghadr, Azita Bahrami, Tahereh Shojazadeh, Alireza Farasat, Nematollah Gheibi
Summary: p-Coumaric acid (p-CA) is a plant compound with anti-cancer activities. This study designed a nano-liposomal carrier containing p-CA to enhance its effectiveness against melanoma cells. The findings showed that the liposomal form of p-CA had a greater impact on the cells. Kinetic modeling indicated that the best fitting model was zero-order.
BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS
(2024)
Article
Biochemistry & Molecular Biology
M. D. Nazmul Hasan, Md Mahfuzur Rahman, Al Asmaul Husna, Nobuhiro Nozaki, Osamu Yamato, Naoki Miura
Summary: This study investigated the expression of ncRNAs other than miRNAs in different histologic subtypes of canine mammary gland tumors (MGT). Three aberrantly expressed ncRNAs were identified as potential biomarkers for differentiating MGT subtypes. YRNA and tRFs expression levels were found to be decreased in metastatic compared to primary MGT cell lines.
BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS
(2024)
Article
Biochemistry & Molecular Biology
Seine A. Shintani
Summary: In this study, the researchers used signal analysis to study the instantaneous amplitude and phase of sarcomeric oscillations in skeletal muscle. They identified two types of oscillations, sarcomeric oscillations and sarcosynced oscillations, and visualized their behavior during propagating waves. The researchers discovered the presence of sarcomeric defect holes and sarcomeric collision holes, which are important indicators for understanding the oscillation properties of sarcomeres. This finding has important implications for improving our understanding of muscle function and its regulatory mechanisms.
BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS
(2024)
Article
Biochemistry & Molecular Biology
Shuanglin Zhang, Yuzhong Jia, Guolan Ma, Yanyan Yang, Zhenzhen Cao, Antao Luo, Zefu Zhang, Shihan Li, Jie Wen, Hanfeng Liu, Jihua Ma
Summary: Bupleurum is an antiarrhythmic agent that may exert its effects by inhibiting L-type calcium channels.
BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS
(2024)
Article
Biochemistry & Molecular Biology
Tomotaka Ohkubo, Yasuhiko Matsumoto, Hiroaki Sasaki, Kaoru Kinoshita, Yuki Ogasawara, Takashi Sugita
Summary: This study found that Citrobacter koseri inhibits the growth of Staphylococcus epidermidis, disrupting the balance between S. epidermidis and Staphylococcus aureus, and exacerbating inflammation in atopic dermatitis.
BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS
(2024)
Article
Biochemistry & Molecular Biology
Toshifumi Asano, Philipp Sasse, Takao Nakata
Summary: A Cre recombination-based fluorescent reporter system was developed to monitor cell-cell fusion. The system successfully detected the formation of multinuclear myotubes and placental syncytiotrophoblast. This tool could facilitate the study of cell-to-cell fusion.
BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS
(2024)
Article
Biochemistry & Molecular Biology
Ke Shi, Yunlong Shan, Xiao Sun, Kuida Chen, Qiong Luo, Qiang Xu
Summary: This study found that low expression of TP53INP2 is associated with poor survival in colorectal cancer (CRC) patients. As the malignancy of CRC progresses, TP53INP2 expression gradually decreases. Knockdown of TP53INP2 promotes CRC cell proliferation and tumor growth. Mechanistically, TP53INP2 deficiency decreases phosphorylation of beta-catenin, leading to increased accumulation and enhanced nuclear translocation and transcriptional activity. Additionally, TP53INP2 sequesters TIM50, inhibiting its activation of beta-catenin. In conclusion, downregulation of TP53INP2 promotes CRC progression by activating beta-catenin.
BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS
(2024)
Article
Biochemistry & Molecular Biology
Martina Rossi, Fabio Tomaselli, Alejandro Hochkoeppler
Summary: Oligomeric enzymes are known for their higher catalytic rates compared to monomeric enzymes, but the extent of additivity in their activity is still not well understood. This study used tetrameric rabbit lactate dehydrogenase as a model to examine the kinetics of its catalytic action. Surprisingly, when the concentration of the limiting reactant exceeded that of a single subunit, there was a significant slowdown in the enzyme's conformational rearrangements.
BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS
(2024)
Article
Biochemistry & Molecular Biology
Amin Sahraei, Mohammad Javad Shamsoddini, Fakhrossadat Mohammadi, Leila Hassani
Summary: This study explored the inhibitory effects of gallium curcumin, indium curcumin, and vanadyl curcumin on the amyloid fibrillation of hen egg white lysozyme, as well as the binding interactions of these metal complexes with the enzyme. The results showed that indium curcumin and vanadyl curcumin exhibited higher binding affinities and stronger inhibitory effects on amyloid fibrillation compared to gallium curcumin.
BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS
(2024)
Article
Biochemistry & Molecular Biology
Takahiro Sasaki, Yoshiki Kuse, Shinsuke Nakamura, Masamitsu Shimazawa
Summary: PGRN deficiency plays a significant role in cardiac remodeling and arrhythmias post-myocardial infarction (MI), potentially by promoting metabolic abnormalities in macrophages.
BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS
(2024)
Article
Biochemistry & Molecular Biology
Hongwei Zhao, Yiqiang Li, Yibo Zhang, Chi Zhang
Summary: Electrical brain stimulation technology is commonly used to treat brain neurological disorders, but it can cause side effects. This study investigated the impact of electric fields on nerve fibers and revealed the possible origin of side effects. The findings provide guidance for selecting electrical parameters in clinical stimulation therapy.
BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS
(2024)
Article
Biochemistry & Molecular Biology
Julia S. Scott, Lake-Ee Quek, Andrew J. Hoy, Johannes V. Swinnen, Zeyad D. Nassar, Lisa M. Butler
Summary: The fatty acid elongation enzyme ELOVL5 plays a critical role in promoting metastasis in prostate cancer. Knocking down ELOVL5 leads to the accumulation of malonyl-CoA, which inhibits fatty acid oxidation in mitochondria. This study highlights the importance of fatty acid elongation in regulating cell viability and provides a potential target for prostate cancer treatment.
BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS
(2024)
Article
Biochemistry & Molecular Biology
Zan Zhou, Wen-jun Jiang, Li Li, Jun-qiang Si
Summary: This study investigates the effect of noise exposure on cognitive function in mice and explores the underlying molecular mechanisms. The findings suggest that noise exposure leads to increased inflammation, increased phosphorylation of Tau protein, and decreased levels of postsynaptic density protein, resulting in cognitive impairment.
BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS
(2024)
