Editorial Material
Multidisciplinary Sciences
J. Pedro de Souza, Howard A. Stone
Summary: Protein condensation can not only form membraneless organelles, but also regulate the availability of water.
Article
Multidisciplinary Sciences
Hugo Wioland, Antoine Jegou, Guillaume Romet-Lemonne
Summary: This article summarizes the experimental method of using optical microscopy to observe individual events on individual actin filaments in real time, and discusses its application in understanding actin assembly dynamics. The article also proposes a set of guidelines in order to better utilize this experimental tool.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2022)
Article
Biochemistry & Molecular Biology
Loretta Akakpo, Edward Ntim Gasu, Jehoshaphat Oppong Mensah, Lawrence Sheringham Borquaye
Summary: This study used molecular docking and molecular dynamics simulations to explore the inhibitory activity of some natural products against Plasmodium falciparum dihydrofolate reductase (PfDHFR). Two compounds were found to have stable binding and could be considered as potential antifolate agents.
JOURNAL OF BIOMOLECULAR STRUCTURE & DYNAMICS
(2023)
Editorial Material
Multidisciplinary Sciences
Marina. G. G. Guenza
Summary: Many biological processes rely on protein aggregates that have dynamic behaviors spanning different scales. A clever combination of spectroscopy and simulation can be used to investigate these diverse dynamics.
Article
Cell Biology
Apurva A. Govande, Brianna Duncan-Lowey, James B. Eaglesham, Aaron T. Whiteley, Philip J. Kranzusch
Summary: The study identifies molecular rules controlling CD-NTase specificity, with correct nucleotide selection resulting in a thermostable protein-nucleotide complex. Specific patterns governing selectivity for each major bacterial CD-NTase clades are established. These results explain CD-NTase specificity and enable predictions of nucleotide second-messenger signals within diverse antiviral systems.
Editorial Material
Multidisciplinary Sciences
Debora S. Marks, Stephen W. Michnick
Summary: An integrated technique is introduced to quantify and disentangle the effects of gene mutations on protein traits, allowing assessments of mutational effects on protein biophysics.
Review
Physics, Multidisciplinary
Thomas Andrew Waigh, Nickolay Korabel
Summary: A wide variety of phenomena in cellular and molecular biology involve anomalous transport, which is often heterogeneous in time and space. Single anomalous exponents and generalized diffusion coefficients fail to adequately describe these phenomena, requiring different experimental techniques and theoretical tools for analysis. High throughput analysis techniques and machine learning play important roles in the study of anomalous transport.
REPORTS ON PROGRESS IN PHYSICS
(2023)
Article
Chemistry, Multidisciplinary
Maria Fernanda Candela, Nelson E. Arenas, Obradith Caicedo, Andres Malagon
Summary: The study investigated the inhibition of porcine pancreatic lipase by the drug orlistat using a combination of experimental and computational methods. Docking calculations were recommended to understand enzyme-ligand interactions and the inhibitor mechanism of action, while sequence analysis was used to compare enzyme structures across different organisms. Additionally, an educational project proposed for biochemistry or pharmacy students can enhance understanding of enzyme kinetics, binding sites, and enzyme-ligand interactions through visualizations.
JOURNAL OF CHEMICAL EDUCATION
(2021)
Review
Genetics & Heredity
Nikhil Mishra, Carl-Philipp Heisenberg
Summary: The development of complex shapes in multicellular organisms from single-celled zygotes, known as morphogenesis, involves an interplay between genetic, cellular, and mechanical factors. Multidisciplinary approaches at the interface of biology, physics, and mathematics have historically been used to study morphogenesis. Recent technological advances have improved our ability to visualize, analyze, and manipulate the genetic and biophysical factors involved in morphogenesis.
ANNUAL REVIEW OF GENETICS, VOL 55
(2021)
Article
Chemistry, Physical
Mingyang Jing, Guangye Han, Yuze Li, Wansong Zong, Rutao Liu
Summary: This study investigates the cytotoxicity and oxidative stress induced by naphthalene and its major metabolite (1-naphthol) on earthworm coelomocytes and the interaction mechanism with critical antioxidant enzymes (CAT and SOD). The results demonstrate that 1-naphthol is more toxic to earthworm coelomocytes than naphthalene, and it induces oxidative stress by binding to CAT and SOD. The binding of 1-naphthol leads to conformational changes and activity inhibition of CAT, while it has minimal effects on SOD.
JOURNAL OF MOLECULAR LIQUIDS
(2022)
Review
Chemistry, Multidisciplinary
Miguel Paez-Perez, Marina K. Kuimova
Summary: This review discusses the principles and advances in the use of fluorescent molecular probes known as molecular rotors for exploring viscosity, crowding, and molecular interactions in biological environments. These probes have been employed as sensors for lipid order, protein crowding, temperature, and non-canonical nucleic acid structures in live cells and other relevant settings.
ANGEWANDTE CHEMIE-INTERNATIONAL EDITION
(2023)
Article
Education & Educational Research
John Barrow, William Hurst, Joakim Edman, Natasja Ariesen, Caspar Krampe
Summary: Virtual Reality (VR) is an effective tool for biochemistry education, especially in teaching the citric acid cycle. The research findings show that VR can enhance students' understanding if they feel engaged, stimulated, and intend to use the technology. EDA analysis indicates that most participants demonstrate enhanced engagement as measured by elevated levels of skin conductance.
EDUCATION AND INFORMATION TECHNOLOGIES
(2023)
Article
Chemistry, Multidisciplinary
Peter Husen, Ilia A. Solov'yov
Summary: This study provides evidence of a specific superoxide production mechanism in the mitochondrial complex III, with simulations showing the escape path of superoxide after formation and its harmful effects on cells.
FRONTIERS IN CHEMISTRY
(2021)
Article
Biochemistry & Molecular Biology
Marco Cammarata, Francesco Piazza, German Rivas, Giorgio Schiro, Piero Andrea Temussi, Annalisa Pastore
Summary: Taking into account the presence of crowded environment in macromolecules is crucial in biology. Molecular crowding affects protein motions, stability, and kinetics. New research approaches, including synchrotron radiation, have been developed to study molecular crowding. The New Frontiers in Molecular Crowding meeting discussed recent advancements and emphasized the need for enhanced communication, resource-sharing, and education to foster further growth in the field.
FRONTIERS IN MOLECULAR BIOSCIENCES
(2023)
Article
Chemistry, Multidisciplinary
Sungmin Nam, Yung-Hao Lin, Taeyoon Kim, Ovijit Chaudhuri
Summary: In dense collagen gels, single cancer cells generate substantial pushing forces to facilitate cell division without the need for cell spreading or matrix degradation. These forces arise from a combination of interpolar spindle elongation and cytokinetic ring contraction.
Article
Multidisciplinary Sciences
Swapnil Wagle, Vasil N. Georgiev, Tom Robinson, Rumiana Dimova, Reinhard Lipowsky, Andrea Grafmueller
SCIENTIFIC REPORTS
(2019)
Article
Chemistry, Multidisciplinary
Mehmet Can Ucar, Reinhard Lipowsky
Article
Multidisciplinary Sciences
Jan Steinkuehler, Roland L. Knorr, Ziliang Zhao, Tripta Bhatia, Solveig M. Bartelt, Seraphine Wegner, Rumiana Dimova, Reinhard Lipowsky
NATURE COMMUNICATIONS
(2020)
Article
Chemistry, Physical
Pallavi Banerjee, Reinhard Lipowsky, Mark Santer
JOURNAL OF CHEMICAL THEORY AND COMPUTATION
(2020)
Article
Chemistry, Multidisciplinary
Debjit Roy, Jan Steinkuehler, Ziliang Zhao, Reinhard Lipowsky, Rumiana Dimova
Correction
Multidisciplinary Sciences
Jan-Hendrik Trosemeier, Sophia Rudorf, Holger Loessner, Benjamin Hofner, Andreas Reuter, Thomas Schulenborg, Ina Koch, Isabelle Bekeredjian-Ding, Reinhard Lipowsky, Christel Kamp
SCIENTIFIC REPORTS
(2020)
Article
Nanoscience & Nanotechnology
Ohad Vonshak, Yiftach Divon, Stefanie Foerste, David Garenne, Vincent Noireaux, Reinhard Lipowsky, Sophia Rudorf, Shirley S. Daube, Roy H. Bar-Ziv
NATURE NANOTECHNOLOGY
(2020)
Article
Chemistry, Multidisciplinary
Rikhia Ghosh, Vahid Satarifard, Andrea Grafmueller, Reinhard Lipowsky
Summary: In this study, budding and fission processes of lipid nanovesicles with a size below 50 nm were reported using coarse-grained molecular dynamics simulations. The processes are influenced by solute concentration and solvent conditions, with budding being reversible and unexpected morphological transformations observed under poor solvent conditions. This reveals a nanoscale mechanism for the budding and fission of nanovesicles, arising from the interplay between membrane elasticity and solute-mediated membrane adhesion.
Article
Multidisciplinary Sciences
Lado Otrin, Agata Witkowska, Nika Marusic, Ziliang Zhao, Rafael B. Lira, Fotis L. Kyrilis, Farzad Hamdi, Ivan Ivanov, Reinhard Lipowsky, Panagiotis L. Kastritis, Rumiana Dimova, Kai Sundmacher, Reinhard Jahn, Tanja Vidakovic-Koch
Summary: Replacing lipids with polymers can partially address the durability issue in artificial cells, and the study on SNARE-mediated fusion in synthetic amphiphile membranes has identified bending rigidity and pore edge tension as key parameters for fusion.
NATURE COMMUNICATIONS
(2021)
Review
Biochemistry & Molecular Biology
Reinhard Lipowsky, Rikhia Ghosh, Vahid Satarifard, Aparna Sreekumari, Miftakh Zamaletdinov, Bartosz Rozycki, Markus Miettinen, Andrea Grafmueller
Summary: Biological and biomimetic membranes based on lipid bilayers play a crucial role in drug delivery. Recent molecular dynamics simulations have provided insights into the spatio-temporal remodeling of individual bilayers and nanovesicles. The concept of leaflet tensions, which control stability, lipid flip-flops, shape transformations, and adhesion/fusion of nanovesicles, has been highlighted in these studies.
Review
Biochemistry & Molecular Biology
Reinhard Lipowsky
Summary: Condensate droplets form in solutions where macromolecules undergo phase separation. This phenomenon has been observed both in biochemical analysis and in living cells. The review focuses on the interactions between condensate droplets and biomimetic and biological membranes.
Article
Chemistry, Physical
Simon Christ, Thomas Litschel, Petra Schwille, Reinhard Lipowsky
Summary: The study investigates shape oscillations of giant unilamellar vesicles (GUVs) caused by the Min protein system, where MinD and MinE proteins periodically attach to and detach from the membrane, driven by ATP hydrolysis. The oscillations can be understood in terms of spontaneous curvature changing periodically, with the vesicle shape transforming from symmetric to asymmetric and back during each cycle. The radius of the narrow membrane neck connecting the subcompartments undergoes periodic oscillations with an average time period of 56 seconds.
Article
Chemistry, Physical
Ana Elisa Bergues-Pupo, Reinhard Lipowsky, Ana Vila Verde
Article
Chemistry, Physical
Tripta Bhatia, Simon Christ, Jan Steinkuehler, Rumiana Dimova, Reinhard Lipowsky
Article
Materials Science, Biomaterials
Ivan Ivanov, Rafael B. Lira, T-Y Dora Tang, Titus Franzmann, Adam Klosin, Lucas Caire da Silva, Anthony Hyman, Katharina Landfester, Reinhard Lipowsky, Kai Sundmacher, Rumiana Dimova
ADVANCED BIOSYSTEMS
(2019)