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Probing the orientation and membrane permeation of rhodamine voltage reporters through molecular simulations and free energy calculations.
J Mater Chem B
January 2025
Department of Physics, The Chinese University of Hong Kong, Shatin, Hong Kong SAR, China.
The transmembrane potential of plasma membranes and membrane-bound organelles plays a fundamental role in cellular functions such as signal transduction, ATP synthesis, and homeostasis. Rhodamine voltage reporters (RhoVRs), which operate based on the photoinduced electron transfer (PeT) mechanism, are non-invasive, small-molecule voltage sensors that can detect rapid voltage changes, with some of them specifically targeting the inner mitochondrial membrane. In this work, we conducted extensive molecular dynamics simulations and free-energy calculations to investigate the physicochemical properties governing the orientation as well as membrane permeation barriers of three RhoVRs.
View Article and Find Full Text PDFCharacterizing astrocyte-mediated neurovascular coupling by combining optogenetics and biophysical modeling.
J Cereb Blood Flow Metab
January 2025
Neuronal Mass Dynamics Lab, Department of Biomedical Engineering, Florida International, University, Miami, FL, USA.
Vasoactive signaling from astrocytes is an important contributor to the neurovascular coupling (NVC), which aims at providing energy to neurons during brain activation by increasing blood perfusion in the surrounding vasculature. Pharmacological manipulations have been previously combined with experimental techniques (e.g.
View Article and Find Full Text PDFMitochondrial Fragmentation as a Key Driver of Neurodegenerative Disease.
Curr Alzheimer Res
January 2025
Institute of Cell Biophysics, Russian Academy of Sciences - A Separate Division of Federal Research Center Pushchino Research Center for Biological Studies, Russian Academy of Sciences (ICB RAS), 142290, Russia.
Mitochondrial form and function are intricately linked through dynamic processes of fusion and fission, and disruptions in these processes are key drivers of neurodegenerative diseases, like Alzheimer's. The inability of mitochondria to transition between their dynamic forms is a critical factor in the development of pathological states. In this paper, we focus on the importance of different types of mitochondrial phenotypes in nervous tissue, discussing how mitochondria in Alzheimer's disease are "stuck" in certain patterns and how this pattern maintains itself.
View Article and Find Full Text PDFQuantum state processing through controllable synthetic temporal photonic lattices.
Nat Photonics
October 2024
Institut national de la recherche scientifique, Centre Énergie Matériaux Télécommunications, Varennes, Quebec Canada.
Quantum walks on photonic platforms represent a physics-rich framework for quantum measurements, simulations and universal computing. Dynamic reconfigurability of photonic circuitry is key to controlling the walk and retrieving its full operation potential. Universal quantum processing schemes based on time-bin encoding in gated fibre loops have been proposed but not demonstrated yet, mainly due to gate inefficiencies.
View Article and Find Full Text PDFSpectroscopic and calorimetric study of the interaction between Nile blue and double-stranded RNA.
Biochem Biophys Rep
March 2025
Department of Chemistry and Biochemistry, Florida Atlantic University, 777 Glades Road, Boca Raton, FL, 33431, USA.
Nile blue has been widely used in histological staining, fluorescence labeling, and DNA probing, with its intercalation behavior into the DNA helix being well documented. Here, we present a comprehensive investigation to address a current knowledge gap regarding the binding properties of Nile blue to two types of double-stranded RNA (dsRNA): poly(A·U) and poly(I·C), using various biophysical techniques. Absorption and fluorescence spectroscopic studies suggest a significant binding interaction between Nile blue and the two designated dsRNAs, specifically indicating an intercalation binding mode with poly(A·U) and demonstrating a noticeably higher binding affinity compared to poly(I·C).
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