An attempt of Seibutsu-Butsuri in Kyoto IUPAB Congress 2024.

In Kyoto IUPAB Congress, a Japanese bimonthly magazine of biophysics, Seibutsu-Butsuri, organized a round table, with an online English journal of Biophysics and Physicobiology, to discuss the possible future of biophysics by gathering seven prominent researchers who participated in the congress. The content will be published both in Japanese and English in the two journals, which is expected to stimulate our next generation researchers in biophysics over the world.

Dynamical analysis and fault detection application of a time-delayed multi-stable stochastic resonance system driven by white correlated noises.

Bearing fault diagnosis is a crucial means to ensure the normal operation of machinery, reduce maintenance costs, enhance equipments safety and extend the service life of bearings. However, the noise interference in input signals often affects the effective extraction of bearing fault signals. In this paper, a time-delay multi-stable stochastic resonance (SR) system driven by white correlated noises is proposed.

Stochastic Analysis for the Dual Virus Parallel Transmission Model with Immunity Delay.

In this article, the qualitative properties of a stochastic dual virus parallel transmission model with immunity delay are analyzed. First, we use Lyapunov theory to study the existence and uniqueness of the global positive solution of the proposed model. Second, the threshold values of the persistence and extinction of two viruses were obtained.

Discovery of essential kinetoplastid-insect adhesion proteins and their function in Leishmania-sand fly interactions.

Leishmania species, members of the kinetoplastid parasites, cause leishmaniasis, a neglected tropical disease, in millions of people worldwide. Leishmania has a complex life cycle with multiple developmental forms, as it cycles between a sand fly vector and a mammalian host; understanding their life cycle is critical to understanding disease spread. One of the key life cycle stages is the haptomonad form, which attaches to insect tissues through its flagellum.

Martingale solutions and asymptotic behaviors for a stochastic cross-diffusion three-species food chain model with prey-taxis.

The stochastic food chain model is an important model within the field of ecological research. Since existing models are difficult to describe the influence of cross-diffusion and random factors on the evolution of species populations, this work is concerned with a stochastic cross-diffusion three-species food chain model with prey-taxis, in which the direction of predators' movement is opposite to the gradient of prey, i.e.

Patterning in stratified epithelia depends on cell-cell adhesion.

Epithelia consist of proliferating and differentiating cells that often display patterned arrangements. However, the mechanism regulating these spatial arrangements remains unclear. Here, we show that cell-cell adhesion dictates multicellular patterning in stratified epithelia.

Forward and inverse problems for creep models in viscoelasticity.

This study examines a class of time-dependent constitutive equations used to describe viscoelastic materials under creep in solid mechanics. In nonlinear elasticity, the strain response to the applied stress is expressed via an implicit graph allowing multi-valued functions. For coercive and maximal monotone graphs, the existence of a solution to the quasi-static viscoelastic problem is proven by applying the Browder-Minty fixed point theorem.

Unveiling serotonergic dysfunction of obsessive-compulsive disorder on prefrontal network dynamics: a computational perspective.

Serotonin (5-HT) regulates working memory within the prefrontal cortex network, which is crucial for understanding obsessive-compulsive disorder. However, the mechanisms how network dynamics and serotonin interact in obsessive-compulsive disorder remain elusive. Here, we incorporate 5-HT receptors (5-HT1A, 5-HT2A) and dopamine receptors into a multistable prefrontal cortex network model, replicating the experimentally observed inverted U-curve phenomenon.

An encompassed representation of timescale hierarchies in first-order reaction network.

Complex networks are pervasive in various fields such as chemistry, biology, and sociology. In chemistry, first-order reaction networks are represented by a set of first-order differential equations, which can be constructed from the underlying energy landscape. However, as the number of nodes increases, it becomes more challenging to understand complex kinetics across different timescales.

Controlling the Formation of Polyhedral Block Copolymer Nanoparticles: Insights from Process Variables and Dynamic Modeling.

This study delves into the formation of nanoscale polyhedral block copolymer particles (PBCPs) exhibiting cubic, octahedral, and variant geometries. These structures represent a pioneering class that has never been fabricated previously. PBCP features distinct variations in curvature on the outer surface, aligning with the edges and corners of polyhedral shapes.

On-the-fly Raman microscopy guaranteeing the accuracy of discrimination.

Accelerating the measurement for discrimination of samples, such as classification of cell phenotype, is crucial when faced with significant time and cost constraints. Spontaneous Raman microscopy offers label-free, rich chemical information but suffers from long acquisition time due to extremely small scattering cross-sections. One possible approach to accelerate the measurement is by measuring necessary parts with a suitable number of illumination points.

Numerical study of anisotropic diffusion in Turing patterns based on Finsler geometry modeling.

We numerically study the anisotropic Turing patterns (TPs) of an activator-inhibitor system described by the reaction-diffusion (RD) equation of Turing, focusing on anisotropic diffusion using the Finsler geometry (FG) modeling technique. In FG modeling, the diffusion coefficients are dynamically generated to be direction dependent owing to an internal degree of freedom (IDOF) and its interaction with the activator and inhibitor. Because of this dynamical diffusion coefficient, FG modeling of the RD equation sharply contrasts with the standard numerical technique in which direction-dependent coefficients are manually assumed.

On the reaction-diffusion type modelling of the self-propelled object motion.

In this study, we propose a mathematical model of self-propelled objects based on the Allen-Cahn type phase-field equation. We combine it with the equation for the concentration of surfactant used in previous studies to construct a model that can handle self-propelled object motion with shape change. A distinctive feature of our mathematical model is that it can represent both deformable self-propelled objects, such as droplets, and solid objects, such as camphor disks, by controlling a single parameter.

Comparison of particle image velocimetry and the underlying agents dynamics in collectively moving self propelled particles.

Collective migration of cells is a fundamental behavior in biology. For the quantitative understanding of collective cell migration, live-cell imaging techniques have been used using e.g.

Differentiability of cell types enhanced by detrending a non-homogeneous pattern in a line-illumination Raman microscope.

A line illumination Raman microscope extracts the underlying spatial and spectral information of a sample, typically a few hundred times faster than raster scanning. This makes it possible to measure a wide range of biological samples such as cells and tissues - that only allow modest intensity illumination to prevent potential damage - within feasible time frame. However, a non-uniform intensity distribution of laser line illumination may induce some artifacts in the data and lower the accuracy of machine learning models trained to predict sample class membership.

Automated contour extraction for light-sheet microscopy images of zebrafish embryos based on object edge detection algorithm.

Embryo contour extraction is the initial step in the quantitative analysis of embryo morphology, and it is essential for understanding the developmental process. Recent developments in light-sheet microscopy have enabled the in toto time-lapse imaging of embryos, including zebrafish. However, embryo contour extraction from images generated via light-sheet microscopy is challenging owing to the large amount of data and the variable sizes, shapes, and textures of objects.

Caenorhabditis elegans transfers across a gap under an electric field as dispersal behavior.

Interactions between different animal species are a critical determinant of each species' evolution and range expansion. Chemical, visual, and mechanical interactions have been abundantly reported, but the importance of electric interactions is not well understood. Here, we report the discovery that the nematode Caenorhabditis elegans transfers across electric fields to achieve phoretic attachment to insects.

Formation and three-dimensional architecture of adhesion in the sand fly vector.

Attachment to a substrate to maintain position in a specific ecological niche is a common strategy across biology, especially for eukaryotic parasites. During development in the sand fly vector, the eukaryotic parasite adheres to the stomodeal valve, as the specialised haptomonad form. Dissection of haptomonad adhesion is a critical step for understanding the complete life cycle of .

ERK MAP Kinase Signaling Regulates RAR Signaling to Confer Retinoid Resistance on Breast Cancer Cells.

Retinoic acid (RA) and its synthetic derivatives, retinoids, have been established as promising anticancer agents based on their ability to regulate cell proliferation and survival. Clinical trials, however, have revealed that cancer cells often acquire resistance to retinoid therapy. Therefore, elucidation of underlying mechanisms of retinoid resistance has been considered key to developing more effective use of retinoids in cancer treatment.

Modes of information flow in collective cohesion.

Pairwise interactions are fundamental drivers of collective behavior-responsible for group cohesion. The abiding question is how each individual influences the collective. However, time-delayed mutual information and transfer entropy, commonly used to quantify mutual influence in aggregated individuals, can result in misleading interpretations.

Phase space geometry of isolated to condensed chemical reactions.

The complexity of gas and condensed phase chemical reactions has generally been uncovered either approximately through transition state theories or exactly through (analytic or computational) integration of trajectories. These approaches can be improved by recognizing that the dynamics and associated geometric structures exist in phase space, ensuring that the propagator is symplectic as in velocity-Verlet integrators and by extending the space of dividing surfaces to optimize the rate variationally, respectively. The dividing surface can be analytically or variationally optimized in phase space, not just over configuration space, to obtain more accurate rates.

PATIENT DOSES IN WHOLE-BODY PET/CT EXAMINATIONS IN THE LARGEST TERTIARY HOSPITAL IN GREECE.

The purpose of this study was to determine the patient radiation dose in combined whole-body positron emission tomography/computed tomography (PET/CT) examinations performed in the largest tertiary hospital in Greece. Computed tomography dose index (CTDIvol), dose length product (DLP), weight, height and administered activity of 2-[18F] fluoro-2-deoxy-D-glucose values for PET/CT examinations were recorded in a sample of 1014 randomly selected patients. The mean (±standard deviation) and median (interquartile) CTDIvol values were equal to 5.

Near-wall rheotaxis of the ciliate induced by the kinesthetic sensing of cilia.

To survive in harsh environments, single-celled microorganisms autonomously respond to external stimuli, such as light, heat, and flow. Here, we elucidate the flow response of a well-known single-celled freshwater microorganism. moves upstream against an external flow via a behavior called rheotaxis.

Solution landscapes of the diblock copolymer-homopolymer model under two-dimensional confinement.

We investigate the solution landscapes of the confined diblock copolymer and homopolymer in two-dimensional domain by using the extended Ohta-Kawasaki model. The projection saddle dynamics method is developed to compute the saddle points with mass conservation and construct the solution landscape by coupling with downward and upward search algorithms. A variety of stationary solutions are identified and classified in the solution landscape, including Flower class, Mosaic class, Core-shell class, and Tai-chi class.