Mechanical response of double-stranded DNA to dynamic excitation

2021 ◽  
pp. 107754632110458
Author(s):  
Hamze Mousavi ◽  
Moein Mirzaei ◽  
Samira Jalilvand

The present work investigates the vibrational properties of a DNA-like structure by means of a harmonic Hamiltonian and the Green’s function formalism. The DNA sequence is considered as a quasi one-dimensional system in which the mass-spring pairs are randomly distributed inside each crystalline unit. The sizes of the units inside the system are increased, in a step-by-step approach, so that the actual condition of the DNA could be modeled more accurately. The linear-elastic forces mimicking the bonds between the pairs are initially considered constant along the entire length of the system. In the next step, these forces are randomly shuffled so as to take into account the inherent randomness of the DNA. The results reveal that increasing the number of mass-spring pairs in the crystalline structure decreases the influence of randomness on the mechanical behavior of the structure. This also holds true for systems with larger crystalline units. The obtained results can be used to investigate the mechanical behavior of similar macro-systems.

Author(s):  
Alireza Karimi ◽  
Maedeh Haghighatnama ◽  
Mahdi Navidbakhsh ◽  
Afsaneh Motevalli Haghi

AbstractSkin tissue is not only responsible for thermoregulation but also for protecting the human body from mechanical, bacterial, and viral insults. The mechanical properties of skin tissue may vary according to the anatomical locations in the body. However, the linear elastic and nonlinear hyperelastic mechanical properties of the skin in different anatomical regions and at different loading directions (axial and circumferential) so far have not been determined. In this study, the mechanical properties during tension of the rat abdomen and back were calculated at different loading directions using linear elastic and nonlinear hyperelastic material models. The skin samples were subjected to a series of tensile tests. The elastic modulus and maximum stress of the skin tissues were measured before the incidence of failure. The nonlinear mechanical behavior of the skin tissues was also computationally investigated through a constitutive equation. Hyperelastic strain energy density function was calibrated using the experimental data. The results revealed the anisotropic mechanical behavior of the abdomen and the isotropic mechanical response of the back skin. The highest elastic modulus was observed in the abdomen skin under the axial direction (10 MPa), while the lowest one was seen in the back skin under axial loading (5 MPa). The Mooney-Rivlin material model closely addressed the nonlinear mechanical behavior of the skin at different loading directions, which can be implemented in the future biomechanical models of skin tissue. The results might have implications not only for understanding of the isotropic and anisotropic mechanical behavior of skin tissue at different anatomical locations but also for providing more information for a diversity of disciplines, including dermatology, cosmetics industry, clinical decision making, and clinical intervention.


1998 ◽  
Vol 63 (6) ◽  
pp. 761-769 ◽  
Author(s):  
Roland Krämer ◽  
Arno F. Münster

We describe a method of stabilizing the dominant structure in a chaotic reaction-diffusion system, where the underlying nonlinear dynamics needs not to be known. The dominant mode is identified by the Karhunen-Loeve decomposition, also known as orthogonal decomposition. Using a ionic version of the Brusselator model in a spatially one-dimensional system, our control strategy is based on perturbations derived from the amplitude function of the dominant spatial mode. The perturbation is used in two different ways: A global perturbation is realized by forcing an electric current through the one-dimensional system, whereas the local perturbation is performed by modulating concentrations of the autocatalyst at the boundaries. Only the global method enhances the contribution of the dominant mode to the total fluctuation energy. On the other hand, the local method leads to simple bulk oscillation of the entire system.


2021 ◽  
Vol 11 (1) ◽  
Author(s):  
Milad Jangjan ◽  
Mir Vahid Hosseini

AbstractWe theoretically report the finding of a new kind of topological phase transition between a normal insulator and a topological metal state where the closing-reopening of bandgap is accompanied by passing the Fermi level through an additional band. The resulting nontrivial topological metal phase is characterized by stable zero-energy localized edge states that exist within the full gapless bulk states. Such states living on a quasi-one-dimensional system with three sublattices per unit cell are protected by hidden inversion symmetry. While other required symmetries such as chiral, particle-hole, or full inversion symmetry are absent in the system.


Author(s):  
Naeim Akbari Shahkhosravi ◽  
Soheil Gohari ◽  
Amin Komeili ◽  
Colin Burvill ◽  
Helen Davies

2021 ◽  
Vol 2021 (4) ◽  
Author(s):  
Yolanda Lozano ◽  
Carlos Nunez ◽  
Anayeli Ramirez

Abstract We present a new infinite family of Type IIB supergravity solutions preserving eight supercharges. The structure of the space is AdS2 × S2 × CY2 × S1 fibered over an interval. These solutions can be related through double analytical continuations with those recently constructed in [1]. Both types of solutions are however dual to very different superconformal quantum mechanics. We show that our solutions fit locally in the class of AdS2 × S2 × CY2 solutions fibered over a 2d Riemann surface Σ constructed by Chiodaroli, Gutperle and Krym, in the absence of D3 and D7 brane sources. We compare our solutions to the global solutions constructed by Chiodaroli, D’Hoker and Gutperle for Σ an annulus. We also construct a cohomogeneity-two family of solutions using non-Abelian T-duality. Finally, we relate the holographic central charge of our one dimensional system to a combination of electric and magnetic fluxes. We propose an extremisation principle for the central charge from a functional constructed out of the RR fluxes.


2020 ◽  
Vol 2020 (9) ◽  
Author(s):  
Rodolfo Panerai ◽  
Antonio Pittelli ◽  
Konstantina Polydorou

Abstract We find a one-dimensional protected subsector of $$ \mathcal{N} $$ N = 4 matter theories on a general class of three-dimensional manifolds. By means of equivariant localization we identify a dual quantum mechanics computing BPS correlators of the original model in three dimensions. Specifically, applying the Atiyah-Bott-Berline-Vergne formula to the original action demonstrates that this localizes on a one-dimensional action with support on the fixed-point submanifold of suitable isometries. We first show that our approach reproduces previous results obtained on S3. Then, we apply it to the novel case of S2× S1 and show that the theory localizes on two noninteracting quantum mechanics with disjoint support. We prove that the BPS operators of such models are naturally associated with a noncom- mutative star product, while their correlation functions are essentially topological. Finally, we couple the three-dimensional theory to general $$ \mathcal{N} $$ N = (2, 2) surface defects and extend the localization computation to capture the full partition function and BPS correlators of the mixed-dimensional system.


1994 ◽  
Vol 61 (4) ◽  
pp. 919-922 ◽  
Author(s):  
Taein Yeo ◽  
J. R. Barber

When heat is conducted across an interface between two dissimilar materials, theimoelastic distortion affects the contact pressure distribution. The existence of a pressure-sensitive thermal contact resistance at the interface can cause such systems to be unstable in the steady-state. Stability analysis for thermoelastic contact has been conducted by linear perturbation methods for one-dimensional and simple two-dimensional geometries, but analytical solutions become very complicated for finite geometries. A method is therefore proposed in which the finite element method is used to reduce the stability problem to an eigenvalue problem. The linearity of the underlying perturbation problem enables us to conclude that solutions can be obtained in separated-variable form with exponential variation in time. This factor can therefore be removed from the governing equations and the finite element method is used to obtain a time-independent set of homogeneous equations in which the exponential growth rate appears as a linear parameter. We therefore obtain a linear eigenvalue problem and stability of the system requires that all the resulting eigenvalues should have negative real part. The method is discussed in application to the simple one-dimensional system of two contacting rods. The results show good agreement with previous analytical investigations and give additional information about the migration of eigenvalues in the complex plane as the steady-state heat flux is varied.


2005 ◽  
Vol 127 (7) ◽  
pp. 1158-1167 ◽  
Author(s):  
Adam H. Hsieh ◽  
Diane R. Wagner ◽  
Louis Y. Cheng ◽  
Jeffrey C. Lotz

In vivo rodent tail models are becoming more widely used for exploring the role of mechanical loading on the initiation and progression of intervertebral disc degeneration. Historically, finite element models (FEMs) have been useful for predicting disc mechanics in humans. However, differences in geometry and tissue properties may limit the predictive utility of these models for rodent discs. Clearly, models that are specific for rodent tail discs and accurately simulate the disc’s transient mechanical behavior would serve as important tools for clarifying disc mechanics in these animal models. An FEM was developed based on the structure, geometry, and scale of the mouse tail disc. Importantly, two sources of time-dependent mechanical behavior were incorporated: viscoelasticity of the matrix, and fluid permeation. In addition, a novel strain-dependent swelling pressure was implemented through the introduction of a dilatational stress in nuclear elements. The model was then validated against data from quasi-static tension-compression and compressive creep experiments performed previously using mouse tail discs. Finally, sensitivity analyses were performed in which material parameters of each disc subregion were individually varied. During disc compression, matrix consolidation was observed to occur preferentially at the periphery of the nucleus pulposus. Sensitivity analyses revealed that disc mechanics was greatly influenced by changes in nucleus pulposus material properties, but rather insensitive to variations in any of the endplate properties. Moreover, three key features of the model—nuclear swelling pressure, lamellar collagen viscoelasticity, and interstitial fluid permeation—were found to be critical for accurate simulation of disc mechanics. In particular, collagen viscoelasticity dominated the transient behavior of the disc during the initial 2200s of creep loading, while fluid permeation governed disc deformation thereafter. The FEM developed in this study exhibited excellent agreement with transient creep behavior of intact mouse tail motion segments. Notably, the model was able to produce spatial variations in nucleus pulposus matrix consolidation that are consistent with previous observations in nuclear cell morphology made in mouse discs using confocal microscopy. Results of this study emphasize the need for including nucleus swelling pressure, collagen viscoelasticity, and fluid permeation when simulating transient changes in matrix and fluid stress/strain. Sensitivity analyses suggest that further characterization of nucleus pulposus material properties should be pursued, due to its significance in steady-state and transient disc mechanical response.


Sign in / Sign up

Export Citation Format

Share Document