Upon the Joyeux-Buyukdagli model of DNA, the helicoidal interactions are introduced, and their effects on the dynamical behaviors of the molecule investigated. A theoretical framework for the analysis is presented in an external force field, taking into account Stokes and hydrodynamics viscous forces. In the semi-discrete approximation, the dynamics of the molecule is found governed by the cubic complex Ginzburg-Landau (CGL) equation. By choosing an appropriate decoupling ansatz, the cubic CGL equation is transformed into a nonlinear differential equation whose analytical solitary wave-like solutions can be explored by means of the direct method, which is more tractable in case where the form of soliton solutions is known. Based on this, a dissipative bright-like soliton solution is obtained. Numerical experiments have been done, and relevant results were brought out, such as the quantitative and qualitative influences of the helical interactions on the parameters of the traveling bubble. The important role-played by these interactions in the DNA biological processes is brought out, showing that depending on the wave number, their effects can increase, decrease, or keep constant the bubble angular frequency, velocity, amplitude, and width, as well as the energy involved by enzymes in the initiation of DNA biological processes. This can prevent some coding or reading errors and resulting genetic damages. Analytical predictions and numerical experiments were in good agreement.

We investigate analytically and numerically the conditions for wave instabilities in a hyperbolic activator-inhibitor system with species undergoing anomalous superdiffusion. In the present work, anomalous superdiffusion is modeled using the two-dimensional Weyl fractional operator, with derivative orders $\alpha \in$ [1,2]. We perform a linear stability analysis and derive the conditions for diffusion-driven wave instabilities. Emphasis is placed on the effect of the superdiffusion exponent $\alpha$, the diffusion ratio $d$, and the inertial time $\tau$. As the superdiffusive exponent increases, so does the wave number of the Turing instability. Opposite to the requirement for Turing instability, the activator needs to diffuse sufficiently faster than the inhibitor in order for the wave instability to occur. The critical wave number for wave instability decreases with the superdiffusive exponent and increases with the inertial time. The maximum value of the inertial time for a wave instability to occur in the system is ${\tau }_{max}=3.6$. As one of the main results of this work, we conclude that both anomalous diffusion and inertial time influence strongly the conditions for wave instabilities in hyperbolic fractional reaction-diffusion systems. Some numerical simulations are conducted as evidence of the analytical predictions derived in this work.

We have investigated the impact of the fractional order derivative on the dynamics of modulated waves of a homogeneous DNA chain that is based on site-dependent finite stacking and pairing enthalpies. We have reformulated the classical Lagrangian of the system by including the coordinates depending on the Riemann-Liouville time derivative of fractional order γ. From the Lagrange equation, we derived the fractional nonlinear equation of motion. We obtained the fractional breather as solutions by means of a fractional perturbation technique. The impact of the fractional order is investigated and we showed that depending on the values of γ, there are three types of waves that propagate in DNA. We have static breathers, breathers of small amplitude and high velocity, and breathers of high amplitude and small velocity.