Complex quantum network model of energy transfer in photosynthetic complexes

The quantum network model with real variables is usually used to describe the excitation energy transfer (EET) in the Fenna-Matthews-Olson(FMO) complexes. In this paper we add the quantum phase factors to the hopping terms and find that the quantum phase factors play an important role in the EET. The quantum phase factors allow us to consider the space structure of the pigments. It is found that phase coherence within the complexes would allow quantum interference to affect the dynamics of the EET. There exist some optimal phase regions where the transfer efficiency takes its maxima, which indicates that when the pigments are optimally spaced, the exciton can pass through the FMO with perfect efficiency. Moreover, the optimal phase regions almost do not change with the environments. In addition, we find that the phase factors are useful in the EET just in the case of multiple-pathway. Therefore, we demonstrate that, the quantum phases may bring the other two factors, the optimal space of the pigments and multiple-pathway, together to contribute the EET in photosynthetic complexes with perfect efficiency.Comment: 8 pages, 9 figure

Transport of overdamped Brownian particles in a two-dimensional tube: Nonadiabatic regime

Transport of overdamped Brownian particles in a two-dimensional asymmetric tube is investigated in the presence of nonadiabatic periodic driving forces. By using Brownian dynamics simulations we can find that the phenomena in nonadiabatic regime differ from that in adiabatic case. The direction of the current can be reversed by tuning the driving frequency. Remarkably, the current as a function of the driving amplitude exhibits several local maxima at finite driving frequency.Comment: 10 pages, 4 figure

Heat conduction in deformable Frenkel-Kontorova lattices: thermal conductivity and negative differential thermal resistance

Heat conduction through the Frenkel-Kontorova (FK) lattices is numerically investigated in the presence of a deformable substrate potential. It is found that the deformation of the substrate potential has a strong influence on heat conduction. The thermal conductivity as a function of the shape parameter is nonmonotonic. The deformation can enhance thermal conductivity greatly and there exists an optimal deformable value at which thermal conductivity takes its maximum. Remarkably, we also find that the deformation can facilitate the appearance of the negative differential thermal resistance (NDTR).Comment: 15 pages, 7 figure

Directed transport driven by L\'{e}vy flights coexisting with subdiffusion

Transport of the Brownian particles driven by L\'evy flights coexisting with subdiffusion in asymmetric periodic potentials is investigated in the absence of any external driving forces. Using the Langevin-type dynamics with subordination techniques, we obtain the group velocity which can measure the transport. It is found that the group velocity increases monotonically with the subdiffusive index and there exists an optimal value of the L\'evy index at which the group velocity takes its maximal value. There is a threshold value of the subdiffusive index below which the ratchet effects will disappear. The nonthermal character of the L\'evy flights and the asymmetry of the potential are necessary to obtain the directed transport. Some peculiar phenomena induced by the competition between L\'evy flights and subdiffusion are also observed. The pseudonormal diffusion will appear on the level of the median.Comment: 6 figure

A channel Brownian pump powered by an unbiased external force

A Brownian pump of particles in an asymmetric finite tube is investigated in the presence of an unbiased external force. The pumping system is bounded by two particle reservoirs. It is found that the particles can be pumped through the tube from a reservoir at low concentration to one at the same or higher concentration. There exists an optimized value of temperature (or the amplitude of the external force) at which the pumping capacity takes its maximum value. The pumping capacity decreases with increasing the radius at the bottleneck of the tube.Comment: 14 pages, 9 figure

Transport of underdamped active particles in ratchet potentials

We study the rectified transport of underdamped active noninteracting particles in an asymmetric periodic potential. It is found that the ratchet effect of active noninteracting particles occurs in a single direction (along the easy direction of the substrate asymmetry) in the overdamped limit. However, when the inertia is considered, it is possible to observe reversals of the ratchet effect, where the motion is along the hard direction of the substrate asymmetry. By changing the friction coefficient or the self-propulsion force, the average velocity can change its direction several times. Therefore, by suitably tailoring the parameters, underdamped active particles with different self-propulsion forces can move in different directions and can be separated.Comment: 7 pages, 7 figure

Reveal flocking of birds flying in fog by machine learning

We study the first-order flocking transition of birds flying in low-visibility conditions by employing three different representative types of neural network (NN) based machine learning architectures that are trained via either an unsupervised learning approach called "learning by confusion" or a widely used supervised learning approach. We find that after the training via either the unsupervised learning approach or the supervised learning one, all of these three different representative types of NNs, namely, the fully-connected NN, the convolutional NN, and the residual NN, are able to successfully identify the first-order flocking transition point of this nonequilibrium many-body system. This indicates that NN based machine learning can be employed as a promising generic tool to investigate rich physics in scenarios associated to first-order phase transitions and nonequilibrium many-body systems.Comment: 7 pages, 3 figure

Transport of active ellipsoidal particles in ratchet potentials

Rectified transport of active ellipsoidal particles is numerically investigated in a two-dimensional asymmetric potential. The out-of-equilibrium condition for the active particle is an intrinsic property, which can break thermodynamical equilibrium and induce the directed transport. It is found that the perfect sphere particle can facilitate the rectification, while the needlelike particle destroys the directed transport. There exist optimized values of the parameters (the self-propelled velocity, the torque acting on the body) at which the average velocity takes its maximal value. For the ellipsoidal particle with not large asymmetric parameter, the average velocity decreases with increasing the rotational diffusion rate, while for the needlelike particle (very large asymmetric parameter), the average velocity is a peaked function of the rotational diffusion rate. By introducing a finite load, particles with different shapes (or different self-propelled velocities) will move to the opposite directions, which is able to separate particles of different shapes (or different self-propelled velocities).Comment: 7pages, 8 figure