Bloch-Redfield equations for modeling light-harvesting complexes

Pointer States in the Born-Markov Approximation

Quantum states least affected by interactions with environment play a pivotal role in both foundations and applications of quantum mechanics. Known as pointer states, they surprisingly lacked a systematic description. Working within the Born-Markov approximation, we combine methods of group theory and open quantum systems and derive general conditions describing pointer states. Contrary to common expectations, they are in general different from coherent states. Thus the two notions of being "closest to the classical"-one defined by the uncertainty relations and the other by the interaction with the environment-are in general different. As an example, we study spin-spin and spin-boson models with an arbitrary central spin J.

A quantum trajectory picture of single photon absorption and energy transport in photosystem II

We use quantum trajectory theory to study the dynamics of the first step in photosynthesis for a single photon interacting with photosystem II (PSII). By considering individual trajectories we are able to look beyond the ensemble average dynamics to compute the PSII system evolution conditioned upon individual photon counting measurements. Measurements of the transmitted photon beam strongly affects the system state, since detection of an outgoing photon confirms that the PSII must be in the electronic ground state, while a null measurement implies it is in an excited electronic state. We show that under ideal conditions, observing the null result transforms a state with a low excited state population to a state with nearly all population contained in the excited states. We study the PSII dynamics conditioned on such photon counting for both a pure excitonic model of PSII and a more realistic model with exciton-phonon coupling to a dissipative phononic environment. In the absence of such coupling, we show that the measured fluorescence rates show oscillations constituting a photon-counting witness of excitonic coherence. Excitonic coupling to the phonon environment has a strong effect on the observed rates of fluorescence, damping the oscillations. Addition of non-radiative decay and incoherent transitions to radical pair states in the reaction center to the phononic model allows extraction of a quantum efficiency of 92.5% from the long-time evolution, consistent with bulk experimental measurements.

Quantum Entanglement and State-Transference in Fenna-Matthews-Olson Complexes: A Post-Experimental Simulation Analysis in the Computational Biology Domain

Fenna-Mathews-Olson complexes participate in the photosynthetic process of Sulfur Green Bacteria. These biological subsystems exhibit quantum features which possibly are responsible for their high efficiency; the latter may comprise multipartite entanglement and the apparent tunnelling of the initial quantum state. At first, to study these aspects, a multidisciplinary approach including experimental biology, spectroscopy, physics, and math modelling is required. Then, a global computer modelling analysis is achieved in the computational biology domain. The current work implements the Hierarchical Equations of Motion to numerically solve the open quantum system problem regarding this complex. The time-evolved states obtained with this method are then analysed under several measures of entanglement, some of them already proposed in the literature. However, for the first time, the maximum overlap with respect to the closest separable state is employed. This authentic multipartite entanglement measure provides information on the correlations, not only based on the system bipartitions as in the usual analysis. Our study has led us to note a different view of FMO multipartite entanglement as tiny contributions to the global entanglement suggested by other more basic measurements. Additionally, in another related trend, the initial state, considered as a Förster Resonance Energy Transfer, is tracked using a novel approach, considering how it could be followed under the fidelity measure on all possible permutations of the FMO subsystems through its dynamical evolution by observing the tunnelling in the most probable locations. Both analyses demanded significant computational work, making for a clear example of the complexity required in computational biology.

Non-Markovianity between Site Pairs in FMO Complex Using Discrete-Time Quantum Jump Model

The Fenna-Mathews-Olson (FMO) complex present in green sulfur bacteria is known to mediate the transfer of excitation energy between light-harvesting chlorosomes and membrane-embedded bacterial reaction centers. Due to the high efficiency of this transport process, it is an extensively studied pigment-protein complex system with the eventual aim of modeling and engineering similar dynamics in other systems and using it for real-time application. Some studies have attributed the enhancement of transport efficiency to wavelike behavior and non-Markovian quantum jumps resulting in long-lived and revival of quantum coherence, respectively. Since dynamics in these systems reside in the quantum-classical regime, quantum simulation of such dynamics will help in exploring the subtle role of quantum features in enhancing the transport efficiency, which has remained unsettled. Discrete simulation of the dynamics in the FMO complex can help in efficient engineering of the heat bath and controlling the environment with the system. In this work, using the discrete quantum jump model we show and quantify the presence of higher non-Markovian memory effects in specific site pairs when internal structures and environmental effects are in favor of faster transport. As a consequence, our study leans toward the connection between non-Markovianity in quantum jumps with the enhancement of transport efficiency.

Tailoring Cooperative Emission in Molecules: Superradiance and Subradiance from First-Principles Simulations

Cooperative optical effects provide a pathway to both the amplification (superradiance) and the suppression (subradiance) of photon emission from electronically excited states. These captivating phenomena offer a rich variety of possibilities for photonic technologies aimed at electromagnetic energy manipulation, including lasers and high-speed emitting devices in the case of superradiance or optical energy storage in that of subradiance. The employment of molecules as the building pieces in these developments requires a precise understanding of the roles of separation, orientation, spatial distribution, and applied fields, which remains challenging for theory and experiments. These questions are addressed here through ab initio quantum dynamics simulations of collective emission on the basis of a novel semiclassical formalism and time-dependent density functional theory. By establishing the configurations leading to decoherence and how the fine-tuning of a pulse can accumulate or release optical energy in H₂ arrays, this report provides fundamental insight toward the design of real superradiant and subradiant devices.

Polariton enhanced free charge carrier generation in donor-acceptor cavity systems by a second-hybridization mechanism

Cavity quantum electrodynamics has been studied as a potential approach to modify free charge carrier generation in donor-acceptor heterojunctions because of the delocalization and controllable energy level properties of hybridized light-matter states known as polaritons. However, in many experimental systems, cavity coupling decreases charge separation. Here, we theoretically study the quantum dynamics of a coherent and dissipative donor-acceptor cavity system, to investigate the dynamical mechanism and further discover the conditions under which polaritons may enhance free charge carrier generation. We use open quantum system methods based on single-pulse pumping to find that polaritons have the potential to connect excitonic states and charge separated states, further enhancing free charge generation on an ultrafast timescale of several hundred femtoseconds. The mechanism involves polaritons with optimal energy levels that allow the exciton to overcome the high Coulomb barrier induced by electron-hole attraction. Moreover, we propose that a second-hybridization between a polariton state and dark states with similar energy enables the formation of the hybrid charge separated states that are optically active. These two mechanisms lead to a maximum of 50% enhancement of free charge carrier generation on a short timescale. However, our simulation reveals that on the longer timescale of picoseconds, internal conversion and cavity loss dominate and suppress free charge carrier generation, reproducing the experimental results. Thus, our work shows that polaritons can affect the charge separation mechanism and promote free charge carrier generation efficiency, but predominantly on a short timescale after photoexcitation.

Long-lived quantum coherent dynamics of a Λ-system driven by a thermal environment

We present a theoretical study of quantum coherent dynamics of a three-level Λ-system driven by a thermal environment (such as blackbody radiation), which serves as an essential building block of photosynthetic light-harvesting models and quantum heat engines. By solving nonsecular Bloch-Redfield master equations, we obtain analytical results for the ground-state population and coherence dynamics and classify the dynamical regimes of the incoherently driven Λ-system as underdamped and overdamped depending on whether the ratio Δ/[rf(p)] is greater or less than one, where Δ is the ground-state energy splitting, r is the incoherent pumping rate, and f(p) is a function of the transition dipole alignment parameter p. In the underdamped regime, we observe long-lived coherent dynamics that lasts for τ_c ≃ 1/r, even though the initial state of the Λ-system contains no coherences in the energy basis. In the overdamped regime for p = 1, we observe the emergence of coherent quasi-steady states with the lifetime τ_c = 1.34(r/Δ²), which have a low von Neumann entropy compared to conventional thermal states. We propose an experimental scenario for observing noise-induced coherent dynamics in metastable He* atoms driven by x-polarized incoherent light. Our results suggest that thermal excitations can generate experimentally observable long-lived quantum coherent dynamics in the ground-state subspace of atomic and molecular Λ-systems in the absence of coherent driving.

Geometry-based circulation of local thermal current in quantum harmonic and Bose-Hubbard systems

A geometry-based mechanism for generating steady-state internal circulation of local thermal currents is demonstrated by harmonically coupled quantum oscillators formulated by the Redfield quantum master equation (RQME) and the Bose-Hubbard model (BHM) of phonons formulated by the Lindblad quantum master equation (LQME) using the simple multipath geometry of a triangle. Driven by two reservoirs at different temperatures, both systems can exhibit an atypical local thermal current flowing against the total current. However, the total thermal current behaves normally. While the RQME of harmonically coupled quantum oscillators allows an analytical solution, the LQME of the interacting BHM can be solved numerically. The emergence of the geometry-based circulation in both systems demonstrates the ubiquity and robustness of the mechanism. In the high-temperature limit, the results agree with the classical results, confirming the generality of the geometric-based circulation across the quantum and classical boundary. The geometry-based circulation also emerges from a quantum Langevin equation calculation. Possible experimental implications and applications are briefly discussed.

Laser Cooling Beyond Rate Equations: Approaches from Quantum Thermodynamics

Solids can be cooled by driving impurity ions with lasers, allowing them to transfer heat from the lattice phonons to the electromagnetic surroundings. This exemplifies a quantum thermal machine, which uses a quantum system as a working medium to transfer heat between reservoirs. We review the derivation of the Bloch-Redfield equation for a quantum system coupled to a reservoir, and its extension, using counting fields, to calculate heat currents. We use the full form of this equation, which makes only the weak-coupling and Markovian approximations, to calculate the cooling power for a simple model of laser cooling. We compare its predictions with two other time-local master equations: the secular approximation to the full Bloch-Redfield equation, and the Lindblad form expected for phonon transitions in the absence of driving. We conclude that the full Bloch-Redfield equation provides accurate results for the heat current in both the weak- and strong- driving regimes, whereas the other forms have more limited applicability. Our results support the use of Bloch-Redfield equations in quantum thermal machines, despite their potential to give unphysical results.

Weak and Ultrastrong Coupling Limits of the Quantum Mean Force Gibbs State

The Gibbs state is widely taken to be the equilibrium state of a system in contact with an environment at temperature T. However, non-negligible interactions between system and environment can give rise to an altered state. Here, we derive general expressions for this mean force Gibbs state, valid for any system that interacts with a bosonic reservoir. First, we derive the state in the weak coupling limit and find that, in general, it maintains coherences with respect to the bare system Hamiltonian. Second, we develop a new expansion method suited to investigate the ultrastrong coupling regime. This allows us to derive the explicit form for the mean force Gibbs state, and we find that it becomes diagonal in the basis set by the system-reservoir interaction instead of the system Hamiltonian. Several examples are discussed including a single qubit, a three-level V-system, and two coupled qubits all interacting with bosonic reservoirs. The results shed light on the presence of coherences in the strong coupling regime, and provide key tools for nanoscale thermodynamics investigations.

Computational elucidations on the role of vibrations in energy transfer processes of photosynthetic complexes

Coupling between pigment excitations and nuclear movements in photosynthetic complexes is known to modulate the excitation energy transfer (EET) efficiencies. Toward providing microscopic information, researchers often apply simulation techniques and investigate how vibrations are involved in EET processes. Here, reports on such roles of nuclear movements are discussed from a theory perspective. While vibrations naturally present random thermal fluctuations that can affect energy transferring characteristics, they can also be intertwined with exciton structures and create more specific non-adiabatic energy transfer pathways. For reliable simulations, a bath model that accurately mimics a given molecular system is required. Methods for obtaining such a model in combination with quantum chemical electronic structure calculations and molecular dynamics trajectory simulations are discussed. Various quantum dynamics simulation tools that can handle pigment-to-pigment energy transfers together with their vibrational characters are also touched on. Behaviors of molecular vibrations often deviate from ideality, especially when all-atom details are included, which practically forces us to treat them classically. We conclude this perspective by considering some recent reports that suggest that classical descriptions of bath effects with all-atom details may still produce valuable information for analyzing sophisticated contributions by vibrations to EET processes.

Quantum Energy Lines and the Optimal Output Ergotropy Problem

We study the transferring of useful energy (work) along a transmission line that allows for partial preservation of quantum coherence. As a figure of merit we adopt the maximum values that ergotropy, total ergotropy, and nonequilibrium free energy attain at the output of the line for an assigned input energy threshold. For phase-invariant bosonic Gaussian channel (BGC) models, we show that coherent inputs are optimal. For (one-mode) not phase-invariant BGCs we solve the optimization problem under the extra restriction of Gaussian input signals.

Role of Spatially Correlated Fluctuations in Photosynthetic Excitation Energy Transfer with an Equilibrium and a Nonequilibrium Initial Bath

The transfer of excitation energy in photosynthetic light-harvesting complexes has inspired growing interest for its scientific and engineering significance. Recent experimental findings have suggested that spatially correlated environmental fluctuations may account for the existence of long-lived quantum coherent energy transfer observed even at physiological temperature. In this paper, we investigate the effects of spatial correlations on the excitation energy transfer dynamics by including a nonequilibrium initial bath in a simulated donor-acceptor model. The initial bath state, which is assumed to be either equilibrium or nonequilibrium, is expanded in powers of coupling strength within the polaron formalism of a quantum master equation. The spatial correlations of bath fluctuations strongly influence the decay of coherence in the dynamics. The role of a nonequilibrium initial bath is also influenced by spatial correlations and becomes the most conspicuous for certain degrees of spatial correlations from which we propose a picture that the spatial correlations of bath fluctuations open up new energy transfer pathways, playing a role of protecting coherence. Besides, we apply the polaron master equation approach to study the dynamics in a two-site subsystem of the FMO complex and provide a practical example that shows the versatility of this approach.

Quantum Information and Algorithms for Correlated Quantum Matter

Discoveries in quantum materials, which are characterized by the strongly quantum-mechanical nature of electrons and atoms, have revealed exotic properties that arise from correlations. It is the promise of quantum materials for quantum information science superimposed with the potential of new computational quantum algorithms to discover new quantum materials that inspires this Review. We anticipate that quantum materials to be discovered and developed in the next years will transform the areas of quantum information processing including communication, storage, and computing. Simultaneously, efforts toward developing new quantum algorithmic approaches for quantum simulation and advanced calculation methods for many-body quantum systems enable major advances toward functional quantum materials and their deployment. The advent of quantum computing brings new possibilities for eliminating the exponential complexity that has stymied simulation of correlated quantum systems on high-performance classical computers. Here, we review new algorithms and computational approaches to predict and understand the behavior of correlated quantum matter. The strongly interdisciplinary nature of the topics covered necessitates a common language to integrate ideas from these fields. We aim to provide this common language while weaving together fields across electronic structure theory, quantum electrodynamics, algorithm design, and open quantum systems. Our Review is timely in presenting the state-of-the-art in the field toward algorithms with nonexponential complexity for correlated quantum matter with applications in grand-challenge problems. Looking to the future, at the intersection of quantum information science and algorithms for correlated quantum matter, we envision seminal advances in predicting many-body quantum states and describing excitonic quantum matter and large-scale entangled states, a better understanding of high-temperature superconductivity, and quantifying open quantum system dynamics.

Two-dimensional electronic spectroscopy of anharmonic molecular potentials

Two-dimensional electronic spectroscopy (2DES) is a powerful tool in the study of coupled electron-phonon dynamics, yet very little is known about how nonlinearities in the electron-phonon coupling, arising from anharmonicities in the nuclear potentials, affect the spectra. These become especially relevant when the coupling is strong. From the linear spectroscopies, anharmonicities are known to give structure to the zero-phonon line and to break mirror-symmetry between absorption and emission, but the 2D analogues of these effects have not been identified. Using a simple two-level model where the electronic states are described by (displaced) harmonic oscillators with differing curvatures or displaced Morse oscillators, we find that the zero-phonon line shape is essentially transferred to the diagonal in 2DES spectra, and that anharmonicities break a horizontal mirror-symmetry in the infinite waiting time limit. We also identify anharmonic effects that are only present in 2DES spectra: twisting of cross-peaks stemming from stimulated emission signals; and oscillation period mismatch between ground state bleach and stimulated emission (for harmonic oscillators with differing curvatures), or inherently chaotic oscillations (for Morse oscillators). Our findings will facilitate an improved understanding of 2DES spectra and aid the interpretation of signals that are more realistic than those arising from simple models.

Quantum effects in biology: golden rule in enzymes, olfaction, photosynthesis and magnetodetection

Despite certain quantum concepts, such as superposition states, entanglement, 'spooky action at a distance' and tunnelling through insulating walls, being somewhat counterintuitive, they are no doubt extremely useful constructs in theoretical and experimental physics. More uncertain, however, is whether or not these concepts are fundamental to biology and living processes. Of course, at the fundamental level all things are quantum, because all things are built from the quantized states and rules that govern atoms. But when does the quantum mechanical toolkit become the best tool for the job? This review looks at four areas of 'quantum effects in biology'. These are biosystems that are very diverse in detail but possess some commonality. They are all (i) effects in biology: rates of a signal (or information) that can be calculated from a form of the 'golden rule' and (ii) they are all protein-pigment (or ligand) complex systems. It is shown, beginning with the rate equation, that all these systems may contain some degree of quantumeffect, and where experimental evidence is available, it is explored to determine how the quantum analysis aids in understanding of the process.

When do perturbative approaches accurately capture the dynamics of complex quantum systems?

Understanding the dynamics of higher-dimensional quantum systems embedded in a complex environment remains a significant theoretical challenge. While several approaches yielding numerically converged solutions exist, these are computationally expensive and often provide only limited physical insight. Here we address the question: when do more intuitive and simpler-to-compute second-order perturbative approaches provide adequate accuracy? We develop a simple analytical criterion and verify its validity for the case of the much-studied FMO dynamics as well as the canonical spin-boson model.