1
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Su Y, Wang Y, Xu RX, Yan Y. Generalized system-bath entanglement theorem for Gaussian environments. J Chem Phys 2024; 160:084104. [PMID: 38385516 DOI: 10.1063/5.0193530] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/22/2023] [Accepted: 01/30/2024] [Indexed: 02/23/2024] Open
Abstract
The entanglement between system and bath often plays a pivotal role in complex systems spanning multiple orders of magnitude. A system-bath entanglement theorem was previously established for Gaussian environments in J. Chem. Phys. 152, 034102 (2020) regarding linear response functions. This theorem connects the entangled responses to the local system and bare bath properties. In this work, we generalize it to correlation functions. Key steps in derivations involve using the generalized Langevin dynamics for hybridizing bath modes and the Bogoliubov transformation that maps the original finite-temperature reservoir to an effective zero-temperature vacuum by employing an auxiliary bath. The generalized theorem allows us to evaluate the system-bath entangled correlations and the bath mode correlations in the total composite space, as long as we know the bare-bath statistical properties and obtain the reduced system correlations. To demonstrate the cross-scale entanglements, we utilize the generalized theorem to calculate the solvation free energy of an electron transfer system with intramolecular vibrational modes.
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Affiliation(s)
- Yu Su
- Hefei National Research Center for Physical Sciences at the Microscale, University of Science and Technology of China, Hefei, Anhui 230026, China and Hefei National Laboratory, University of Science and Technology of China, Hefei, Anhui 230088, China
| | - Yao Wang
- Hefei National Research Center for Physical Sciences at the Microscale, University of Science and Technology of China, Hefei, Anhui 230026, China and Hefei National Laboratory, University of Science and Technology of China, Hefei, Anhui 230088, China
| | - Rui-Xue Xu
- Hefei National Research Center for Physical Sciences at the Microscale, University of Science and Technology of China, Hefei, Anhui 230026, China and Hefei National Laboratory, University of Science and Technology of China, Hefei, Anhui 230088, China
| | - YiJing Yan
- Hefei National Research Center for Physical Sciences at the Microscale, University of Science and Technology of China, Hefei, Anhui 230026, China and Hefei National Laboratory, University of Science and Technology of China, Hefei, Anhui 230088, China
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2
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Liu W, Chen ZH, Su Y, Wang Y, Dou W. Predicting rate kernels via dynamic mode decomposition. J Chem Phys 2023; 159:144110. [PMID: 37823462 DOI: 10.1063/5.0170512] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/03/2023] [Accepted: 09/25/2023] [Indexed: 10/13/2023] Open
Abstract
Simulating dynamics of open quantum systems is sometimes a significant challenge, despite the availability of various exact or approximate methods. Particularly when dealing with complex systems, the huge computational cost will largely limit the applicability of these methods. In this work, we investigate the usage of dynamic mode decomposition (DMD) to evaluate the rate kernels in quantum rate processes. DMD is a data-driven model reduction technique that characterizes the rate kernels using snapshots collected from a small time window, allowing us to predict the long-term behaviors with only a limited number of samples. Our investigations show that whether the external field is involved or not, the DMD can give accurate prediction of the result compared with the traditional propagations, and simultaneously reduce the required computational cost.
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Affiliation(s)
- Wei Liu
- Department of Chemistry, School of Science, Westlake University, Hangzhou 310024 Zhejiang, China
- Institute of Natural Sciences, Westlake Institute for Advanced Study, Hangzhou 310024 Zhejiang, China
| | - Zi-Hao Chen
- Department of Chemical Physics, University of Science and Technology of China, Hefei, Anhui 230026, China
| | - Yu Su
- Department of Chemical Physics, University of Science and Technology of China, Hefei, Anhui 230026, China
| | - Yao Wang
- Department of Chemical Physics, University of Science and Technology of China, Hefei, Anhui 230026, China
| | - Wenjie Dou
- Department of Chemistry, School of Science, Westlake University, Hangzhou 310024 Zhejiang, China
- Institute of Natural Sciences, Westlake Institute for Advanced Study, Hangzhou 310024 Zhejiang, China
- Department of Physics, School of Science, Westlake University, Hangzhou 310024, Zhejiang, China
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3
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Chen ZH, Wang Y, Xu RX, Yan Y. Open quantum systems with nonlinear environmental backactions: Extended dissipaton theory vs core-system hierarchy construction. J Chem Phys 2023; 158:074102. [PMID: 36813728 DOI: 10.1063/5.0134700] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/27/2023] Open
Abstract
In this paper, we present a comprehensive account of quantum dissipation theories with the quadratic environment couplings. The theoretical development includes the Brownian solvation mode embedded hierarchical quantum master equations, a core-system hierarchy construction that verifies the extended dissipaton equation of motion (DEOM) formalism [R. X. Xu et al., J. Chem. Phys. 148, 114103 (2018)]. Developed are also the quadratic imaginary-time DEOM for equilibrium and the λ(t)-DEOM for nonequilibrium thermodynamics problems. Both the celebrated Jarzynski equality and Crooks relation are accurately reproduced, which, in turn, confirms the rigorousness of the extended DEOM theories. While the extended DEOM is more numerically efficient, the core-system hierarchy quantum master equation is favorable for "visualizing" the correlated solvation dynamics.
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Affiliation(s)
- Zi-Hao Chen
- Hefei National Research Center for Physical Sciences at the Microscale and Department of Chemical Physics, University of Science and Technology of China, Hefei, Anhui 230026, China
| | - Yao Wang
- Hefei National Research Center for Physical Sciences at the Microscale and Department of Chemical Physics, University of Science and Technology of China, Hefei, Anhui 230026, China
| | - Rui-Xue Xu
- Hefei National Research Center for Physical Sciences at the Microscale and Department of Chemical Physics, University of Science and Technology of China, Hefei, Anhui 230026, China
| | - YiJing Yan
- Hefei National Research Center for Physical Sciences at the Microscale and Department of Chemical Physics, University of Science and Technology of China, Hefei, Anhui 230026, China
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4
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Fang J, Chen ZH, Su Y, Zhu ZF, Wang Y, Xu RX, Yan Y. Coherent excitation energy transfer in model photosynthetic reaction center: Effects of non-Markovian quantum environment. J Chem Phys 2022; 157:084119. [DOI: 10.1063/5.0104641] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
Excitation energy transfer (EET) and electron transfer (ET) are crucially involved in photosynthetic processes. In reality, the photosynthetic reaction center constitutes an open quantum system of EET and ET, which manifests an interplay of pigments, solar light and phonon baths. So far theoretical studies have been mainly based on master equation approaches in the Markovian condition. The non-Markovian environmental effect, which may play a crucial role, has not been sufficiently considered. In this work, we propose a mixed dynamic approach to investigate this open system. The influence of phonon bath is treated via the exact dissipaton equation of motion (DEOM) while that of photon bath is via the Lindblad master equation. Specifically, we explore the effect of non-Markovian quantum phonon bath on the coherent transfer dynamics and its manipulation on the current--voltage behavior. Distinguished from the results of completely Markovian Lindblad equation and those adopting classical environment description, the mixed DEOM--Lindblad simulations exhibittransfer coherence up to a few hundreds femtosecondsand the related environmental manipulation effect on current.These non-Markovian quantum coherent effects may be extended tomore complex and realistic systems and be helpful to thedesign of organic photovoltaic devices.
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Affiliation(s)
- Jie Fang
- University of Science and Technology of China, China
| | - Zi-Hao Chen
- University of Science and Technology of China, China
| | - Yu Su
- Department of Chemical Physics, University of Science and Technology of China, China
| | - Zi-Fan Zhu
- University of Science and Technology of China, China
| | - Yao Wang
- Hefei National Research Center for Physical Sciences at the Microscale, University of Science and Technology of China, China
| | - Rui-Xue Xu
- University of Science and Technology of China, China
| | - YiJing Yan
- Department of Chemical Physics, USTC, China
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5
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Fang J, Chen Z, Wang Y, Xu R, Yan Y. Correlated driving‐and‐dissipation equation for
non‐Condon
spectroscopy with the Herzberg–Teller vibronic coupling. J CHIN CHEM SOC-TAIP 2022. [DOI: 10.1002/jccs.202200222] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
Affiliation(s)
- Jie Fang
- Department of Chemical Physics University of Science and Technology of China Hefei Anhui China
| | - Zi‐Hao Chen
- Department of Chemical Physics University of Science and Technology of China Hefei Anhui China
| | - Yao Wang
- Department of Chemical Physics University of Science and Technology of China Hefei Anhui China
| | - Rui‐Xue Xu
- Department of Chemical Physics University of Science and Technology of China Hefei Anhui China
| | - YiJing Yan
- Department of Chemical Physics University of Science and Technology of China Hefei Anhui China
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6
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Su Y, Chen ZH, Zhu H, Wang Y, Han L, Xu RX, Yan Y. Electron Transfer under the Floquet Modulation in Donor-Bridge-Acceptor Systems. J Phys Chem A 2022; 126:4554-4561. [PMID: 35786902 DOI: 10.1021/acs.jpca.2c03308] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Electron transfer (ET) processes are of broad interest in modern chemistry. With the advancements of experimental techniques, one may modulate the ET via such events as light-matter interactions. In this work, we study the ET under a Floquet modulation occurring in the donor-bridge-acceptor systems, with the rate kernels projected out from the exact dissipaton equation of motion formalism. This together with the Floquet theorem enables us to investigate the interplay between the intrinsic non-Markovianity and the driving periodicity. The observed rate kernel exhibits a Herzberg-Teller-like mechanism induced by the bridge fluctuation subject to effective modulation.
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Affiliation(s)
- Yu Su
- Department of Chemical Physics, University of Science and Technology of China, Hefei, Anhui 230026, China
| | - Zi-Hao Chen
- Department of Chemical Physics, University of Science and Technology of China, Hefei, Anhui 230026, China
| | - Haojie Zhu
- Department of Chemical Physics, University of Science and Technology of China, Hefei, Anhui 230026, China
| | - Yao Wang
- Department of Chemical Physics, University of Science and Technology of China, Hefei, Anhui 230026, China
| | - Lu Han
- Department of Chemical Physics, University of Science and Technology of China, Hefei, Anhui 230026, China
| | - Rui-Xue Xu
- Department of Chemical Physics, University of Science and Technology of China, Hefei, Anhui 230026, China
| | - YiJing Yan
- Department of Chemical Physics, University of Science and Technology of China, Hefei, Anhui 230026, China
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7
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Xing T, Li T, Yan Y, Bai S, Shi Q. Application of the imaginary time hierarchical equations of motion method to calculate real time correlation functions. J Chem Phys 2022; 156:244102. [DOI: 10.1063/5.0095790] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/03/2023] Open
Abstract
We investigate the application of the imaginary time hierarchical equations of motion method to calculate real time quantum correlation functions. By starting from the path integral expression for the correlated system–bath equilibrium state, we first derive a new set of equations that decouple the imaginary time propagation and the calculation of auxiliary density operators. The new equations, thus, greatly simplify the calculation of the equilibrium correlated initial state that is subsequently used in the real time propagation to obtain the quantum correlation functions. It is also shown that a periodic decomposition of the bath imaginary time correlation function is no longer necessary in the new equations such that different decomposition schemes can be explored. The applicability of the new method is demonstrated in several numerical examples, including the spin-Boson model, the Holstein model, and the double-well model for proton transfer reaction.
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Affiliation(s)
- Tao Xing
- Beijing National Laboratory for Molecular Sciences, State Key Laboratory for Structural Chemistry of Unstable and Stable Species, CAS Research/Education Center for Excellence in Molecular Sciences, Institute of Chemistry, Chinese Academy of Sciences, Zhongguancun, Beijing 100190, China and University of Chinese Academy of Sciences, Beijing 100049, China
| | - Tianchu Li
- Beijing National Laboratory for Molecular Sciences, State Key Laboratory for Structural Chemistry of Unstable and Stable Species, CAS Research/Education Center for Excellence in Molecular Sciences, Institute of Chemistry, Chinese Academy of Sciences, Zhongguancun, Beijing 100190, China and University of Chinese Academy of Sciences, Beijing 100049, China
| | - Yaming Yan
- Beijing National Laboratory for Molecular Sciences, State Key Laboratory for Structural Chemistry of Unstable and Stable Species, CAS Research/Education Center for Excellence in Molecular Sciences, Institute of Chemistry, Chinese Academy of Sciences, Zhongguancun, Beijing 100190, China and University of Chinese Academy of Sciences, Beijing 100049, China
| | - Shuming Bai
- Beijing National Laboratory for Molecular Sciences, State Key Laboratory for Structural Chemistry of Unstable and Stable Species, CAS Research/Education Center for Excellence in Molecular Sciences, Institute of Chemistry, Chinese Academy of Sciences, Zhongguancun, Beijing 100190, China and University of Chinese Academy of Sciences, Beijing 100049, China
| | - Qiang Shi
- Beijing National Laboratory for Molecular Sciences, State Key Laboratory for Structural Chemistry of Unstable and Stable Species, CAS Research/Education Center for Excellence in Molecular Sciences, Institute of Chemistry, Chinese Academy of Sciences, Zhongguancun, Beijing 100190, China and University of Chinese Academy of Sciences, Beijing 100049, China
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8
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Chen ZH, Wang Y, Xu RX, Yan Y. Quantum dissipation with nonlinear environment couplings: Stochastic fields dressed dissipaton equation of motion approach. J Chem Phys 2021; 155:174111. [PMID: 34742182 DOI: 10.1063/5.0067880] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
Accurate and efficient simulation on quantum dissipation with nonlinear environment couplings remains a challenging task nowadays. In this work, we propose to incorporate the stochastic fields, which resolve just the nonlinear environment coupling terms, into the dissipaton-equation-of-motion (DEOM) construction. The stochastic fields are introduced via the Hubbard-Stratonovich transformation. After the transformation, the resulted stochastic-fields-dressed (SFD) total Hamiltonian contains only linear environment coupling terms. On the basis of that, SFD-DEOM can then be constructed. The resultant SFD-DEOM, together with the ensemble average over the stochastic fields, constitutes an exact and nonperturbative approach to quantum dissipation under nonlinear environment couplings. It is also of relatively high efficiency and stability due to the fact that only nonlinear environment coupling terms are dealt with stochastic fields, while linear couplings are still treated as the usual DEOM. Numerical performance and demonstrations are presented with a two-state model system.
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Affiliation(s)
- Zi-Hao Chen
- Department of Chemical Physics, University of Science and Technology of China, Hefei, Anhui 230026, China
| | - Yao Wang
- Hefei National Laboratory for Physical Sciences at the Microscale, University of Science and Technology of China, Hefei, Anhui 230026, China
| | - Rui-Xue Xu
- Department of Chemical Physics, University of Science and Technology of China, Hefei, Anhui 230026, China
| | - YiJing Yan
- Department of Chemical Physics, University of Science and Technology of China, Hefei, Anhui 230026, China
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9
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Cui X, Yan Y, Wei J. Role of Pigment-Protein Coupling in the Energy Transport Dynamics in the Fenna-Matthews-Olson Complex. J Phys Chem B 2021; 125:11884-11892. [PMID: 34669415 DOI: 10.1021/acs.jpcb.1c06844] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
The role of pigment-protein coupling in the dynamics of photosynthetic energy transport in chromophoric complexes has not been fully understood. The excitation energy transfer in the photosynthetic system is tremendously efficient. In particular, we investigate the excitation energy transport in the Fenna-Matthews-Olson (FMO) complex. The exciton dynamics and excitation energy transfer (EET) depend on the interaction between the excited chromophores and their environment. Most theoretical models believe that all bacteriochlorophyll-a (BChla) sites are surrounded by the same local protein environment, which is contradicted by the structural analysis of the FMO complex. Based on different values of pigment-protein coupling for different sites, measured in the adiabatic limit, we have theoretically investigated the effect of the heterogeneous local protein environment on the EET process. By the realistic and site-dependent model of the system-bath couplings, the results show that this interaction may have a critical value for the coherent energy-transfer process. Furthermore, we verify that the two transport pathways are coherent and stable to the important parameter reorganization energy of environmental interactions. The quantum dynamical simulations show that the correlation fluctuation keeps the oscillation of the coherent excitation on a long timescale. In addition, due to the inhomogeneous pigment-protein coupling, different BChl sites have asymmetric excitation oscillation timescales.
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Affiliation(s)
- XueYan Cui
- Department of Physics & Beijing Key Laboratory of Optoelectronic Functional Materials and Micro-nano Devices, Renmin University of China, Beijing 100872, China
| | - YiJing Yan
- Department of Chemical Physics & Hefei National Laboratory for Physical Sciences at the Microscale, University of Science and Technology of China, Hefei, Anhui 230026, China
| | - JianHua Wei
- Department of Physics & Beijing Key Laboratory of Optoelectronic Functional Materials and Micro-nano Devices, Renmin University of China, Beijing 100872, China
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10
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Huai Z, Tong Z, Mei Y, Mo Y. Theoretical Study of the Spectral Differences of the Fenna-Matthews-Olson Protein from Different Species and Their Mutants. J Phys Chem B 2021; 125:8313-8324. [PMID: 34314175 DOI: 10.1021/acs.jpcb.1c01686] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
The structural basis for the spectral differences between the Fenna-Matthews-Olson (FMO) proteins from Chlorobaculum tepidum (C. tepidum) and Prosthecochloris aestuarii 2K (P. aestuarii) is yet to be fully understood. Mutation-induced perturbation to the exciton structure and the optical spectra of the complex provide a suitable means to investigate the critical role played by the protein scaffold. In this work, we have performed quantum-mechanics/molecular-mechanics calculations over the molecular dynamics simulation trajectories with the polarized protein-specific charge scheme for both wild-type FMOs and two mutants. Our result reveals that a single-point mutation in the vicinity of BChl 6, namely, W183F of C. tepidum, significantly affects the absorption spectrum, resulting in a switch of the absorption spectrum from type 2, for which the 806 nm band is more pronounced than the 815 nm band, to type 1, for which the 815 nm band is pronounced. Our observations agree with the single-point mutation experiments reported by Saer et al. (Biochim. Biophys. Acta, Bioenerg. 2017, 1858, 288-296) and Khmelnitskiy et al. (J. Phys. Chem. Lett. 2018, 9, 3378-3386). In contrast, the absorption spectrum of the P. aestuarii experiences the opposite transition (from type 1 to type 2) upon the same mutation. Furthermore, by comparing the contributions of individual pigments to the spectra in the wild type and its mutant, we find that a single-point mutation near BChl 6 not only induces changes in excitation energy of BChl 6 per se but also affects the excitonic structures of the neighboring BChls 5 and 7 through strong interpigment electronic couplings, resulting in a significant change in the absorption spectra.
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Affiliation(s)
- Zhe Huai
- State Key Laboratory of Precision Spectroscopy, School of Physics and Electronic Science, East China Normal University, Shanghai 200062, China
| | - Zhengqing Tong
- State Key Laboratory of Precision Spectroscopy, School of Physics and Electronic Science, East China Normal University, Shanghai 200062, China
| | - Ye Mei
- State Key Laboratory of Precision Spectroscopy, School of Physics and Electronic Science, East China Normal University, Shanghai 200062, China.,NYU-ECNU Center for Computational Chemistry at NYU Shanghai, Shanghai 200062, China.,Collaborative Innovation Center of Extreme Optics, Shanxi University, Taiyuan, Shanxi 030006, China
| | - Yan Mo
- State Key Laboratory of Precision Spectroscopy, School of Physics and Electronic Science, East China Normal University, Shanghai 200062, China.,NYU-ECNU Center for Computational Chemistry at NYU Shanghai, Shanghai 200062, China.,Collaborative Innovation Center of Extreme Optics, Shanxi University, Taiyuan, Shanxi 030006, China
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11
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Chen ZH, Wang Y, Xu RX, Yan Y. Correlated vibration-solvent effects on the non-Condon exciton spectroscopy. J Chem Phys 2021; 154:244105. [PMID: 34241336 DOI: 10.1063/5.0053169] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
Excitation energy transfer is crucially involved in a variety of systems. During the process, the non-Condon vibronic coupling and the surrounding solvent interaction may synergetically play important roles. In this work, we study the correlated vibration-solvent influences on the non-Condon exciton spectroscopy. Statistical analysis is elaborated for the overall vibration-plus-solvent environmental effects. Analytic solutions are derived for the linear absorption of monomer systems. General simulations are accurately carried out via the dissipaton-equation-of-motion approach. The resulted spectra in either the linear absorption or strong field regime clearly demonstrate the coherence enhancement due to the synergetic vibration-solvent correlation.
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Affiliation(s)
- Zi-Hao Chen
- Department of Chemical Physics, University of Science and Technology of China, Hefei, Anhui 230026, China
| | - Yao Wang
- Hefei National Laboratory for Physical Sciences at the Microscale and iChEM and Synergetic Innovation Center of Quantum Information and Quantum Physics, University of Science and Technology of China, Hefei, Anhui 230026, China
| | - Rui-Xue Xu
- Department of Chemical Physics, University of Science and Technology of China, Hefei, Anhui 230026, China
| | - YiJing Yan
- Department of Chemical Physics, University of Science and Technology of China, Hefei, Anhui 230026, China
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12
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Gong H, Wang Y, Zhang HD, Qiao Q, Xu RX, Zheng X, Yan Y. Equilibrium and transient thermodynamics: A unified dissipaton-space approach. J Chem Phys 2020; 153:154111. [PMID: 33092348 DOI: 10.1063/5.0021203] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
This work presents a unified dissipaton-equation-of-motion (DEOM) theory and its evaluations on the Helmholtz free energy change due to the isotherm mixing of two isolated subsystems. One is a local impurity, and the other is a nonlocal Gaussian bath. DEOM constitutes a fundamental theory for such open quantum mixtures. To complete the theory, we also construct the imaginary-time DEOM formalism via an analytical continuation of dissipaton algebra, which would be limited to equilibrium thermodynamics. On the other hand, the real-time DEOM deals with both equilibrium structural and nonequilibrium dynamic properties. Its combination with the thermodynamic integral formalism would be a viable and accurate means to both equilibrium and transient thermodynamics. As illustrations, we report the numerical results on a spin-boson system, with elaborations on the underlying anharmonic features, the thermodynamic entropy vs the von Neumann entropy, and an indication of "solvent-cage" formation. Beside the required asymptotic equilibrium properties, the proposed transient thermodynamics also supports the basic spontaneity criterion.
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Affiliation(s)
- Hong Gong
- Department of Chemical Physics, University of Science and Technology of China, Hefei, Anhui 230026, China
| | - Yao Wang
- Hefei National Laboratory for Physical Sciences at the Microscale and iChEM and Synergetic Innovation Center of Quantum Information and Quantum Physics, University of Science and Technology of China, Hefei, Anhui 230026, China
| | - Hou-Dao Zhang
- Department of Chemical Physics, University of Science and Technology of China, Hefei, Anhui 230026, China
| | - Qin Qiao
- Digital Medical Research Center of School of Basic Medical Sciences, Fudan University, Shanghai 200032, China
| | - Rui-Xue Xu
- Department of Chemical Physics, University of Science and Technology of China, Hefei, Anhui 230026, China
| | - Xiao Zheng
- Department of Chemical Physics, University of Science and Technology of China, Hefei, Anhui 230026, China
| | - YiJing Yan
- Department of Chemical Physics, University of Science and Technology of China, Hefei, Anhui 230026, China
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13
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Tong Z, Huai Z, Mei Y, Mo Y. Reproducing the low-temperature excitation energy transfer dynamics of phycoerythrin 545 light-harvesting complex with a structure-based model Hamiltonian. J Chem Phys 2020; 152:135101. [DOI: 10.1063/1.5135999] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022] Open
Affiliation(s)
- Zhengqing Tong
- State Key Laboratory of Precision Spectroscopy, School of Physics and Electronic Science, East China Normal University, Shanghai 200062, China
| | - Zhe Huai
- State Key Laboratory of Precision Spectroscopy, School of Physics and Electronic Science, East China Normal University, Shanghai 200062, China
| | - Ye Mei
- State Key Laboratory of Precision Spectroscopy, School of Physics and Electronic Science, East China Normal University, Shanghai 200062, China
- NYU-ECNU Center for Computational Chemistry at NYU Shanghai, Shanghai 200062, China
- Collaborative Innovation Center of Extreme Optics, Shanxi University, Taiyuan, Shanxi 030006, China
| | - Yan Mo
- State Key Laboratory of Precision Spectroscopy, School of Physics and Electronic Science, East China Normal University, Shanghai 200062, China
- NYU-ECNU Center for Computational Chemistry at NYU Shanghai, Shanghai 200062, China
- Collaborative Innovation Center of Extreme Optics, Shanxi University, Taiyuan, Shanxi 030006, China
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14
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Cui X, Yan Y, Wei J. Theoretical Study on the Effect of Environment on Excitation Energy Transfer in Photosynthetic Light-Harvesting Systems. J Phys Chem B 2020; 124:2354-2362. [PMID: 32130013 DOI: 10.1021/acs.jpcb.0c00266] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
In recent years, two-dimensional (2D) electronic spectroscopy experiments prove that the excitation energy transfer (EET) in photosynthetic light-harvesting systems presents long-lived electronic quantum beating signals. After being discovered in the light-harvesting system, the quantum coherence effect has aroused widespread discussion. To illustrate the EET process in the Fenna-Matthews-Olson (FMO) and phycocyanin 645 (PC645) complex, the local protein environment is often thought to be the same; however, this is ambivalent to the practical structural analysis of the light-harvesting complex. By adopting the dissipaton equation of motion theory, we present the effect of a heterogeneous protein environment on the energy transfer process with accurate numerical results. We demonstrate that the energy transfer process relies on the local heterogeneous environment for the FMO complex. A similar good agreement is found for the PC645 complex. Furthermore, we discuss the optimal value of different chromophores in the excitation energy transfer process by controlling the environmental characteristics.
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Affiliation(s)
- XueYan Cui
- Department of Physics & Beijing Key Laboratory of Optoelectronic Functional Materials and Micro-nano Devices, Renmin University of China, Beijing 100872, China
| | - YiJing Yan
- Department of Chemical Physics & Hefei National Laboratory for Physical Sciences at the Microscale, University of Science and Technology of China, Hefei, Anhui 230026, China
| | - JianHua Wei
- Department of Physics & Beijing Key Laboratory of Optoelectronic Functional Materials and Micro-nano Devices, Renmin University of China, Beijing 100872, China
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15
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Du PL, Wang Y, Xu RX, Zhang HD, Yan Y. System–bath entanglement theorem with Gaussian environments. J Chem Phys 2020; 152:034102. [DOI: 10.1063/1.5134745] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/27/2022] Open
Affiliation(s)
- Peng-Li Du
- Hefei National Laboratory for Physical Sciences at the Microscale and Department of Chemical Physics and Synergetic Innovation Center of Quantum Information and Quantum Physics and Collaborative Innovation Center of Chemistry for Energy Materials (iChEM), University of Science and Technology of China, Hefei, Anhui 230026, China
| | - Yao Wang
- Hefei National Laboratory for Physical Sciences at the Microscale and Department of Chemical Physics and Synergetic Innovation Center of Quantum Information and Quantum Physics and Collaborative Innovation Center of Chemistry for Energy Materials (iChEM), University of Science and Technology of China, Hefei, Anhui 230026, China
| | - Rui-Xue Xu
- Hefei National Laboratory for Physical Sciences at the Microscale and Department of Chemical Physics and Synergetic Innovation Center of Quantum Information and Quantum Physics and Collaborative Innovation Center of Chemistry for Energy Materials (iChEM), University of Science and Technology of China, Hefei, Anhui 230026, China
| | - Hou-Dao Zhang
- Hefei National Laboratory for Physical Sciences at the Microscale and Department of Chemical Physics and Synergetic Innovation Center of Quantum Information and Quantum Physics and Collaborative Innovation Center of Chemistry for Energy Materials (iChEM), University of Science and Technology of China, Hefei, Anhui 230026, China
| | - YiJing Yan
- Hefei National Laboratory for Physical Sciences at the Microscale and Department of Chemical Physics and Synergetic Innovation Center of Quantum Information and Quantum Physics and Collaborative Innovation Center of Chemistry for Energy Materials (iChEM), University of Science and Technology of China, Hefei, Anhui 230026, China
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17
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Xu RX, Tao XC, Wang Y, Liu Y, Zhang HD, Yan Y. A hierarchical-equation-of-motion based semiclassical approach to quantum dissipation. CHINESE J CHEM PHYS 2018. [DOI: 10.1063/1674-0068/31/cjcp1807172] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022]
Affiliation(s)
- Rui-xue Xu
- Hefei National Laboratory for Physical Sciences at the Microscale and Department of Chemical Physics and Synergetic Innovation Center of Quantum Information and Quantum Physics and Collaborative Innovation Center of Chemistry for Energy Materials (iChEM), University of Science and Technology of China, Hefei 230026, China
| | - Xue-cheng Tao
- Hefei National Laboratory for Physical Sciences at the Microscale and Department of Chemical Physics and Synergetic Innovation Center of Quantum Information and Quantum Physics and Collaborative Innovation Center of Chemistry for Energy Materials (iChEM), University of Science and Technology of China, Hefei 230026, China
| | - Yao Wang
- Hefei National Laboratory for Physical Sciences at the Microscale and Department of Chemical Physics and Synergetic Innovation Center of Quantum Information and Quantum Physics and Collaborative Innovation Center of Chemistry for Energy Materials (iChEM), University of Science and Technology of China, Hefei 230026, China
| | - Yang Liu
- Hefei National Laboratory for Physical Sciences at the Microscale and Department of Chemical Physics and Synergetic Innovation Center of Quantum Information and Quantum Physics and Collaborative Innovation Center of Chemistry for Energy Materials (iChEM), University of Science and Technology of China, Hefei 230026, China
| | - Hou-dao Zhang
- Hefei National Laboratory for Physical Sciences at the Microscale and Department of Chemical Physics and Synergetic Innovation Center of Quantum Information and Quantum Physics and Collaborative Innovation Center of Chemistry for Energy Materials (iChEM), University of Science and Technology of China, Hefei 230026, China
| | - YiJing Yan
- Hefei National Laboratory for Physical Sciences at the Microscale and Department of Chemical Physics and Synergetic Innovation Center of Quantum Information and Quantum Physics and Collaborative Innovation Center of Chemistry for Energy Materials (iChEM), University of Science and Technology of China, Hefei 230026, China
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18
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Hsieh CY, Cao J. A unified stochastic formulation of dissipative quantum dynamics. II. Beyond linear response of spin baths. J Chem Phys 2018; 148:014104. [PMID: 29306289 DOI: 10.1063/1.5018726] [Citation(s) in RCA: 32] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022] Open
Abstract
We use the "generalized hierarchical equation of motion" proposed in Paper I [C.-Y. Hsieh and J. Cao, J. Chem. Phys. 148, 014103 (2018)] to study decoherence in a system coupled to a spin bath. The present methodology allows a systematic incorporation of higher-order anharmonic effects of the bath in dynamical calculations. We investigate the leading order corrections to the linear response approximations for spin bath models. Two kinds of spin-based environments are considered: (1) a bath of spins discretized from a continuous spectral density and (2) a bath of localized nuclear or electron spins. The main difference resides with how the bath frequency and the system-bath coupling parameters are distributed in an environment. When discretized from a continuous spectral density, the system-bath coupling typically scales as ∼1/NB where NB is the number of bath spins. This scaling suppresses the non-Gaussian characteristics of the spin bath and justifies the linear response approximations in the thermodynamic limit. For the nuclear/electron spin bath models, system-bath couplings are directly deduced from spin-spin interactions and do not necessarily obey the 1/NB scaling. It is not always possible to justify the linear response approximations in this case. Furthermore, if the spin-spin Hamiltonian is highly symmetrical, there exist additional constraints that generate highly non-Markovian and persistent dynamics that is beyond the linear response treatments.
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Affiliation(s)
- Chang-Yu Hsieh
- Department of Chemistry, Massachusetts Institute of Technology, 77 Massachusetts Avenue, Cambridge, Massachusetts 02139, USA
| | - Jianshu Cao
- Department of Chemistry, Massachusetts Institute of Technology, 77 Massachusetts Avenue, Cambridge, Massachusetts 02139, USA
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19
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Xu RX, Liu Y, Zhang HD, Yan Y. Theories of quantum dissipation and nonlinear coupling bath descriptors. J Chem Phys 2018; 148:114103. [PMID: 29566509 DOI: 10.1063/1.4991779] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
The quest of an exact and nonperturbative treatment of quantum dissipation in nonlinear coupling environments remains in general an intractable task. In this work, we address the key issues toward the solutions to the lowest nonlinear environment, a harmonic bath coupled both linearly and quadratically with an arbitrary system. To determine the bath coupling descriptors, we propose a physical mapping scheme, together with the prescription reference invariance requirement. We then adopt a recently developed dissipaton equation of motion theory [R. X. Xu et al., Chin. J. Chem. Phys. 30, 395 (2017)], with the underlying statistical quasi-particle ("dissipaton") algebra being extended to the quadratic bath coupling. We report the numerical results on a two-level system dynamics and absorption and emission line shapes.
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Affiliation(s)
- Rui-Xue Xu
- Hefei National Laboratory for Physical Sciences at the Microscale and Department of Chemical Physics and Synergetic Innovation Center of Quantum Information and Quantum Physics and iChEM, University of Science and Technology of China, Hefei, Anhui 230026, China
| | - Yang Liu
- Hefei National Laboratory for Physical Sciences at the Microscale and Department of Chemical Physics and Synergetic Innovation Center of Quantum Information and Quantum Physics and iChEM, University of Science and Technology of China, Hefei, Anhui 230026, China
| | - Hou-Dao Zhang
- Hefei National Laboratory for Physical Sciences at the Microscale and Department of Chemical Physics and Synergetic Innovation Center of Quantum Information and Quantum Physics and iChEM, University of Science and Technology of China, Hefei, Anhui 230026, China
| | - YiJing Yan
- Hefei National Laboratory for Physical Sciences at the Microscale and Department of Chemical Physics and Synergetic Innovation Center of Quantum Information and Quantum Physics and iChEM, University of Science and Technology of China, Hefei, Anhui 230026, China
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20
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Liu Y, Xu RX, Zhang HD, Yan Y. Dissipaton equation of motion theory versus Fokker-Planck quantum master equation. CHINESE J CHEM PHYS 2018. [DOI: 10.1063/1674-0068/31/cjcp1804083] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022]
Affiliation(s)
- Yang Liu
- Hefei National Laboratory for Physical Sciences at the Microscale and Department of Chemical Physics and Collaborative Innovation Center of Chemistry for Energy Materials (iChEM), University of Science and Technology of China, Hefei 230026, China
| | - Rui-xue Xu
- Hefei National Laboratory for Physical Sciences at the Microscale and Department of Chemical Physics and Collaborative Innovation Center of Chemistry for Energy Materials (iChEM), University of Science and Technology of China, Hefei 230026, China
| | - Hou-dao Zhang
- Hefei National Laboratory for Physical Sciences at the Microscale and Department of Chemical Physics and Collaborative Innovation Center of Chemistry for Energy Materials (iChEM), University of Science and Technology of China, Hefei 230026, China
| | - YiJing Yan
- Hefei National Laboratory for Physical Sciences at the Microscale and Department of Chemical Physics and Collaborative Innovation Center of Chemistry for Energy Materials (iChEM), University of Science and Technology of China, Hefei 230026, China
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21
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Affiliation(s)
- Hou-Dao Zhang
- Department of Chemical Physics and Hefei National Laboratory for Physical Sciences at the Microscale, University of Science and Technology of China, Hefei, Anhui 230026, China
| | - Rui-Xue Xu
- Department of Chemical Physics and Hefei National Laboratory for Physical Sciences at the Microscale, University of Science and Technology of China, Hefei, Anhui 230026, China
- Synergetic Innovation Center of Quantum Information and Quantum Physics, University of Science and Technology of China, Hefei, Anhui 230026, China
| | - Xiao Zheng
- Department of Chemical Physics and Hefei National Laboratory for Physical Sciences at the Microscale, University of Science and Technology of China, Hefei, Anhui 230026, China
- Synergetic Innovation Center of Quantum Information and Quantum Physics, University of Science and Technology of China, Hefei, Anhui 230026, China
| | - YiJing Yan
- Department of Chemical Physics and Hefei National Laboratory for Physical Sciences at the Microscale, University of Science and Technology of China, Hefei, Anhui 230026, China
- iChEM (Collaborative Innovation Center of Chemistry for Energy Materials), University of Science and Technology of China, Hefei, Anhui 230026, China
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22
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Xu RX, Liu Y, Zhang HD, Yan Y. Theory of Quantum Dissipation in a Class of Non-Gaussian Environments. CHINESE J CHEM PHYS 2017. [DOI: 10.1063/1674-0068/30/cjcp1706123] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022]
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23
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Zhang HD, Qiao Q, Xu RX, Zheng X, Yan Y. Efficient steady-state solver for hierarchical quantum master equations. J Chem Phys 2017; 147:044105. [DOI: 10.1063/1.4995424] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Affiliation(s)
- Hou-Dao Zhang
- Hefei National Laboratory for Physical Sciences at the Microscale and Department of Chemical Physics and iChEM and Synergetic Innovation Center of Quantum Information and Quantum Physics, University of Science and Technology of China, Hefei, Anhui 230026, China
| | - Qin Qiao
- Discipline of Neuroscience, Department of Anatomy, Histology and Embryology, Shanghai Jiao Tong University School of Medicine, Shanghai 200025, China
| | - Rui-Xue Xu
- Hefei National Laboratory for Physical Sciences at the Microscale and Department of Chemical Physics and iChEM and Synergetic Innovation Center of Quantum Information and Quantum Physics, University of Science and Technology of China, Hefei, Anhui 230026, China
| | - Xiao Zheng
- Hefei National Laboratory for Physical Sciences at the Microscale and Department of Chemical Physics and iChEM and Synergetic Innovation Center of Quantum Information and Quantum Physics, University of Science and Technology of China, Hefei, Anhui 230026, China
| | - YiJing Yan
- Hefei National Laboratory for Physical Sciences at the Microscale and Department of Chemical Physics and iChEM and Synergetic Innovation Center of Quantum Information and Quantum Physics, University of Science and Technology of China, Hefei, Anhui 230026, China
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Zhang HD, Qiao Q, Xu RX, Yan Y. Effects of Herzberg–Teller vibronic coupling on coherent excitation energy transfer. J Chem Phys 2016; 145:204109. [DOI: 10.1063/1.4968031] [Citation(s) in RCA: 29] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Affiliation(s)
- Hou-Dao Zhang
- Hefei National Laboratory for Physical Sciences at the Microscale and Department of Chemical Physics and Synergetic Innovation Center of Quantum Information and Quantum Physics and iChEM, University of Science and Technology of China, Hefei, Anhui 230026, China
| | - Qin Qiao
- Discipline of Neuroscience and Department of Anatomy, Histology and Embryology, Shanghai Jiao Tong University School of Medicine, Shanghai 200025, China
| | - Rui-Xue Xu
- Discipline of Neuroscience and Department of Anatomy, Histology and Embryology, Shanghai Jiao Tong University School of Medicine, Shanghai 200025, China
| | - YiJing Yan
- Hefei National Laboratory for Physical Sciences at the Microscale and Department of Chemical Physics and Synergetic Innovation Center of Quantum Information and Quantum Physics and iChEM, University of Science and Technology of China, Hefei, Anhui 230026, China
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25
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Zhang HD, Yan Y. Onsets of hierarchy truncation and self-consistent Born approximation with quantum mechanics prescriptions invariance. J Chem Phys 2016; 143:214112. [PMID: 26646874 DOI: 10.1063/1.4936831] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/24/2023] Open
Abstract
The issue of efficient hierarchy truncation is related to many approximate theories. In this paper, we revisit this issue from both the numerical efficiency and quantum mechanics prescription invariance aspects. The latter requires that the truncation approximation made in Schrödinger picture, such as the quantum master equations and their self-consistent-Born-approximation improvements, should be transferable to their Heisenberg-picture correspondences, without further approximations. We address this issue with the dissipaton equation of motion (DEOM), which is a unique theory for the dynamics of not only reduced systems but also hybrid bath environments. We also highlight the DEOM theory is not only about how its dynamical variables evolve in time, but also the underlying dissipaton algebra. We demonstrate this unique feature of DEOM with model systems and report some intriguing nonlinear Fano interferences characteristics that are experimentally measurable.
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Affiliation(s)
- Hou-Dao Zhang
- Department of Chemistry, Hong Kong University of Science and Technology, Hong Kong, China
| | - YiJing Yan
- Department of Chemistry, Hong Kong University of Science and Technology, Hong Kong, China
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Zhang HD, Yan Y. Kinetic Rate Kernels via Hierarchical Liouville–Space Projection Operator Approach. J Phys Chem A 2016; 120:3241-5. [DOI: 10.1021/acs.jpca.5b11731] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Hou-Dao Zhang
- Department
of Chemistry, Hong Kong University of Science and Technology, Hong Kong, China
| | - YiJing Yan
- Department
of Chemistry, Hong Kong University of Science and Technology, Hong Kong, China
- Hefei
National Laboratory for Physical Sciences at the Microscale, iChEM (Collaborative Innovation Center of Chemistry for
Energy Materials), University of Science and Technology of China, Hefei 230026, China
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27
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Xu RX, Zhang HD, Zheng X, Yan Y. Dissipaton equation of motion for system-and-bath interference dynamics. Sci China Chem 2015. [DOI: 10.1007/s11426-015-5499-2] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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28
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Kong Y, Zhang HD, Wang YM, Xu RX, Yan Y. Dissipaton Equation of Motion with Controlled Truncation. CHINESE J CHEM PHYS 2015. [DOI: 10.1063/1674-0068/28/cjcp1506114] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022]
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29
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Jin J, Wang S, Zheng X, Yan Y. Current noise spectra and mechanisms with dissipaton equation of motion theory. J Chem Phys 2015; 142:234108. [DOI: 10.1063/1.4922712] [Citation(s) in RCA: 33] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Affiliation(s)
- Jinshuang Jin
- Department of Physics, Hangzhou Normal University, Hangzhou, Zhejiang 310036, China
| | - Shikuan Wang
- Department of Physics, Hangzhou Dianzi University, Hangzhou 310018, China
| | - Xiao Zheng
- Hefei National Laboratory for Physical Sciences at the Microscale and Synergetic Innovation Center of Quantum Information and Quantum Physics, University of Science and Technology of China, Hefei, Anhui 230026, China
| | - YiJing Yan
- Hefei National Laboratory for Physical Sciences at the Microscale and iChEM, University of Science and Technology of China, Hefei, Anhui 230026, China
- Department of Chemistry, Hong Kong University of Science and Technology, Hong Kong, China
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30
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Hou D, Wang S, Wang R, Ye L, Xu R, Zheng X, Yan Y. Improving the efficiency of hierarchical equations of motion approach and application to coherent dynamics in Aharonov–Bohm interferometers. J Chem Phys 2015; 142:104112. [DOI: 10.1063/1.4914514] [Citation(s) in RCA: 33] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022] Open
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