Excitation Energy Transfer Rate Research Articles

Architecture of symbiotic dinoflagellate photosystem I–light-harvesting supercomplex in Symbiodinium

Symbiodinium are the photosynthetic endosymbionts for corals and play a vital role in supplying their coral hosts with photosynthetic products, forming the nutritional foundation for high-yield coral reef ecosystems. Here, we determine the cryo-electron microscopy structure of Symbiodinium photosystem I (PSI) supercomplex with a PSI core composed of 13 subunits including 2 previously unidentified subunits, PsaT and PsaU, as well as 13 peridinin-Chl a/c-binding light-harvesting antenna proteins (AcpPCIs). The PSI–AcpPCI supercomplex exhibits distinctive structural features compared to their red lineage counterparts, including extended termini of PsaD/E/I/J/L/M/R and AcpPCI-1/3/5/7/8/11 subunits, conformational changes in the surface loops of PsaA and PsaB subunits, facilitating the association between the PSI core and peripheral antennae. Structural analysis and computational calculation of excitation energy transfer rates unravel specific pigment networks in Symbiodinium PSI–AcpPCI for efficient excitation energy transfer. Overall, this study provides a structural basis for deciphering the mechanisms governing light harvesting and energy transfer in Symbiodinium PSI–AcpPCI supercomplexes adapted to their symbiotic ecosystem, as well as insights into the evolutionary diversity of PSI–LHCI among various photosynthetic organisms.

Carotenoid-Mediated Long-Range Energy Transfer in the Light Harvesting-Reaction Center Complex from Photosynthetic Bacterium Roseiflexus castenholzii.

The light harvesting-reaction center complex (LH-RC) of Roseiflexus castenholzii binds bacteriochlorophylls a (BChls a), B800 and B880, absorbing around 800 and 880 nm, respectively. We comparatively investigated the interband excitation energy transfer (EET) dynamics of the wild-type LH-RC (wt-LH-RC) of Rfl. castenholzii and its carotenoid (Car)-less mutant (m-LH-RC) and found that Car can boost the B800 → B880 EET rate from (2.43 ps)-1 to (1.75 ps)-1, accounting for 38% acceleration of the EET process. Interestingly, photoexcitation of wt-LH-RC at 800 nm induced pronounced excitation dynamics of Car despite the insufficient photon energy for direct Car excitation, a phenomenon which is attributed to the BChl-Car exciplex 1[B800(↑↑)···Car(↓↓)]*. Such an exciplex is suggested to play an essential role in promoting the B800 → B880 EET process, as corroborated by the recently reported cryo-EM structures of wt-LH-RC and m-LH-RC. The mechanism of Car-mediated EET will be helpful to deepen the understanding of the role of Car in bacterial photosynthesis.

Conversion of B800 Bacteriochlorophyll a to 3-Acetyl Chlorophyll a in the Light-Harvesting Complex 3 by In Situ Oxidation.

The spectral features of energy donors and acceptors and the relationship between them in photosynthetic light-harvesting proteins are crucial for photofunctions of these proteins. Engineering energy donors and acceptors in light-harvesting proteins affords the means to increase our understanding of their photofunctional mechanisms. Herein, we demonstrate the conversion of energy-donating B800 bacteriochlorophyll (BChl) a to 3-acetyl chlorophyll (AcChl) a in light-harvesting complex 3 (LH3) from Rhodoblastus acidophilus by in situ oxidation with 2,3-dichloro-5,6-dicyano-1,4-benzoquinone. AcChl a in the B800 site exhibited a Qy band that was 111 nm blue-shifted with respect to BChl a in oxidized LH3. The structure of LH3 was barely influenced by the oxidation process, based on circular dichroism spectroscopy and size-exclusion chromatography evidence. In oxidized LH3, AcChl a transferred excitation energy to B820 BChl a, but the rate of excitation energy transfer (EET) was lower than in native LH3. The intracomplex EET in oxidized LH3 was slightly faster than in oxidized light-harvesting complex 2 (LH2). This difference is rationalized by an increase in overlap of the luminescence band of AcChl a with the long tail of the B820 absorption band in oxidized LH3 compared with that of the B850 band in oxidized LH2.

An efficient time-domain implementation of the multichromophoric Förster resonant energy transfer method.

The excitation energy transfer (EET) process for photosynthetic antenna complexes consisting of subunits, each comprised of multiple chromophores, remains challenging to describe. The multichromophoric Förster resonance energy transfer theory is a popular method to describe the EET process in such systems. This paper presents a new time-domain method for calculating energy transfer based on the combination of multichromophoric Förster resonance energy transfer theory and the Numerical Integration of the Schrödinger Equation method. After validating the method on simple model systems, we apply it to the Light-Harvesting antenna 2 (LH2) complex, a light harvesting antenna found in purple bacteria. We use a simple model combining the overdamped Brownian oscillators to describe the dynamic disorder originating from the environmental fluctuations and the transition charge from the electrostatic potential coupling model to determine the interactions between chromophores. We demonstrate that with this model, both the calculated spectra and the EET rates between the two rings within the LH2 complex agree well with experimental results. We further find that the transfer between the strongly coupled rings of neighboring LH2 complexes can also be well described with our method. We conclude that our new method accurately describes the EET rate for biologically relevant multichromophoric systems, which are similar to the LH2 complex. Computationally, the new method is very tractable, especially for slow processes. We foresee that the method can be applied to efficiently calculate transfer in artificial systems as well and may pave the way for calculating multidimensional spectra of extensive multichromophoric systems in the future.

Energy Transfer Mechanism and Quantitative Modeling of Rate from an Antenna to a Lanthanide Ion.

The excitation energy transfer (ET) pathway and mechanism from an organic antenna to a lanthanide ion has been the subject of discussion for many decades. In the case of europium (Eu3+), it has been suggested that the transfer originates from the ligand singlet state or a triplet state. Taking the lanthanide complex Eu(TTA)3(H2O)2 as an example, we have investigated the spectra and luminescence kinetics, mainly at room temperature and 77 K, to acquire the necessary experimental data. We put forward an experimental and theoretical approach to measure the energy transfer rates from the antenna to different Eu3+ levels using the Dexter formulation. We find that transfer from the ligand singlet state to Eu3+ may account for the ET pathway, by combined electric dipole–electric dipole (ED–ED) and ED-electric quadrupole (EQ) mechanisms. The contributions from the triplet state by these mechanisms are very small. An independent systems rate equation approach can effectively model the experimental kinetics results. The model utilizes the cooperative processes that take place on the metal ion and ligand and considers S0, S1, and T1 ligand states in addition to 7F0,1, 5D0, 5D1, and 5DJ (=5L6, 5D3, 5D2 combined) Eu3+ states. The triplet exchange ET rate is estimated to be of the order 107 s–1. The observation of a nanosecond risetime for the Eu3+ 5D1 level does not enable the assignment of the ET route or the mechanism. Furthermore, the 5D1 risetime may be contributed by several processes. Observation of its temperature dependence and also that of the ground-state population can supply useful information concerning the mechanism because the change in metal-ion internal conversion rate has a greater effect than changes in singlet or triplet nonradiative rates. A critical comparison is included for the model of Malta employed in the online software LUMPAC and JOYSpectra. The theoretical treatment of the exchange mechanism and its contribution are now being considered.

Effect of Diffusion on Photo-Induced Excited-State Energy Transfer between Fluorescent Semiconducting Molecules: Tris-(8-hydroxyquinoline) Aluminum and 6,13-Bis (Triisopropylsilylethynyl) Pentacene

In the present work, the effect of diffusion on photo-induced excitation energy transfer between fluorescent organic semiconducting molecules tris-(8-hydroxyquinoline) aluminum (AlQ3, n-type donor) and 6,13-bis (triisopropylsilylethynyl) pentacene (TIPS-P, p-type acceptor) at a concentration range of 10–4 to 10–6 M in chloroform solution was studied by steady-state and time-domain fluorescence measurements. The donor–donor interaction strength is significantly weaker than the donor–acceptor strength (the ratio of donor–donor to donor–acceptor interaction strengths is 1.55 × 103) in chloroform solution. Considerable overlap between donor emission and acceptor absorption and high interaction parameters favors direct Förster energy transfer and exciplex (D*A) formation. Excitation energy migration does not take place between donor molecules. However, material diffusion appears to influence the donor decay dynamics by forming charge-transfer exciplex complexes and modulating the excitation energy transfer rate from the metal-to-ligand charge-transfer (MLCT) state of the donor to vibronic states of the acceptor at a low acceptor concentration. At high acceptor concentrations, energy transfer from the excited donor to acceptor occurs through the exchange mechanism along with Förster long-range dipole–dipole interactions, and the corresponding critical transfer distance is found to be ∼42 Å. A blue-shift in AlQ3 emission, a red-shift in the 0–0 vibronic peak of TIPS-P, and quenching of exciplex decay following Stern–Volmer quenching are observed, with the increase in acceptor concentration. No evidence of excimer formation is observed in acceptor molecules.

Ultrafast Energy Transfer Determines the Formation of Fluorescence in DOM and Humic Substances.

Humification is a ubiquitous natural process of biomass degradation that creates multicomponent systems of nonliving organic matter, including dissolved organic matter (DOM) and humic substances (HS) in water environments, soils, and organic rocks. Despite significant differences in molecular composition, the optical properties of DOM and HS are remarkably similar, and the reason for this remains largely unknown. Here, we employed fluorescence spectroscopy with (sub)picosecond resolution to elucidate the role of electronic interactions within DOM and HS. We revealed an ultrafast decay component with a characteristic decay lifetime of 0.5-1.5 ps and spectral diffusion originating from excitation energy transfer (EET) in the system. The rate of EET was positively correlated to the fraction of aromatic species and tightness of aromatic species packing. Diminishing the number of EET donor-acceptor pairs by reduction with NaBH4 (decrease of the acceptor number), decrease of pH (decrease of the electron-donating ability), or decrease of the average particle size by filtration (less donor-acceptor pairs within a particle) resulted in a lower impact of the ultrafast component on fluorescence decay. Our results uncover the role of electronic coupling among fluorophores in the formation of DOM and HS optical properties and provide a framework for studying photophysical processes in heterogeneous systems of natural fluorophores.

Energy Transfer Dynamics in Light-Harvesting Complex 2 Variants Containing Oxidized B800 Bacteriochlorophyll a.

Excitation energy transfer (EET) in light-harvesting proteins is vital for photosynthetic activities. The pigment compositions and their organizations in these proteins are responsible for the EET functions. Thus, changing the pigment compositions in light-harvesting proteins contributes to a better understanding of EET mechanisms. In this study, we investigated the EET dynamics of two light-harvesting complex 2 (LH2) variants, in which nine B800 bacteriochlorophyll (BChl) a pigments were entirely or half converted to 3-acetyl chlorophyll (AcChl) a. The AcChl a pigments showed a Qy band, which was blue-shifted by 107 nm from B800 BChl a in the two variants. EET from AcChl a to B850 BChl a was observed in both fully oxidized and half-oxidized LH2 variants, but the EET rates were lower than that from B800 to B850 BChl a. EET from AcChl a to the co-present B800 was barely detected in the half-oxidized LH2. The preferential EET from AcChl a to B850 instead of B800 was rationalized by little spectral overlap of AcChl a with B800 BChl a and the pigment geometry in the protein. The EET rate from B800 to B850 BChl a in the half-oxidized LH2 was analogous to that in native LH2, indicating that partial oxidation of B800 did not disturb the EET channel from the residual B800 to B850.

Mono- and Mixed Metal Complexes of Eu3+, Gd3+, and Tb3+ with a Diketone, Bearing Pyrazole Moiety and CHF2-Group: Structure, Color Tuning, and Kinetics of Energy Transfer between Lanthanide Ions.

Three novel lanthanide complexes with the ligand 4,4-difluoro-1-(1,5-dimethyl-1H-pyrazol-4-yl)butane-1,3-dione (HL), namely [LnL3(H2O)2], Ln = Eu, Gd and Tb, were synthesized, and, according to single-crystal X-ray diffraction, are isostructural. The photoluminescent properties of these compounds, as well as of three series of mixed metal complexes [EuxTb1-xL3(H2O)2] (EuxTb1-xL3), [EuxGd1-xL3(H2O)2] (EuxGd1-xL3), and [GdxTb1-xL3(H2O)2] (GdxTb1-xL3), were studied. The EuxTb1-xL3 complexes exhibit the simultaneous emission of both Eu3+ and Tb3+ ions, and the luminescence color rapidly changes from green to red upon introducing even a small fraction of Eu3+. A detailed analysis of the luminescence decay made it possible to determine the observed radiative lifetimes of Tb3+ and Eu3+ and estimate the rate of excitation energy transfer between these ions. For this task, a simple approximation function was proposed. The values of the energy transfer rates determined independently from the luminescence decays of terbium(III) and europium(III) ions show a good correlation.

Excitation Energy Transfer from Bacteriochlorophyll b in the B800 Site to B850 Bacteriochlorophyll a in Light-Harvesting Complex 2.

Control of the spectral overlap between energy donors and acceptors provides insight into excitation energy transfer (EET) mechanisms in photosynthetic light-harvesting proteins. Substitution of energy-donating B800 bacteriochlorophyll (BChl) a with other pigments in the light-harvesting complex 2 (LH2) of purple photosynthetic bacteria has been extensively performed; however, most studies on the B800 substitution have focused on the decrease in the spectral overlap integral with energy-accepting B850 BChl a by reconstitution of chlorophylls into the B800 site. Here, we reconstitute BChl b into the B800 site of the LH2 protein from Rhodoblastus acidophilus to increase the spectral overlap with B850 BChl a. BChl b in the B800 site had essentially the same hydrogen-bonding pattern as B800 BChl a, whereas it showed a red-shifted Qy absorption band at 831 nm. The EET rate from BChl b to B850 BChl a in the reconstituted LH2 was similar to that of native LH2 despite the red shift of the Qy band of the energy donor. These results demonstrate the importance of the contribution of the density of excitation states of the B850 circular assembly, which incorporates higher lying optically forbidden states, to intracomplex EET in LH2.

Periodic Fluorescence Variations of CdSe Quantum Dots Coupled to Aryleneethynylenes with Aggregation-Induced Emission.

CdSe nanocrystals and aggregates of an aryleneethynylene derivative are assembled into a hybrid thin film with dual fluorescence from both fluorophores. Under continuous excitation, the nanocrystals and the molecules exhibit anticorrelated fluorescence intensity variations, which become periodic at low temperature. We attribute this to a structure-dependent aggregation-induced emission of the aryleneethynylene derivative, which impacts the rate of excitation energy transfer between the molecules and nanocrystals. This work highlights that combining semiconductor nanocrystals with molecular aggregates, which exhibit aggregation-induced emission, can result in emerging optical properties.

Estimation of the relative contributions to the electronic energy transfer rates based on Förster theory: The case of C-phycocyanin chromophores.

In the present study, we provide a reformulation of the theory originally proposed by Förster which allows for simple and convenient formulas useful to estimate the relative contributions of transition dipole moments of a donor and acceptor (chemical factors), their orientation factors (intermolecular structural factors), intermolecular center-to-center distances (intermolecular structural factors), spectral overlaps of absorption and emission spectra (photophysical factors), and refractive index (material factor) to the excitation energy transfer (EET) rate constant. To benchmark their validity, we focused on the EET occurring in C-phycocyanin (C-PC) chromophores. To this aim, we resorted to quantum chemistry calculations to get optimized molecular structures of the C-PC chromophores within the density functional theory (DFT) framework. The absorption and emission spectra, as well as transition dipole moments, were computed by using the time-dependent DFT (TDDFT). Our method was applied to several types of C-PCs showing that the EET rates are determined by an interplay of their specific physical, chemical, and geometrical features. These results show that our formulas can become a useful tool for a reliable estimation of the relative contributions of the factors regulating the EET transfer rate.

Enhanced light harvesting and photocurrent generation activities of biohybrid light–harvesting 1–reaction center core complexes (LH1-RCs) from Rhodopseudomonas palustris

A light harvesting system that effectively drives photocatalytic component is essential for converting solar light into chemical energy. Here we addressed the extension of light harvesting activity and presented a quantitative analysis of the functional linkage between light harvesting and a photocatalytic reaction of biohybrid light-harvesting 1–reaction center core complex (LH1-RC from Rhodopseudomonas palustris). Light harvesting wavelengths were extended by a series of fluorophores (Alexa647, 680, 750, and ATTO647N), which were covalently attached to LH1-RC (LH1-RC-Fluors). Femtosecond transient absorption spectroscopy revealed ultrafast excitation energy transfer (EET) from the fluorophores to bacteriochlorophyll a pigments in LH1 (B875), followed by charge separation in RC. The rate of EET increased with increase in the spectral overlap between the emission bands of the fluorophores and the absorption band of B875. The attachment of the external light harvesting fluorophores boosted the maximum yield of charge separation and photocurrent generation activity. We discussed the effects of the number of fluorophores attached to LH1-RC and location of the fluorophores in a lipid bilayer environment on light harvesting activity.

LH1-RC light-harvesting photocycle under realistic light-matter conditions.

Quantum master equations are used to simulate the photocycle of the light-harvesting complex 1 (LH1) and the associated reaction center (RC) in purple bacteria excited with natural incoherent light. The influence of the radiation and protein environments and the full photocycle of the complexes, including the charge separation and RC recovery processes, are taken into account. Particular emphasis is placed on the steady state excitation energy transfer rate between the LH1 and the RC and the steady state dependence on the light intensity. The transfer rate is shown to scale linearly with light intensity near the value in the natural habitat and at higher light intensities is found to be bounded by the rate-determining step of the photocycle, the RC recovery rate. Transient (e.g., pulsed laser induced) dynamics, however, shows rates higher than the steady state value and continues to scale linearly with the intensity. The results show a correlation between the transfer rate and the manner in which the donor state is prepared. In addition, the transition from the transient to the steady state results can be understood as a cascade of ever slower rate-determining steps and quasi-stationary states inherent in multi-scale sequential processes. This type of transition of rates is relevant in most light-induced biological machinery.

Efficacious elimination of intramolecular charge transfer in perylene imide based light-harvesting antenna molecules.

Two light-harvesting antenna molecules were obtained by positioning naphthalene monoimide energy donors at the imide position, instead of the bay positions, of perylene imide energy acceptors. Such rational design resulted in a complete suppression of parasitic intramolecular charge transfer without compromising the desired ultrafast rates of excitation energy transfer.

Influence of Hydrogen Bonds on the Electron–Phonon Coupling Strength/Marker Mode Structure and Charge Separation Rates in Reaction Centers from Rhodobacter sphaeroides

Low-temperature persistent and transient hole-burning (HB) spectra are presented for the triple hydrogen-bonded L131LH + M160LH + M197FH mutant of Rhodobacter sphaeroides. These spectra expose the heterogeneous nature of the P-, B-, and H-bands, consistent with a distribution of electron transfer (ET) times and excitation energy transfer (EET) rates. Transient P+QA- holes are observed for fast (tens of picoseconds or faster) ET times and reveal strong coupling to phonons and marker mode(s), while the persistent holes are bleached in a fraction of reaction centers with long-lived excited states characterized by much weaker electron-phonon coupling. Exposed differences in electron-phonon coupling strength, as well as a different coupling to the marker mode(s), appear to affect the ET times. Both resonantly and nonresonantly burned persistent HB spectra show weak blue- (∼150 cm-1) and large, red-shifted (∼300 cm-1) antiholes of the P band. Slower EET times from the H- and B-bands to the special pair dimer provide new insight on the influence of hydrogen bonds on mutation-induced heterogeneity.

Comparison of methods to study excitation energy transfer in molecular multichromophoric systems

We compare theoretical methods for calculating excitation energy transfer rates in multichromophoric systems. The employed methods are the multichromophoric Förster resonance energy transfer (MC-FRET), the numerical integration of the Schrödinger equation (NISE), and the Haken-Strobl-Reineker (HSR) model. As a reference, we use the numerically exact Hierarchy of Equations of Motion (HEOM). We examine these methods in various system and bath parameter regimes including the regime relevant to biological light-harvesting systems. We apply them to a model system of a monomeric donor coupled to a multichromophoric acceptor ring of varying size in two limiting configurations, namely symmetric and asymmetric. We find that the symmetric case is more sensitive to the approximations of the methods studied. The NISE method gives the most reasonable results throughout the parameter regimes tested, while still being computationally tractable.

How To Extract Quantitative Information on Electronic Transitions from the Density Functional Theory "Black Box".

Electronic couplings and vertical excitation energies are crucial determinants of charge and excitation energy transfer rates in a broad variety of processes ranging from biological charge transfer to charge transport through inorganic materials, from molecular sensing to intracellular signaling. Density Functional Theory (DFT) is generally used to calculate these critical parameters, but the quality of the results is unpredictable because of the semiempirical nature of the available DFT approaches. This study identifies a small set of fundamental rules that enables accurate DFT computation of electronic couplings and vertical excitation energies in molecular complexes and materials. These rules are applied to predict efficient DFT approaches to coupling calculations. The result is an easy-to-use guide for reliable DFT descriptions of electronic transitions.

Application of decay- and evolution-associated spectra for molecular systems with spectral shifts or inherent inhomogeneities

Decay- and evolution-associated spectra (DAS and EAS) are among the most popular methods for global analysis of time-resolved spectroscopy data. To interpret the obtained results in terms of a physical model, the system under consideration must satisfy several assumptions—spectral and temporal independence and lack of intrinsic disorder. In this work we study possible applicability of the DAS/EAS analysis for the time-resolved fluorescence spectra of several model systems, which fail to satisfy the required assumptions. We show that time-dependent spectral shifts can be distinguished by systematic comparison of DAS/EAS with different number of compartments. Somewhat unexpectedly, we demonstrate that DAS/EAS are rather robust for small systems even when they possess inherent disorder of excitation energy transfer or relaxation rates. In the case of larger molecular aggregates, the interpretation of DAS/EAS becomes much more ambiguous as the obtained results cannot be easily related to a physical kinetic and/or structural model.

Electronic energy transfer studied by many-body Green's function theory.

We present a combination of many-body Green's function theory and Förster-Dexter theory to estimate the excitation energy transfer (EET) coupling in both the isolated and condensed systems. This approach employs the accurate wave functions of excitons, which are derived from the Bethe-Salpeter equation, in the donor and acceptor to set up the electronic coupling terms. Dexter coupling, which arises from the exchange-correlation effect, is evaluated based on the GW method which is a state-of-the-art ab initio theory for the description of self-energy. This approach is applicable to various situations, especially for periodic systems. The approach is tested on some model molecular dimers and compared with other high-level quantum chemistry methods together with the exact supermolecule scheme. Finally, we apply it to study the EET between periodic single-walled carbon nanotubes, exploring the dependence of EET on the chirality of nanotubes and the type of excitation transferred, finding that dark states play key roles in the EET between nanotubes. The EET rate falls as ∼D-12 approximately with the distance D between nanotubes for small D, much faster than the traditional Förster model.