Two-dimensional electronic spectroscopy and photosynthesis: Fundamentals and applications to photosynthetic light-harvesting

[1]  J. Choi,et al.  Polarization-angle-scanning two-dimensional spectroscopy: application to dipeptide structure determination. , 2011, The journal of physical chemistry. A.

[2]  G. Fleming,et al.  On the interpretation of quantum coherent beats observed in two-dimensional electronic spectra of photosynthetic light harvesting complexes. , 2011, The journal of physical chemistry. B.

[3]  Mei Li,et al.  Structural insights into energy regulation of light-harvesting complex CP29 from spinach , 2011, Nature Structural &Molecular Biology.

[4]  Jeffrey A. Davis,et al.  Solving structure in the CP29 light harvesting complex with polarization-phased 2D electronic spectroscopy , 2011, Proceedings of the National Academy of Sciences.

[5]  Gregory D. Scholes,et al.  Resonance energy transfer: Beyond the limits , 2011 .

[6]  J. Choi,et al.  Communication: Polarization-angle-scanning two-dimensional infrared spectroscopy of antiparallel β-sheet polypeptide: additional dimensions in two-dimensional optical spectroscopy. , 2010, The Journal of chemical physics.

[7]  D. Coker,et al.  Iterative linearized density matrix propagation for modeling coherent excitation energy transfer in photosynthetic light harvesting. , 2010, The Journal of chemical physics.

[8]  Jeffrey A. Myers,et al.  Two-Dimensional Electronic Spectroscopy of the D1-D2-cyt b559 Photosystem II Reaction Center Complex , 2010 .

[9]  G. Fleming,et al.  Quantum coherence and its interplay with protein environments in photosynthetic electronic energy transfer. , 2010, Physical chemistry chemical physics : PCCP.

[10]  G. Fleming,et al.  Spectroscopic elucidation of uncoupled transition energies in the major photosynthetic light-harvesting complex, LHCII , 2010, Proceedings of the National Academy of Sciences.

[11]  Klaus Müllen,et al.  Visualizing and controlling vibrational wave packets of single molecules , 2010, Nature.

[12]  J. Ogilvie,et al.  Effects of chirp on two-dimensional Fourier transform electronic spectra. , 2010, Optics express.

[13]  G. Fleming,et al.  Quantum superpositions in photosynthetic light harvesting: delocalization and entanglement , 2010 .

[14]  W. Miller,et al.  Semiclassical Description of Electronic Excitation Population Transfer in a Model Photosynthetic System , 2010 .

[15]  Gregory D. Scholes,et al.  Coherently wired light-harvesting in photosynthetic marine algae at ambient temperature , 2010, Nature.

[16]  Justin R. Caram,et al.  Long-lived quantum coherence in photosynthetic complexes at physiological temperature , 2010, Proceedings of the National Academy of Sciences.

[17]  G. Fleming,et al.  Pathways of energy flow in LHCII from two-dimensional electronic spectroscopy. , 2009, The journal of physical chemistry. B.

[18]  Seogjoo J. Jang.  Theory of coherent resonance energy transfer for coherent initial condition. , 2009, The Journal of chemical physics.

[19]  G. Fleming,et al.  Quantum coherence enabled determination of the energy landscape in light-harvesting complex II. , 2009, The journal of physical chemistry. B.

[20]  G. Fleming,et al.  Theoretical examination of quantum coherence in a photosynthetic system at physiological temperature , 2009, Proceedings of the National Academy of Sciences.

[21]  Shaul Mukamel,et al.  Two-dimensional electronic double-quantum coherence spectroscopy. , 2009, Accounts of chemical research.

[22]  R. Grondelle,et al.  Fluorescence hole-burning and site-selective studies of LHCII , 2009, Photosynthetica.

[23]  F. Bittner,et al.  On the regulation of photosynthesis by excitonic interactions between carotenoids and chlorophylls , 2009, Proceedings of the National Academy of Sciences.

[24]  G. Fleming,et al.  On the adequacy of the Redfield equation and related approaches to the study of quantum dynamics in electronic energy transfer. , 2009, The Journal of chemical physics.

[25]  G. Fleming,et al.  Unified treatment of quantum coherent and incoherent hopping dynamics in electronic energy transfer: reduced hierarchy equation approach. , 2009, The Journal of chemical physics.

[26]  M. Cho.  Two-Dimensional Optical Spectroscopy , 2009 .

[27]  S. Mukamel,et al.  Lindblad equations for strongly coupled populations and coherences in photosynthetic complexes. , 2009, The Journal of chemical physics.

[28]  G. Fleming,et al.  Pigment organization and energy level structure in light-harvesting complex 4: insights from two-dimensional electronic spectroscopy. , 2009, The journal of physical chemistry. B.

[29]  M. Cho,et al.  Femtosecond characterization of vibrational optical activity of chiral molecules , 2009, Nature.

[30]  G. Scholes,et al.  Coherent Intrachain Energy Migration in a Conjugated Polymer at Room Temperature , 2009, Science.

[31]  Tobias Brixner,et al.  Inherently phase-stable coherent two-dimensional spectroscopy using only conventional optics. , 2008, Optics letters.

[32]  S. Mukamel,et al.  Chirality-based signatures of local protein environments in two-dimensional optical spectroscopy of two species photosynthetic complexes of green sulfur bacteria: simulation study. , 2008, Biophysical journal.

[33]  I. Gerhardt,et al.  Coherent state preparation and observation of Rabi oscillations in a single molecule , 2008, 2009 Conference on Lasers and Electro-Optics and 2009 Conference on Quantum electronics and Laser Science Conference.

[34]  A. Bristow,et al.  All-optical retrieval of the global phase for two-dimensional Fourier-transform spectroscopy. , 2008, Optics express.

[35]  Seogjoo J. Jang,et al.  Theory of coherent resonance energy transfer. , 2008, The Journal of chemical physics.

[36]  G. Fleming,et al.  Visualization of excitonic structure in the Fenna-Matthews-Olson photosynthetic complex by polarization-dependent two-dimensional electronic spectroscopy. , 2008, Biophysical journal.

[37]  J. Choi,et al.  Two-dimensional nonlinear optical activity spectroscopy of coupled multi-chromophore system. , 2008, Physical chemistry chemical physics : PCCP.

[38]  H. Quiney,et al.  Noninterferometric two-dimensional fourier-transform spectroscopy of multilevel systems. , 2008, Physical review letters.

[39]  S. Mukamel,et al.  Unravelling coherent dynamics and energy dissipation in photosynthetic complexes by 2D spectroscopy. , 2008, Biophysical journal.

[40]  Graham R Fleming,et al.  Coherence quantum beats in two-dimensional electronic spectroscopy. , 2008, The journal of physical chemistry. A.

[41]  J. Nield,et al.  Probing the organization of photosystem II in photosynthetic membranes by atomic force microscopy. , 2008, Biochemistry.

[42]  Matthew A. Montgomery,et al.  Facile collection of two-dimensional electronic spectra using femtosecond pulse-shaping Technology. , 2007, Optics express.

[43]  Daniel B. Turner,et al.  Multidimensional coherent spectroscopy made easy , 2007 .

[44]  Gregory S Engel,et al.  Cross-peak-specific two-dimensional electronic spectroscopy , 2007, Proceedings of the National Academy of Sciences.

[45]  G. Fleming,et al.  Efficient simulation of three-pulse photon-echo signals with application to the determination of electronic coupling in a bacterial photosynthetic reaction center. , 2007, The journal of physical chemistry. A.

[46]  G. Fleming,et al.  Measuring Electronic Coupling in the Reaction Center of Purple Photosynthetic Bacteria by Two-Color, Three-Pulse Photon Echo Peak Shift Spectroscopy , 2007 .

[47]  T. Mančal,et al.  Evidence for wavelike energy transfer through quantum coherence in photosynthetic systems , 2007, Nature.

[48]  R. van Grondelle,et al.  Understanding the changes in the circular dichroism of light harvesting complex II upon varying its pigment composition and organization. , 2007, Biochemistry.

[49]  T. Renger,et al.  How proteins trigger excitation energy transfer in the FMO complex of green sulfur bacteria. , 2006, Biophysical journal.

[50]  T. Renger,et al.  Intermolecular coulomb couplings from ab initio electrostatic potentials: application to optical transitions of strongly coupled pigments in photosynthetic antennae and reaction centers. , 2006, The journal of physical chemistry. B.

[51]  Graham R Fleming,et al.  Two-dimensional electronic spectroscopy of the B800–B820 light-harvesting complex , 2006, Proceedings of the National Academy of Sciences.

[52]  J. Barber,et al.  Refinement of the structural model for the Photosystem II supercomplex of higher plants. , 2006, Biochimica et biophysica acta.

[53]  Rienk van Grondelle,et al.  Energy transfer in photosynthesis: experimental insights and quantitative models. , 2006, Physical chemistry chemical physics : PCCP.

[54]  G. Fleming,et al.  Energy Transfer and Photosynthetic Light Harvesting , 2005 .

[55]  Graham R Fleming,et al.  Exciton analysis in 2D electronic spectroscopy. , 2005, The journal of physical chemistry. B.

[56]  R. van Grondelle,et al.  Excitation dynamics in the LHCII complex of higher plants: modeling based on the 2.72 Angstrom crystal structure. , 2005, The journal of physical chemistry. B.

[57]  Graham R. Fleming,et al.  Two-dimensional spectroscopy of electronic couplings in photosynthesis , 2005, Nature.

[58]  D. Reinhoudt,et al.  Single-molecule pump-probe detection resolves ultrafast pathways in individual and coupled quantum systems. , 2005, Physical review letters.

[59]  Leonas Valkunas,et al.  Carotenoid Cation Formation and the Regulation of Photosynthetic Light Harvesting , 2005, Science.

[60]  Egbert J Boekema,et al.  Supramolecular organization of thylakoid membrane proteins in green plants. , 2005, Biochimica et biophysica acta.

[61]  T. Mančal,et al.  Probing electronic coupling in excitonically coupled heterodimer complexes by two-color three-pulse photon echoes. , 2004, The Journal of chemical physics.

[62]  Graham R Fleming,et al.  Phase-stabilized two-dimensional electronic spectroscopy. , 2004, The Journal of chemical physics.

[63]  Igor V. Stiopkin,et al.  Tunable two-dimensional femtosecond spectroscopy. , 2004, Optics letters.

[64]  Zhenfeng Liu,et al.  Crystal structure of spinach major light-harvesting complex at 2.72 Å resolution , 2004, Nature.

[65]  Jennifer P. Ogilvie,et al.  Two-dimensional spectroscopy using diffractive optics based phased-locked photon echoes , 2004 .

[66]  G. Fleming,et al.  Two-dimensional optical spectroscopy: two-color photon echoes of electronically coupled phthalocyanine dimers. , 2004, The Journal of chemical physics.

[67]  Volkhard May,et al.  Charge and Energy Transfer Dynamics in Molecular Systems, 2nd, Revised and Enlarged Edition , 2004 .

[68]  G. Scholes.  Long-range resonance energy transfer in molecular systems. , 2003, Annual review of physical chemistry.

[69]  D. Jonas.  Two-dimensional femtosecond spectroscopy. , 2003, Annual review of physical chemistry.

[70]  M. Fayer.  Fast protein dynamics probed with infrared vibrational echo experiments. , 2003, Annual review of physical chemistry.

[71]  Shaul Mukamel,et al.  Tensor Components in Three Pulse Vibrational Echoes of a Rigid Dipeptide , 2003 .

[72]  Andrei Tokmakoff,et al.  Coherent 2D IR Spectroscopy: Molecular Structure and Dynamics in Solution , 2003 .

[73]  R. Hochstrasser,et al.  Dual-frequency 2D-IR spectroscopy heterodyned photon echo of the peptide bond , 2003, Proceedings of the National Academy of Sciences of the United States of America.

[74]  N. Demirdöven,et al.  Obtaining absorptive line shapes in two-dimensional infrared vibrational correlation spectra. , 2003, Physical review letters.

[75]  R. Kubo.  Statistical Physics II: Nonequilibrium Statistical Mechanics , 2003 .

[76]  G. D. Billing.  The Quantum Classical Theory , 2003 .

[77]  N. Demirdöven,et al.  Correlated vibrational dynamics revealed by two-dimensional infrared spectroscopy. , 2002, Physical review letters.

[78]  T. Pullerits,et al.  Potential surfaces and delocalization of excitons in dimers , 2002 .

[79]  G. Fleming,et al.  Heterodyne-detected fifth-order nonresonant Raman scattering from room temperature CS2. , 2002, Physical review letters.

[80]  David M. Jonas,et al.  Two-dimensional Fourier transform electronic spectroscopy , 2001 .

[81]  R. Hochstrasser,et al.  Two-dimensional IR spectroscopy can be designed to eliminate the diagonal peaks and expose only the crosspeaks needed for structure determination , 2001, Proceedings of the National Academy of Sciences of the United States of America.

[82]  O. Golonzka,et al.  Polarization-selective third-order spectroscopy of coupled vibronic states , 2001 .

[83]  R. Hochstrasser.  Two-dimensional IR-spectroscopy: polarization anisotropy effects , 2001 .

[84]  K. Niyogi,et al.  Non-photochemical quenching. A response to excess light energy. , 2001, Plant physiology.

[85]  V. May,et al.  Ultrafast excitation energy transfer dynamics in photosynthetic pigment–protein complexes , 2001 .

[86]  Peter Hamm,et al.  Structure Determination of Trialanine in Water Using Polarization Sensitive Two-Dimensional Vibrational Spectroscopy , 2000 .

[87]  Graham R. Fleming,et al.  Ultrafast Energy Transfer in LHC-II Revealed by Three-Pulse Photon Echo Peak Shift Measurements , 2000 .

[88]  Allison W. Albrecht,et al.  Experimental distinction between phase shifts and time delays: Implications for femtosecond spectroscopy and coherent control of chemical reactions , 1999 .

[89]  Warren S. Warren,et al.  Role of Pulse Phase and Direction in Two-Dimensional Optical Spectroscopy , 1999 .

[90]  D. Cugini,et al.  Mutational analysis of a higher plant antenna protein provides identification of chromophores bound into multiple sites. , 1999, Proceedings of the National Academy of Sciences of the United States of America.

[91]  S. Kovalenko,et al.  Femtosecond spectroscopy of condensed phases with chirped supercontinuum probing , 1999 .

[92]  G. Fleming,et al.  Two-color three-pulse photon echoes as a probe of electronic coupling in molecular complexes , 1999 .

[93]  G. Fleming,et al.  Protein dynamics and photon echoes. , 1998, Proceedings of the National Academy of Sciences of the United States of America.

[94]  R. Hochstrasser,et al.  Non-Markovian Dynamics of the Vibrations of Ions in Water from Femtosecond Infrared Three-Pulse Photon Echoes , 1998 .

[95]  S. Mukamel,et al.  Exciton-migration and three-pulse femtosecond optical spectroscopies of photosynthetic antenna complexes , 1998 .

[96]  R. Hochstrasser,et al.  STRUCTURE OF THE AMIDE I BAND OF PEPTIDES MEASURED BY FEMTOSECOND NONLINEAR-INFRARED SPECTROSCOPY , 1998 .

[97]  Alan S. Stern,et al.  NMR Data Processing , 1996 .

[98]  Graham R. Fleming,et al.  CHROMOPHORE-SOLVENT DYNAMICS , 1996 .

[99]  S. Kovalenko,et al.  Femtosecond hole-burning spectroscopy of the dye DCM in solution: the transition from the locally excited to a charge-transfer state , 1996 .

[100]  M. Joffre,et al.  Two-dimensional nonlinear optics using Fourier-transform spectral interferometry. , 1996, Optics Letters.

[101]  S. Mukamel.  Principles of Nonlinear Optical Spectroscopy , 1995 .

[102]  N. Scherer,et al.  Fluorescence‐detected wave packet interferometry. II. Role of rotations and determination of the susceptibility , 1992 .

[103]  Graham R. Fleming,et al.  Fluorescence‐detected wave packet interferometry: Time resolved molecular spectroscopy with sequences of femtosecond phase‐locked pulses , 1991 .

[104]  E. Ippen,et al.  Three-pulse scattering for femtosecond dephasing studies: theory and experiment , 1985 .

[105]  T. Thirunamachandran,et al.  Molecular Quantum Electrodynamics , 1984 .

[106]  A. Zewail,et al.  Optical analogs of NMR phase coherent multiple pulse spectroscopy , 1981 .

[107]  G. Bodenhausen,et al.  Double fourier transformation in high-resolution NMR , 1977 .

[108]  R. Woolley.  Molecular quantum electrodynamics , 1971, Proceedings of the Royal Society of London. A. Mathematical and Physical Sciences.

[109]  E. Schrödinger,et al.  What is life? : the physical aspect of the living cell , 1946 .

[110]  N. Mott.  On the Theory of Excitation by Collision with Heavy Particles , 1931, Mathematical Proceedings of the Cambridge Philosophical Society.

[111]  P. Ehrenfest.  Bemerkung über die angenäherte Gültigkeit der klassischen Mechanik innerhalb der Quantenmechanik , 1927 .

[112]  J. Ogilvie,et al.  Two-dimensional Fourier transform electronic spectroscopy with a pulse-shaper , 2009 .

[113]  Maximilian Schlosshauer-Selbach.  Decoherence and the quantum-to-classical transition , 2008 .

[114]  G. Scholes,et al.  Energy transfer in light-harvesting complexes LHCII and CP29 of spinach studied with three pulse echo peak shift and transient grating. , 2003, Biophysical journal.

[115]  Graham R. Fleming,et al.  Influence of phonons on exciton transfer dynamics: comparison of the Redfield, Förster, and modified Redfield equations , 2002 .

[116]  M. Ziółek,et al.  Artifacts in femtosecond transient absorption spectroscopy , 2002 .

[117]  D. Wiersma,et al.  Ultrafast solvation dynamics explored by femtosecond photon echo spectroscopies. , 1998, Annual review of physical chemistry.

[118]  G. Bodenhausen,et al.  Principles of nuclear magnetic resonance in one and two dimensions , 1987 .

[119]  Alfred G. Redfield,et al.  On the Theory of Relaxation Processes , 1957, IBM J. Res. Dev..

[120]  Th. Förster.  Zwischenmolekulare Energiewanderung und Fluoreszenz , 1948 .

[121]  R. Needs,et al.  References and Notes Supporting Online Material Coherence Dynamics in Photosynthesis: Protein Protection of Excitonic Coherence , 2022 .