Theoretical prediction of spectral and optical properties of bacteriochlorophylls in thermally disordered LH2 antenna complexes

A general approach for calculating spectral and optical properties of pigment-protein complexes of known atomic structure is presented. The method, that combines molecular dynamics simulations, quantum chemistry calculations and statistical mechanical modeling, is demonstrated by calculating the absorption and circular dichroism spectra of the B800-B850 BChls of the LH2 antenna complex from Rs. molischianum at room temperature. The calculated spectra are found to be in good agreement with the available experimental results. The calculations reveal that the broadening of the B800 band is mainly caused by the interactions with the polar protein environment, while the broadening of the B850 band is due to the excitonic interactions. Since it contains no fitting parameters, in principle, the proposed method can be used to predict optical spectra of arbitrary pigment-protein complexes of known structure.Comment: ReVTeX4, 11 pages, 9 figures, submitted to J. Chem. Phy

Developing Leadership in a National Cohort of Secondary Biology Teachers: Uses of an On-Line Course Structure to Develop Geographically Distant Professional Learning Community

This report is a descriptive study of the role that on-line courses might have on the development of Professional Learning Communities (PLC’s) that support national leadership initiatives of participating high school biology teachers. The one hundred teachers involved in the Life Sciences for a Global Community (LSGC) Institute are expected not only to deepen their content knowledge, but also impact their district and state biology curricula. Additionally, the dispersion of Institute participants across the country presents a unique opportunity to develop, communicate. and implement a national coherent reform agenda. However, the geographic distance presents a barrier to collaborative design of leadership projects. Therefore, the LSGC Institute designed web-based, distance learning courses as a means for both the instruction and development of distant professional relationships

Theory of the singlet exciton yield in light-emitting polymers

This paper presents a possible explanation for the enhanced singlet exciton yield in light emitting polymers. We propose a theory of electron-hole recombination via inter-molecular inter-conversion from inter-molecular weakly bound polaron pairs (or charge-transfer excitons) to intra-molecular excitons. This theory is applicable to parallel polymer chains. A crucial aspect of the theory is that both the intra-molecular and inter-molecular excitons are effective-particles, which are described by both a relative-particle wavefunction and a center-of-mass wavefunction. This implies two electronic selection rules. (1) The parity of the relative-particle wavefunction implies that inter-conversion occurs from the even parity inter-molecular charge-transfer excitons to the strongly bound intra-molecular excitons. (2) The orthonormality of the center-of-mass wavefunctions ensures that inter-conversion occurs from the charge-transfer excitons to the lowest branch of the strongly bound exciton families, and not to higher lying members of these families. The inter-conversion is then predominately a multi-phonon process, determined by the Franck-Condon factors. These factors are exponentially smaller for the triplet manifold than the singlet manifold because of the large exchange energy.Comment: To appear in Physical Review B, vol 70, 15 Oct 200

Transient currents in a molecular photo-diode

Light-induced charge transmission through a molecular junction (molecular diode) is studied in the framework of a HOMO-LUMO model and in using a kinetic description. Expressions are presented for the sequential (hopping) and direct (tunneling) transient current components together with kinetic equations governing the time-dependent populations of the neutral and charged molecular states which participate in the current formation. Resonant and off-resonant charge transmission processes are analyzed in detail. It is demonstrated that the transient currents are associated with a molecular charging process which is initiated by photo excitation of the molecule. If the coupling of the molecule to the electrodes is strongly asymmetric the transient currents can significantly exceed the steady state current.Comment: 17 pages, 12 figures, accepted for publication in Chemical Physic

Vibrational effects in laser driven molecular wires

The influence of an electron-vibrational coupling on the laser control of electron transport through a molecular wire that is attached to several electronic leads is investigated. These molecular vibrational modes induce an effective electron-electron interaction. In the regime where the wire electrons couple weakly to both the external leads and the vibrational modes, we derive within a Hartree-Fock approximation a nonlinear set of quantum kinetic equations. The quantum kinetic theory is then used to evaluate the laser driven, time-averaged electron current through the wire-leads contacts. This novel formalism is applied to two archetypical situations in the presence of electron-vibrational effects, namely, (i) the generation of a ratchet or pump current in a symmetrical molecule by a harmonic mixing field and (ii) the laser switching of the current through the molecule.Comment: 12 pages, 7 figures, RevTeX4 require

Thermal broadening of the J-band in disordered linear molecular aggregates: A theoretical study

We theoretically study the temperature dependence of the J-band width in disordered linear molecular aggregates, caused by dephasing of the exciton states due to scattering on vibrations of the host matrix. In particular, we consider inelastic one- and two-phonon scattering between different exciton states (energy-relaxation-induced dephasing), as well as elastic two-phonon scattering of the excitons (pure dephasing). The exciton states follow from numerical diagonalization of a Frenkel Hamiltonian with diagonal disorder; the scattering rates between them are obtained using the Fermi Golden Rule. A Debye-like model for the one- and two-phonon spectral densities is used in the calculations. We find that, owing to the disorder, the dephasing rates of the individual exciton states are distributed over a wide range of values. We also demonstrate that the dominant channel of two-phonon scattering is not the elastic one, as is often tacitly assumed, but rather comes from a similar two-phonon inelastic scattering process. In order to study the temperature dependence of the J-band width, we simulate the absorption spectrum, accounting for the dephasing induced broadening of the exciton states. We find a power-law (T^p) temperature scaling of the effective homogeneous width, with an exponent p that depends on the shape of the spectral density of host vibrations. In particular, for a Debye model of vibrations, we find p ~ 4, which is in good agreement with experimental data on J-aggregates of pseudoisocyanine [J. Phys. Chem. A 101, 7977 (1997)].Comment: 14 pages, 7 figure

Energy transfer in finite-size exciton-phonon systems : confinement-enhanced quantum decoherence

Based on the operatorial formulation of the perturbation theory, the exciton-phonon problem is revisited for investigating exciton-mediated energy flow in a finite-size lattice. Within this method, the exciton-phonon entanglement is taken into account through a dual dressing mechanism so that exciton and phonons are treated on an equal footing. In a marked contrast with what happens in an infinite lattice, it is shown that the dynamics of the exciton density is governed by several time scales. The density evolves coherently in the short-time limit whereas a relaxation mechanism occurs over intermediated time scales. Consequently, in the long-time limit, the density converges toward a nearly uniform distributed equilibrium distribution. Such a behavior results from quantum decoherence that originates in the fact that the phonons evolve differently depending on the path followed by the exciton to tunnel along the lattice. Although the relaxation rate increases with the temperature and with the coupling, it decreases with the lattice size, suggesting that the decoherence is inherent to the confinement

Spin-dependent electron-hole capture kinetics in conjugated polymers

The recombination of electron-hole pairs injected in extended conjugated systems is modeled as a multi-pathway vibron-driven relaxation in monoexcited state-space. The computed triplet-to-singlet ratio of exciton formation times $r = \tau_T/\tau_S$ increases from 0.9 for a model dimer to 2.5 for a 32-unit chain, in excellent agreement with experiments. Therewith we rationalize recombination efficiency in terms of spin-dependent interstate vibronic coupling and spin- and conjugation-length-dependent exciton binding energies.Our model calculations for various length polymers indicate that the ratio of the singlet to triplet formation ratios, $r = \sigma_S/\sigma_T$, is inversely related to the ratio of the singlet and triplet binding energies, $\epsilon^b_S/\epsilon^b_T$