Energy-dependent quenching adjusts the excitation diffusion length to regulate photosynthetic light harvesting

An important determinant of crop yields is the regulation of photosystem II (PSII) light harvesting by energy-dependent quenching (qE). However, the molecular details of excitation quenching have not been quantitatively connected to the PSII yield, which only emerges on the 100 nm scale of the grana membrane and determines flux to downstream metabolism. Here, we incorporate excitation dissipation by qE into a pigment-scale model of excitation transfer and trapping for a 200 nm x 200 nm patch of the grana membrane. We demonstrate that single molecule measurements of qE are consistent with a weak-quenching regime. Consequently, excitation transport can be rigorously coarse-grained to a 2D random walk with an excitation diffusion length determined by the extent of quenching. A diffusion-corrected lake model substantially improves the PSII yield determined from variable chlorophyll fluorescence measurements and offers an improved model of PSII for photosynthetic metabolism.Comment: 19 pages, 4 figures, 3 supplementary figure

Unimolecular reaction rates in solution and in the isolated molecule: Comparison of diphenyl butadiene nonradiative decay in solutions and supersonic jets

The recent study of diphenyl butadiene (DPB) in supersonic jets and in solution by Shepanski et al.(1) and by Courtney and Felming(2), respectively, provides an opportunity to compare the isomerization rates measured in the isolated molecule (jet) with those measured at very low viscosity in solution. These comparisons should shed light on the vibrational energy flows between “optical” and “reactive” modes in the isolated molecule and on the connection between activated, friction dependent, models of barrier crossing in solution,(3-5) and statistical RRK (or RRKM) theories of gas phase unimolecular reactions(6)

Coherent exciton dynamics in the presence of underdamped vibrations

Recent ultrafast optical experiments show that excitons in large biological light-harvesting complexes are coupled to molecular vibration modes. These high-frequency vibrations will not only affect the optical response, but also drive the exciton transport. Here, using a model dimer system, the frequency of the underdamped vibration is shown to have a strong effect on the exciton dynamics such that quantum coherent oscillations in the system can be present even in the case of strong noise. Two mechanisms are identified to be responsible for the enhanced transport efficiency: critical damping due to the tunable effective strength of the coupling to the bath, and resonance coupling where the vibrational frequency coincides with the energy gap in the system. The interplay of these two mechanisms determines parameters responsible for the most efficient transport, and these optimal control parameters are comparable to those in realistic light-harvesting complexes. Interestingly, oscillations in the excitonic coherence at resonance are suppressed in comparison to the case of an off-resonant vibration

A Mechanism for Ferrimagnetism and Incommensurability in One-Dimensional Systems

A mechanism for ferrimagnetism in (1+1)-dimensions is discussed. The ferrimagnetism is cased by interactions described by operators with non-zero conformal spin. Such interactions appear in such problems as the problem of tunneling between Luttinger liquids and the problem of frustrated spin ladder. I present exact solutions for a representative class of models containing such interactions together with a simple mean field analysis. It is shown that the interactions (i) dynamically generate static oscillations with a wave vector dependent on the coupling constant, (ii) give rise to a finite magnetic moment at $T = 0$ accompanied by the soft mode with a non-relativistic ({\it ferromagnetic}) dispersion $E \sim k^2$, (iii) generate massive (roton) modes.Comment: replaced by the extended version, references adde

Baryonic Operators for Lattice Simulations

The construction of baryonic operators for determining the N* excitation spectrum is discussed. The operators are designed with one eye towards maximizing overlaps with the low-lying states of interest, and the other eye towards minimizing the number of sources needed in computing the required quark propagators. Issues related to spin identification are outlined. Although we focus on tri-quark baryon operators, the construction method is applicable to both mesons and penta-quark operators.Comment: 3 pages, poster presented at Lattice2003(spectrum), Tsukuba, Japan, July 15-19, 200