Topology and energy transport in networks of interacting photosynthetic complexes

We address the role of topology in the energy transport process that occurs in networks of photosynthetic complexes. We take inspiration from light harvesting networks present in purple bacteria and simulate an incoherent dissipative energy transport process on more general and abstract networks, considering both regular structures (Cayley trees and hyperbranched fractals) and randomly-generated ones. We focus on the the two primary light harvesting complexes of purple bacteria, i.e., the LH1 and LH2, and we use network-theoretical centrality measures in order to select different LH1 arrangements. We show that different choices cause significant differences in the transport efficiencies, and that for regular networks centrality measures allow to identify arrangements that ensure transport efficiencies which are better than those obtained with a random disposition of the complexes. The optimal arrangements strongly depend on the dissipative nature of the dynamics and on the topological properties of the networks considered, and depending on the latter they are achieved by using global vs. local centrality measures. For randomly-generated networks a random arrangement of the complexes already provides efficient transport, and this suggests the process is strong with respect to limited amount of control in the structure design and to the disorder inherent in the construction of randomly-assembled structures. Finally, we compare the networks considered with the real biological networks and find that the latter have in general better performances, due to their higher connectivity, but the former with optimal arrangements can mimic the real networks' behaviour for a specific range of transport parameters. These results show that the use of network-theoretical concepts can be crucial for the characterization and design of efficient artificial energy transport networks.Comment: 14 pages, 16 figures, revised versio

Weak Lensing of the CMB: A Harmonic Approach

Weak lensing of CMB anisotropies and polarization for the power spectra and higher order statistics can be handled directly in harmonic-space without recourse to real-space correlation functions. For the power spectra, this approach not only simplifies the calculations but is also readily generalized from the usual flat-sky approximation to the exact all-sky form by replacing Fourier harmonics with spherical harmonics. Counterintuitively, due to the nonlinear nature of the effect, errors in the flat-sky approximation do not improve on smaller scales. They remain at the 10% level through the acoustic regime and are sufficiently large to merit adoption of the all-sky formalism. For the bispectra, a cosmic variance limited detection of the correlation with secondary anisotropies has an order of magnitude greater signal-to-noise for combinations involving magnetic parity polarization than those involving the temperature alone. Detection of these bispectra will however be severely noise and foreground limited even with the Planck satellite, leaving room for improvement with higher sensitivity experiments. We also provide a general study of the correspondence between flat and all sky potentials, deflection angles, convergence and shear for the power spectra and bispectra.Comment: 17 pages, 5 figures, submitted to PR

Spin tunnelling in mesoscopic systems

We study spin tunnelling in molecular magnets as an instance of a mesoscopic phenomenon, with special emphasis on the molecule Fe8. We show that the tunnel splitting between various pairs of Zeeman levels in this molecule oscillates as a function of applied magnetic field, vanishing completely at special points in the space of magnetic fields, known as diabolical points. This phenomena is explained in terms of two approaches, one based on spin-coherent-state path integrals, and the other on a generalization of the phase integral (or WKB) method to difference equations. Explicit formulas for the diabolical points are obtained for a model Hamiltonian.Comment: 13 pages, 5 figures, uses Pramana style files; conference proceedings articl

Minimal knotted polygons in cubic lattices

An implementation of BFACF-style algorithms on knotted polygons in the simple cubic, face centered cubic and body centered cubic lattice is used to estimate the statistics and writhe of minimal length knotted polygons in each of the lattices. Data are collected and analysed on minimal length knotted polygons, their entropy, and their lattice curvature and writhe

Generating non-Gaussian maps with a given power spectrum and bispectrum

We propose two methods for generating non-Gaussian maps with fixed power spectrum and bispectrum. The first makes use of a recently proposed rigorous, non-perturbative, Bayesian framework for generating non-Gaussian distributions. The second uses a simple superposition of Gaussian distributions. The former is best suited for generating mildly non-Gaussian maps, and we discuss in detail the limitations of this method. The latter is better suited for the opposite situation, i.e. generating strongly non-Gaussian maps. The ensembles produced are isotropic and the power spectrum can be jointly fixed; however we cannot set to zero all other higher order cumulants (an unavoidable mathematical obstruction). We briefly quantify the leakage into higher order moments present in our method. We finally present an implementation of our code within the HEALPIX packageComment: 22 pages submitted to PRD, astro-ph version only includes low resolution map

Excited states of linear polyenes

We present density matrix renormalisation group calculations of the Pariser- Parr-Pople-Peierls model of linear polyenes within the adiabatic approximation. We calculate the vertical and relaxed transition energies, and relaxed geometries for various excitations on long chains. The triplet (3Bu+) and even- parity singlet (2Ag+) states have a 2-soliton and 4-soliton form, respectively, both with large relaxation energies. The dipole-allowed (1Bu-) state forms an exciton-polaron and has a very small relaxation energy. The relaxed energy of the 2Ag+ state lies below that of the 1Bu- state. We observe an attraction between the soliton-antisoliton pairs in the 2Ag+ state. The calculated excitation energies agree well with the observed values for polyene oligomers; the agreement with polyacetylene thin films is less good, and we comment on the possible sources of the discrepencies. The photoinduced absorption is interpreted. The spin-spin correlation function shows that the unpaired spins coincide with the geometrical soliton positions. We study the roles of electron-electron interactions and electron-lattice coupling in determining the excitation energies and soliton structures. The electronic interactions play the key role in determining the ground state dimerisation and the excited state transition energies.Comment: LaTeX, 15 pages, 9 figure

A New Recursion Relation for the 6j-Symbol

The 6j-symbol is a fundamental object from the re-coupling theory of SU(2) representations. In the limit of large angular momenta, its asymptotics is known to be described by the geometry of a tetrahedron with quantized lengths. This article presents a new recursion formula for the square of the 6j-symbol. In the asymptotic regime, the new recursion is shown to characterize the closure of the relevant tetrahedron. Since the 6j-symbol is the basic building block of the Ponzano-Regge model for pure three-dimensional quantum gravity, we also discuss how to generalize the method to derive more general recursion relations on the full amplitudes.Comment: 10 pages, v2: title and introduction changed, paper re-structured; Annales Henri Poincare (2011

Observation of the solid-state photo-CIDNP effect in entire cells of cyanobacteria Synechocystis

Cyanobacteria are widely used as model organism of oxygenic photosynthesis due to being the simplest photosynthetic organisms containing both photosystem I and II (PSI and PSII). Photochemically induced dynamic nuclear polarization (photo-CIDNP) 13C magic-angle spinning (MAS) NMR is a powerful tool in understanding the photosynthesis machinery down to atomic level. Combined with selective isotope enrichment this technique has now opened the door to study primary charge separation in whole living cells. Here, we present the first photo-CIDNP observed in whole cells of the cyanobacterium Synechocystis

Quantum physics meets biology

Quantum physics and biology have long been regarded as unrelated disciplines, describing nature at the inanimate microlevel on the one hand and living species on the other hand. Over the last decades the life sciences have succeeded in providing ever more and refined explanations of macroscopic phenomena that were based on an improved understanding of molecular structures and mechanisms. Simultaneously, quantum physics, originally rooted in a world view of quantum coherences, entanglement and other non-classical effects, has been heading towards systems of increasing complexity. The present perspective article shall serve as a pedestrian guide to the growing interconnections between the two fields. We recapitulate the generic and sometimes unintuitive characteristics of quantum physics and point to a number of applications in the life sciences. We discuss our criteria for a future quantum biology, its current status, recent experimental progress and also the restrictions that nature imposes on bold extrapolations of quantum theory to macroscopic phenomena.Comment: 26 pages, 4 figures, Perspective article for the HFSP Journa