Amino acid substitution during functionally constrained divergent evolution of protein sequences

In aligning homologous protein sequences, it is generally assumed that amino acid substitutions subsequent in time occur independently of amino acid substitutions previous in time, i.e. that patterns of mulation are similar at low and high sequence divergence. This assumption is examined here and shown to be incorrect in an interesting way. Separate mutation matrices were constructed for aligned protein sequence pairs at divergences ranging from 5 to 100 PAM units (point accepted mutations per 100 aligned positions). From these, the corresponding log-odds (Day-hoff) matrices, normalized to 250 PAM units, were constructed. The matrices show that the genetic code influences accepted point mutations strongly at early stages of divergence, while the chemical properties of the side chains dominate at more advanced stage

Distribution of sound pressure around a singing cricket: radiation pattern and asymmetry in the sound field

Male field crickets generate calls to attract distant females through tegminal stridulation: the rubbing together of the overlying right wing which bears a file of cuticular teeth against the underlying left wing which carries a sclerotised scraper. During stridulation, specialised areas of membrane on both wings are set into oscillating vibrations to produce acoustic radiation. The location of females is unknown to the calling males and thus increasing effective signal range in all directions will maximise transmission effectiveness. However, producing an omnidirectional sound field of high sound pressure levels may be problematic due to the mechanical asymmetry found in this sound generation system. Mechanical asymmetry occurs by the right wing coming to partially cover the left wing during the closing stroke phase of stridulation. As such, it is hypothesised that the sound field on the left-wing side of the animal will contain lower sound pressure components than on the right-wing side as a result of this coverage. This hypothesis was tested using a novel method to accurately record a high resolution, three dimensional mapping of sound pressure levels around restrained Gryllus bimaculatus field crickets singing under pharmacological stimulation. The results indicate that a bilateral asymmetry is present across individuals, with greater amplitude components present in the right wing side of the animal. Individual variation in sound pressure to either the right or left-wing side is also observed. However, statistically significant differences in bilateral sound field asymmetry as presented here may not affect signalling in the field

More on Tachyon Cosmology in De Sitter Gravity

We aim to study rolling tachyon cosmological solutions in de Sitter gravity. The solutions are taken to be flat FRW type and these are not time-reversal symmetric. We find that cosmological constant of our universe has to be fine-tuned at the level of the action itself, as in KKLT string compactification. The rolling tachyon can give rise to required inflation with suitable choice of the initial conditions which include nonvanishing Hubble constant. We also determine an upper bound on the volume of the compactification manifold.Comment: 15pp, 3 figures; references adde

Graviton mass and total relative density of mass Omega_tot in Universe

It is noticed that the total relative density of mass in the Universe Omega_tot should exceed 1, i.e. Omega_tot=1+f^2/6 according to the field relativistic theory of gravity (RTG), which is free of the cosmological singularity and which provides the Euclidean character for the 3-dimensional space. Here f is the ratio of the graviton mass m_g to the contemporary value of the ``Hubble mass'' m^0_H=\hbar H_0/c^2\simeq 3,8\cdot 10^{-66}h(g) (h=0,71\pm0,07). Applying results of the experimental data processing presented in [1] an upper limit for the graviton mass is established as m_g\leq 3,2\cdot 10^{-66}g at the 95% confidence level.Comment: 8 pages, latex fil

Quantum Cryptography Based on the Time--Energy Uncertainty Relation

A new cryptosystem based on the fundamental time--energy uncertainty relation is proposed. Such a cryptosystem can be implemented with both correlated photon pairs and single photon states.Comment: 5 pages, LaTex, no figure

Entangled photon pairs produced by a quantum dot strongly coupled to a microcavity

We show theoretically that entangled photon pairs can be produced on demand through the biexciton decay of a quantum dot strongly coupled to the modes of a photonic crystal. The strong coupling allows to tune the energy of the mixed exciton-photon (polariton) eigenmodes, and to overcome the natural splitting existing between the exciton states coupled with different linear polarizations of light. Polariton states are moreover well protected against dephasing due to their lifetime ten to hundred times shorter than that of a bare exciton. Our analysis shows that the scheme proposed can be achievable with the present technology

Interpolation of Hilbert and Sobolev Spaces: Quantitative Estimates and Counterexamples

This paper provides an overview of interpolation of Banach and Hilbert spaces, with a focus on establishing when equivalence of norms is in fact equality of norms in the key results of the theory. (In brief, our conclusion for the Hilbert space case is that, with the right normalisations, all the key results hold with equality of norms.) In the final section we apply the Hilbert space results to the Sobolev spaces $H^s(\Omega)$ and $\widetilde{H}^s(\Omega)$, for $s\in \mathbb{R}$ and an open $\Omega\subset \mathbb{R}^n$. We exhibit examples in one and two dimensions of sets $\Omega$ for which these scales of Sobolev spaces are not interpolation scales. In the cases when they are interpolation scales (in particular, if $\Omega$ is Lipschitz) we exhibit examples that show that, in general, the interpolation norm does not coincide with the intrinsic Sobolev norm and, in fact, the ratio of these two norms can be arbitrarily large

Environment and classical channels in categorical quantum mechanics

We present a both simple and comprehensive graphical calculus for quantum computing. In particular, we axiomatize the notion of an environment, which together with the earlier introduced axiomatic notion of classical structure enables us to define classical channels, quantum measurements and classical control. If we moreover adjoin the earlier introduced axiomatic notion of complementarity, we obtain sufficient structural power for constructive representation and correctness derivation of typical quantum informatic protocols.Comment: 26 pages, many pics; this third version has substantially more explanations than previous ones; Journal reference is of short 14 page version; Proceedings of the 19th EACSL Annual Conference on Computer Science Logic (CSL), Lecture Notes in Computer Science 6247, Springer-Verlag (2010

Geometry of the 3-Qubit State, Entanglement and Division Algebras

We present a generalization to 3-qubits of the standard Bloch sphere representation for a single qubit and of the 7-dimensional sphere representation for 2 qubits presented in Mosseri {\it et al.}\cite{Mosseri2001}. The Hilbert space of the 3-qubit system is the 15-dimensional sphere $S^{15}$, which allows for a natural (last) Hopf fibration with $S^8$ as base and $S^7$ as fiber. A striking feature is, as in the case of 1 and 2 qubits, that the map is entanglement sensitive, and the two distinct ways of un-entangling 3 qubits are naturally related to the Hopf map. We define a quantity that measures the degree of entanglement of the 3-qubit state. Conjectures on the possibility to generalize the construction for higher qubit states are also discussed.Comment: 12 pages, 2 figures, final versio

Entanglement and the SU(2) phase states in atomic systems

We show that a system of 2n identical two-level atoms interacting with n cavity photons manifests entanglement and that the set of entangled states coincides with the so-called SU(2) phase states. In particular, violation of classical realism in terms of the GHZ and GHSH conditions is proved. We discuss a new property of entanglement expressed in terms of local measurements. We also show that generation of entangled states in the atom-photon systems under consideration strongly depends on the choice of initial conditions and that the parasitic influence of cavity detuning can be compensated through the use of Kerr medium.Comment: 10 pages, 1 figur