6,841 research outputs found
Genetic Characterization of the Tick-Borne Orbiviruses
The International Committee for Taxonomy of Viruses (ICTV) recognizes four species of tick-borne orbiviruses (TBOs): Chenuda virus, Chobar Gorge virus, Wad Medani virus and Great Island virus (genus Orbivirus, family Reoviridae). Nucleotide (nt) and amino acid (aa) sequence comparisons provide a basis for orbivirus detection and classification, however full genome sequence data were only available for the Great Island virus species. We report representative genome-sequences for the three other TBO species (virus isolates: Chenuda virus (CNUV); Chobar Gorge virus (CGV) and Wad Medani virus (WMV)). Phylogenetic comparisons show that TBOs cluster separately from insect-borne orbiviruses (IBOs). CNUV, CGV, WMV and GIV share low level aa/nt identities with other orbiviruses, in 'conserved' Pol, T2 and T13 proteins/genes, identifying them as four distinct virus-species. The TBO genome segment encoding cell attachment, outer capsid protein 1 (OC1), is approximately half the size of the equivalent segment from insect-borne orbiviruses, helping to explain why tick-borne orbiviruses have a ~1 kb smaller genome
Phase Transition in the Number Partitioning Problem
Number partitioning is an NP-complete problem of combinatorial optimization.
A statistical mechanics analysis reveals the existence of a phase transition
that separates the easy from the hard to solve instances and that reflects the
pseudo-polynomiality of number partitioning. The phase diagram and the value of
the typical ground state energy are calculated.Comment: minor changes (references, typos and discussion of results
Random Costs in Combinatorial Optimization
The random cost problem is the problem of finding the minimum in an
exponentially long list of random numbers. By definition, this problem cannot
be solved faster than by exhaustive search. It is shown that a classical
NP-hard optimization problem, number partitioning, is essentially equivalent to
the random cost problem. This explains the bad performance of heuristic
approaches to the number partitioning problem and allows us to calculate the
probability distributions of the optimum and sub-optimum costs.Comment: 4 pages, Revtex, 2 figures (eps), submitted to PR
Noise-induced switching between vortex states with different polarization in classical two-dimensional easy-plane magnets
In the 2-dimensional anisotropic Heisenberg model with XY-symmetry there are
non-planar vortices which exhibit a localized structure of the z-components of
the spins around the vortex center. We study how thermal noise induces a
transition of this structure from one polarization to the opposite one. We
describe the vortex core by a discrete Hamiltonian and consider a stationary
solution of the Fokker-Planck equation. We find a bimodal distribution function
and calculate the transition rate using Langer's instanton theory (1969). The
result is compared with Langevin dynamics simulations for the full many-spin
model.Comment: 15 pages, 4 figures, Phys. Rev. B., in pres
Number partitioning as random energy model
Number partitioning is a classical problem from combinatorial optimisation.
In physical terms it corresponds to a long range anti-ferromagnetic Ising spin
glass. It has been rigorously proven that the low lying energies of number
partitioning behave like uncorrelated random variables. We claim that
neighbouring energy levels are uncorrelated almost everywhere on the energy
axis, and that energetically adjacent configurations are uncorrelated, too.
Apparently there is no relation between geometry (configuration) and energy
that could be exploited by an optimization algorithm. This ``local random
energy'' picture of number partitioning is corroborated by numerical
simulations and heuristic arguments.Comment: 8+2 pages, 9 figures, PDF onl
Alfalfa: Crop for the Future
Alfalfa use by dairy cattle has decreased in recent years because of excessive nonprotein nitrogen and low fiber digestibility. Ideal attributes for plant modification of alfalfa may include those that increase milk potential per acre and/or per ton, enhance digestible NDF, improve protein content and amino acid balance, improve agronomic traits for insect protection (safer forage supply), herbicide tolerance, virus resistance, drought tolerance, cold tolerance, improved mineral availability and enhanced yield. Progress in attaining these attributes will accelerate with the use of biotechnology. Livestock and hay enterprises will benefit from alfalfa that is less prone to contain mycotoxins or toxic weeds, or to induce bloat; have improved nutrient utilization for milk and meat production; and produce less animal wastes resulting in improved efficiency, profitability, and a better environment. Value-added traits of alfalfa are needed to provide farmers new high value profitable products. Processing alfalfa to obtain value added products includes three different fractionation methods: 1) wet fractionation; separation into juice fraction and a fiber fraction, 2) dry fractionation; separation into leaves and stems, and 3) fractionation by passage of the whole herbage through the digestive systems of ruminant animals, leaving a high fiber residue. Phytase from transgenic alfalfa has been tested in poultry and swine rations. Alfalfa hay can be fractionated to yield stems and leaf meal. Alfalfa leaf meal has been shown to be acceptable supplement to replace a portion of alfalfa hay and soybean meal in diets of lactating dairy cattle, replace protein supplement in beef cow diets, finishing steer diets and diets of growing turkeys. The fiber portion of alfalfa can produce lactic acid, ethanol or a bioadhesives for use in plywood
Optimal combinations of imperfect objects
We address the question of how to make best use of imperfect objects, such as
defective analog and digital components. We show that perfect, or near-perfect,
devices can be constructed by taking combinations of such defects. Any
remaining objects can be recycled efficiently. In addition to its practical
applications, our `defect combination problem' provides a novel generalization
of classical optimization problems.Comment: 4 pages, 3 figures, minor change
Internal mode mechanism for collective energy transport in extended systems
We study directed energy transport in homogeneous nonlinear extended systems
in the presence of homogeneous ac forces and dissipation. We show that the
mechanism responsible for unidirectional motion of topological excitations is
the coupling of their internal and translation degrees of freedom. Our results
lead to a selection rule for the existence of such motion based on resonances
that explains earlier symmetry analysis of this phenomenon. The direction of
motion is found to depend both on the initial and the relative phases of the
two harmonic drivings, even in the presence of noise.Comment: Final version, to appear in Physical Review Letter
Soliton ratchets in homogeneous nonlinear Klein-Gordon systems
We study in detail the ratchet-like dynamics of topological solitons in
homogeneous nonlinear Klein-Gordon systems driven by a bi-harmonic force. By
using a collective coordinate approach with two degrees of freedom, namely the
center of the soliton, , and its width, , we show, first, that
energy is inhomogeneously pumped into the system, generating as result a
directed motion; and, second, that the breaking of the time shift symmetry
gives rise to a resonance mechanism that takes place whenever the width
oscillates with at least one frequency of the external ac force. In addition,
we show that for the appearance of soliton ratchets, it is also necesary to
break the time-reversal symmetry. We analyze in detail the effects of
dissipation in the system, calculating the average velocity of the soliton as a
function of the ac force and the damping. We find current reversal phenomena
depending on the parameter choice and discuss the important role played by the
phases of the ac force. Our analytical calculations are confirmed by numerical
simulations of the full partial differential equations of the sine-Gordon and
systems, which are seen to exhibit the same qualitative behavior. Our
results are in agreement with recent experimental work on dissipation induced
symmetry breaking.Comment: Minor corrections, several references added, accepted for publication
in Chao
Vortex motion in a finite-size easy-plane ferromagnet and application to a nanodot
We study the motion of a non-planar vortex in a circular easy-plane
ferromagnet, which imitates a magnetic nanodot. Analysis was done using
numerical simulations and a new collective variable theory which includes the
coupling of Goldstone-like mode with the vortex center. Without magnetic field
the vortex follows a spiral orbit which we calculate. When a rotating in-plane
magnetic field is included, the vortex tends to a stable limit cycle which
exists in a significant range of field amplitude B and frequency for a
given system size L. For a fixed , the radius R of the orbital motion
is proportional to L while the orbital frequency varies as 1/L and is
significantly smaller than . Since the limit cycle is caused by the
interplay between the magnetization and the vortex motion, the internal mode is
essential in the collective variable theory which then gives the correct
estimate and dependency for the orbit radius . Using this
simple theory we indicate how an ac magnetic field can be used to control
vortices observed in real magnetic nanodots.Comment: 15 pages (RevTeX), 14 figures (eps
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