Biofilm dispersal for spore release in <i>Bacillus subtilis</i>

The dispersal of bacterial cells from a matured biofilm can be mediated either by active or passive mechanisms. In this issue of the Journal of Bacteriology, Nishikawa and Kobayashi demonstrate that the presence of calcium influences the dispersal of spores from the pellicle biofilm of Bacillus subtilis (M. Nishikawa and K. Kobayashi, J Bacteriol 203:e00114-21, 2021, https://doi.org/10.1128/JB.00114-21). The authors propose that temporal heterogeneity in matrix production and chelation of calcium by dipicolinic acid in spores weakens the biofilm matrix and causes passive dispersal

Properties of contact matrices induced by pairwise interactions in proteins

The total conformational energy is assumed to consist of pairwise interaction energies between atoms or residues, each of which is expressed as a product of a conformation-dependent function (an element of a contact matrix, C-matrix) and a sequence-dependent energy parameter (an element of a contact energy matrix, E-matrix). Such pairwise interactions in proteins force native C-matrices to be in a relationship as if the interactions are a Go-like potential [N. Go, Annu. Rev. Biophys. Bioeng. 12. 183 (1983)] for the native C-matrix, because the lowest bound of the total energy function is equal to the total energy of the native conformation interacting in a Go-like pairwise potential. This relationship between C- and E-matrices corresponds to (a) a parallel relationship between the eigenvectors of the C- and E-matrices and a linear relationship between their eigenvalues, and (b) a parallel relationship between a contact number vector and the principal eigenvectors of the C- and E-matrices; the E-matrix is expanded in a series of eigenspaces with an additional constant term, which corresponds to a threshold of contact energy that approximately separates native contacts from non-native ones. These relationships are confirmed in 182 representatives from each family of the SCOP database by examining inner products between the principal eigenvector of the C-matrix, that of the E-matrix evaluated with a statistical contact potential, and a contact number vector. In addition, the spectral representation of C- and E-matrices reveals that pairwise residue-residue interactions, which depends only on the types of interacting amino acids but not on other residues in a protein, are insufficient and other interactions including residue connectivities and steric hindrance are needed to make native structures the unique lowest energy conformations.Comment: Errata in DOI:10.1103/PhysRevE.77.051910 has been corrected in the present versio

Unconventional elasticity in smectic-A elastomers

We study two aspects of the elasticity of smectic-$A$ elastomers that make these materials genuinely and qualitatively different from conventional uniaxial rubbers. Under strain applied parallel to the layer normal, monodomain smectic-$A$ elastomers exhibit a drastic change in Young's modulus above a threshold strain value of about 3%, as has been measured in experiments by Nishikawa and Finkelmann [Macromol. Chem. Phys. {\bf 200}, 312 (1999)]. Our theory predicts that such strains induce a transition to a smectic-$C$-like state and that it is this transition that causes the change in elastic modulus. We calculate the stress-strain behavior as well as the tilt of the smectic layers and the molecular orientation for strain along the layer normal, and we compare our findings with the experimental data. We also study the electroclinic effect in chiral smectic-$A^\ast$ elastomers. According to experiments by Lehmann {\em et al}. [Nature {\bf 410}, 447 (2001)] and K\"{o}hler {\em et al}. [Applied Physics A {\bf 80}, 381 (2003)], this effect leads in smectic-$A^\ast$ elastomers to a giant or, respectively, at least very large lateral electrostriction. Incorporating polarization into our theory, we calculate the height change of smectic-$A^\ast$ elastomer films in response to a lateral external electric field, and we compare this result to the experimental findings.Comment: 12 pages, 6 figure

Electrostatic plasma instabilities excited by a high‐frequency electric field

The electrostatic plasma waves excited by a uniform, alternating electric field of arbitrary intensity are studied on the basis of the Vlasov equation; their dispersion relation, which involves the determinant of either of two infinite matrices, is derived. For ω0 ≫ ωpi (ω0 being the applied frequency and ωpi the ion plasma frequency) the waves may be classified in two groups, each satisfying a simple condition; this allows writing the dispersion relation in closed form. Both groups coalesce (resonance) if (a) ω0  ≈  ωpe/r (r any integer) and (b) the wavenumber k is small. A nonoscillatory instability is found; its distinction from the DuBois‐Goldman instability and its physical origin are discussed. Conditions for its excitation (in particular, upper limits to ω0,k, and k⋅vE,vE being the field‐induced electron velocity), and simple equations for the growth rate are given off‐resonance and at ω0  ≈  ωpi. The dependence of both threshold and maximum growth rate on various parameters is discussed, and the results are compared with those of Silin and Nishikawa. The threshold at ω0  ≈  ωpi/r,r  ≠  1, is studied

Estimation of the mean of a discrete parameter, covariance stationary, stochastic process in rotation sampling

Constrained optimization procedure for deriving linear estimator of population mean in rotation samplin

Reversion phenomena of Cu-Cr alloys

Cu-Cr alloys which were given various aging and reversion treatments were investigated in terms of electrical resistivity and hardness. Transmission electron microscopy was one technique employed. Some results obtained are as follows: the increment of electrical resistivity after the reversion at a constant temperature decreases as the aging temperature rises. In a constant aging condition, the increment of electrical resistivity after the reversion increases, and the time required for a maximum reversion becomes shorter as the reversion temperature rises. The reversion phenomena can be repeated, but its amount decreases rapidly by repetition. At first, the amount of reversion increases with aging time and reaches its maximum, and then tends to decrease again. Hardness changes by the reversion are very small, but the hardness tends to soften slightly. Any changes in transmission electron micrographs by the reversion treatment cannot be detected

Measurements of neutrino oscillation in appearance and disappearance channels by the T2K experiment with 6.6 x 10(20) protons on target

111 pages, 45 figures, submitted to Physical Review D. Minor revisions to text following referee comments111 pages, 45 figures, submitted to Physical Review D. Minor revisions to text following referee comments111 pages, 45 figures, submitted to Physical Review D. Minor revisions to text following referee commentsWe thank the J-PARC staff for superb accelerator performance and the CERN NA61/SHINE Collaboration for providing valuable particle production data. We acknowledge the support of MEXT, Japan; NSERC, NRC, and CFI, Canada; CEA and CNRS/IN2P3, France; DFG, Germany; INFN, Italy; National Science Centre (NCN), Poland; RSF, RFBR and MES, Russia; MINECO and ERDF funds, Spain; SNSF and SER, Switzerland; STFC, UK; and the U. S. Deparment of Energy, USA. We also thank CERN for the UA1/NOMAD magnet, DESY for the HERA-B magnet mover system, NII for SINET4, the WestGrid and SciNet consortia in Compute Canada, GridPP, UK, and the Emerald High Performance Computing facility in the Centre for Innovation, UK. In addition, participation of individual researchers and institutions has been further supported by funds from ERC (FP7), EU; JSPS, Japan; Royal Society, UK; and DOE Early Career program, USA

Weibel instability and associated strong fields in a fully 3D simulation of a relativistic shock

Plasma instabilities (e.g., Buneman, Weibel and other two-stream instabilities) excited in collisionless shocks are responsible for particle (electron, positron, and ion) acceleration. Using a new 3-D relativistic particle-in-cell code, we have investigated the particle acceleration and shock structure associated with an unmagnetized relativistic electron-positron jet propagating into an unmagnetized electron-positron plasma. The simulation has been performed using a long simulation system in order to study the nonlinear stages of the Weibel instability, the particle acceleration mechanism, and the shock structure. Cold jet electrons are thermalized and slowed while the ambient electrons are swept up to create a partially developed hydrodynamic (HD) like shock structure. In the leading shock, electron density increases by a factor of 3.5 in the simulation frame. Strong electromagnetic fields are generated in the trailing shock and provide an emission site. We discuss the possible implication of our simulation results within the AGN and GRB context.Comment: 4 pages, 3 figures, ApJ Letters, in pres

Acceleration Mechanics in Relativistic Shocks by the Weibel Instability

Plasma instabilities (e.g., Buneman, Weibel and other two-stream instabilities) created in collisionless shocks may be responsible for particle (electron, positron, and ion) acceleration. Using a 3-D relativistic electromagnetic particle (REMP) code, we have investigated long-term particle acceleration associated with relativistic electron-ion or electron-positron jet fronts propagating into an unmagnetized ambient electron-ion or electron-positron plasma. These simulations have been performed with a longer simulation system than our previous simulations in order to investigate the nonlinear stage of the Weibel instability and its particle acceleration mechanism. The current channels generated by the Weibel instability are surrounded by toroidal magnetic fields and radial electric fields. This radial electric field is quasi stationary and accelerates particles which are then deflected by the magnetic field.Comment: 17 pages, 5 figures, accepted for publication in ApJ, A full resolution ot the paper can be found at http://gammaray.nsstc.nasa.gov/~nishikawa/accmec.pd

Particle Acceleration, Magnetic Field Generation, and Emission in Relativistic Shocks

Shock acceleration is an ubiquitous phenomenon in astrophysical plasmas. Plasma waves and their associated instabilities (e.g., Buneman, Weibel and other two-stream instabilities) created in collisionless shocks are responsible for particle (electron, positron, and ion) acceleration. Using a 3-D relativistic electromagnetic particle (REMP) code, we have investigated particle acceleration associated with a relativistic jet front propagating into an ambient plasma. We find small differences in the results for no ambient and modest ambient magnetic fields. Simulations show that the Weibel instability created in the collisionless shock front accelerates jet and ambient particles both perpendicular and parallel to the jet propagation direction. The small scale magnetic field structure generated by the Weibel instability is appropriate to the generation of ``jitter'' radiation from deflected electrons (positrons) as opposed to synchrotron radiation. The jitter radiation resulting from small scale magnetic field structures may be important for understanding the complex time structure and spectral evolution observed in gamma-ray bursts or other astrophysical sources containing relativistic jets and relativistic collisionless shocks.Comment: 6 pages, 1 figure, revised and accepted for Advances in Space Research (35th COSPAR Scientific Assembly, Paris, 18-25 July 2004