Fluorescently labeled bacteria provide insight on post-mortem microbial transmigration

AbstractMicrobially mediated mechanisms of human decomposition begin immediately after death, and are a driving force for the conversion of a once living organism to a resource of energy and nutrients. Little is known about post-mortem microbiology in cadavers, particularly the community structure of microflora residing within the cadaver and the dynamics of these communities during decomposition. Recent work suggests these bacterial communities undergo taxa turnover and shifts in community composition throughout the post-mortem interval. In this paper we describe how the microbiome of a living host changes and transmigrates within the body after death thus linking the microbiome of a living individual to post-mortem microbiome changes. These differences in the human post-mortem from the ante-mortem microbiome have demonstrated promise as evidence in death investigations. We investigated the post-mortem structure and function dynamics of Staphylococcus aureus and Clostridium perfringens after intranasal inoculation in the animal model Mus musculus L. (mouse) to identify how transmigration of bacterial species can potentially aid in post-mortem interval estimations. S. aureus was tracked using in vivo and in vitro imaging to determine colonization routes associated with different physiological events of host decomposition, while C. perfringens was tracked using culture-based techniques. Samples were collected at discrete time intervals associated with various physiological events and host decomposition beginning at 1h and ending at 60 days post-mortem. Results suggest that S. aureus reaches its highest concentration at 5–7 days post-mortem then begins to rapidly decrease and is undetectable by culture on day 30. The ability to track these organisms as they move in to once considered sterile space may be useful for sampling during autopsy to aid in determining post-mortem interval range estimations, cause of death, and origins associated with the geographic location of human remains during death investigations

FNR-mediated regulation of bioluminescence and anaerobic respiration in the light-organ symbiont Vibrio fischeri

Vibrio fischeri induces both anaerobic respiration and bioluminescence during symbiotic infection. In many bacteria, the oxygen-sensitive regulator FNR activates anaerobic respiration, and a preliminary study using the light-generating lux genes from V. fischeri MJ1 cloned in Escherichia coli suggested that FNR stimulates bioluminescence. To test for FNR-mediated regulation of bioluminescence and anaerobic respiration in V. fischeri, we generated fnr mutants of V. fischeri strains MJ1 and ES114. In both strains, FNR was required for normal fumarate- and nitrate-dependent respiration. However, contrary to the report in transgenic E. coli, FNR mediated the repression of lux. ArcA represses bioluminescence, and ParcA-lacZ reporters showed reduced expression in fnr mutants, suggesting a possible indirect effect of FNR on bioluminescence via arcA. Finally, the fnr mutant of ES114 was not impaired in colonization of its host squid, Euprymna scolopes. This study extends the characterization of FNR to the Vibrionaceae and underscores the importance of studying lux regulation in its native background

Drawing Arrangement Graphs In Small Grids, Or How To Play Planarity

We describe a linear-time algorithm that finds a planar drawing of every graph of a simple line or pseudoline arrangement within a grid of area O(n^{7/6}). No known input causes our algorithm to use area \Omega(n^{1+\epsilon}) for any \epsilon>0; finding such an input would represent significant progress on the famous k-set problem from discrete geometry. Drawing line arrangement graphs is the main task in the Planarity puzzle.Comment: 12 pages, 8 figures. To appear at 21st Int. Symp. Graph Drawing, Bordeaux, 201

Correlated N-boson systems for arbitrary scattering length

We investigate systems of identical bosons with the focus on two-body correlations and attractive finite-range potentials. We use a hyperspherical adiabatic method and apply a Faddeev type of decomposition of the wave function. We discuss the structure of a condensate as function of particle number and scattering length. We establish universal scaling relations for the critical effective radial potentials for distances where the average distance between particle pairs is larger than the interaction range. The correlations in the wave function restore the large distance mean-field behaviour with the correct two-body interaction. We discuss various processes limiting the stability of condensates. With correlations we confirm that macroscopic tunneling dominates when the trap length is about half of the particle number times the scattering length.Comment: 15 pages (RevTeX4), 11 figures (LaTeX), submitted to Phys. Rev. A. Second version includes an explicit comparison to N=3, a restructured manuscript, and updated figure

Contribution of rapid evolution of the luxR-luxI intergenic region to the diverse bioluminescence outputs of Vibrio fischeri strains isolated from different environments

Vibrio fischeri serves as a valuable model of bacterial bioluminescence, its regulation, and its functional significance. Light output varies more than 10,000-fold in wild-type isolates from different environments, yet dim and bright strains have similar organization of the light-producing lux genes, with the activator-encoding luxR divergently transcribed from luxICDABEG. By comparing the genomes of bright strain MJ11 and the dimmer ES114, we found that the lux region has diverged more than most shared orthologs, including those flanking lux. Divergence was particularly high in the intergenic sequence between luxR and luxI. Analysis of the intergenic lux region from 18 V. fischeri strains revealed that, with one exception, sequence divergence essentially mirrored strain phylogeny but with relatively high substitution rates. The bases conserved among intergenic luxR-luxI sequences included binding sites for known regulators, such as LuxR and ArcA, and bases of unknown significance, including a striking palindromic repeat. By using this collection of diverse luxR-luxI regions, we found that expression of PluxI-lacZ but not PluxR-lacZ transcriptional reporters correlated with the luminescence output of the strains from which the promoters originated. We also found that exchange of a small stretch of the luxI-luxR intergenic region between two strains largely reversed their relative brightness. Our results show that the luxR-luxI intergenic region contributes significantly to the variable luminescence output among V. fischeri strains isolated from different environments, although other elements of strain backgrounds also contribute. Moreover, the lux system appears to have evolved relatively rapidly, suggesting unknown environment-specific selective pressures

Natural Orbitals and BEC in traps, a diffusion Monte Carlo analysis

We investigate the properties of hard core Bosons in harmonic traps over a wide range of densities. Bose-Einstein condensation is formulated using the one-body Density Matrix (OBDM) which is equally valid at low and high densities. The OBDM is calculated using diffusion Monte Carlo methods and it is diagonalized to obtain the "natural" single particle orbitals and their occupation, including the condensate fraction. At low Boson density, $na^3 < 10^{-5}$, where $n = N/V$ and $a$ is the hard core diameter, the condensate is localized at the center of the trap. As $na^3$ increases, the condensate moves to the edges of the trap. At high density it is localized at the edges of the trap. At $na^3 \leq 10^{-4}$ the Gross-Pitaevskii theory of the condensate describes the whole system within 1%. At $na^3 \approx 10^{-3}$ corrections are 3% to the GP energy but 30% to the Bogoliubov prediction of the condensate depletion. At $na^3 \gtrsim 10^{-2}$, mean field theory fails. At $na^3 \gtrsim 0.1$, the Bosons behave more like a liquid $^4$He droplet than a trapped Boson gas.Comment: 13 pages, 14 figures, submitted Phys. Rev.

A Survey of Finite Algebraic Geometrical Structures Underlying Mutually Unbiased Quantum Measurements

The basic methods of constructing the sets of mutually unbiased bases in the Hilbert space of an arbitrary finite dimension are discussed and an emerging link between them is outlined. It is shown that these methods employ a wide range of important mathematical concepts like, e.g., Fourier transforms, Galois fields and rings, finite and related projective geometries, and entanglement, to mention a few. Some applications of the theory to quantum information tasks are also mentioned.Comment: 20 pages, 1 figure to appear in Foundations of Physics, Nov. 2006 two more references adde

Entanglement Transfer via XXZ Heisenberg chain with DM Interaction

The role of spin-orbit interaction, arises from the Dzyaloshinski-Moriya anisotropic antisymmetric interaction, on the entanglement transfer via an antiferromagnetic XXZ Heisenberg chain is investigated. From symmetrical point of view, the XXZ Hamiltonian with Dzyaloshinski-Moriya interaction can be replaced by a modified XXZ Hamiltonian which is defined by a new exchange coupling constant and rotated Pauli operators. The modified coupling constant and the angle of rotations are depend on the strength of Dzyaloshinski-Moriya interaction. In this paper we study the dynamical behavior of the entanglement propagation through a system which is consist of a pair of maximally entangled spins coupled to one end of the chain. The calculations are performed for the ground state and the thermal state of the chain, separately. In both cases the presence of this anisotropic interaction make our channel more efficient, such that the speed of transmission and the amount of the entanglement are improved as this interaction is switched on. We show that for large values of the strength of this interaction a large family of XXZ chains becomes efficient quantum channels, for whole values of an isotropy parameter in the region $-2 \leq \Delta \leq 2$.Comment: 21 pages, 9 figure

All-particle cosmic ray energy spectrum measured with 26 IceTop stations

We report on a measurement of the cosmic ray energy spectrum with the IceTop air shower array, the surface component of the IceCube Neutrino Observatory at the South Pole. The data used in this analysis were taken between June and October, 2007, with 26 surface stations operational at that time, corresponding to about one third of the final array. The fiducial area used in this analysis was 0.122 km^2. The analysis investigated the energy spectrum from 1 to 100 PeV measured for three different zenith angle ranges between 0{\deg} and 46{\deg}. Because of the isotropy of cosmic rays in this energy range the spectra from all zenith angle intervals have to agree. The cosmic-ray energy spectrum was determined under different assumptions on the primary mass composition. Good agreement of spectra in the three zenith angle ranges was found for the assumption of pure proton and a simple two-component model. For zenith angles {\theta} < 30{\deg}, where the mass dependence is smallest, the knee in the cosmic ray energy spectrum was observed between 3.5 and 4.32 PeV, depending on composition assumption. Spectral indices above the knee range from -3.08 to -3.11 depending on primary mass composition assumption. Moreover, an indication of a flattening of the spectrum above 22 PeV were observed.Comment: 38 pages, 17 figure