Recent Developments in Yugoslav Archaeology

Classical and Mediterranean Archaeolog

The Maximal Denumerant of a Numerical Semigroup

Given a numerical semigroup S = and n in S, we consider the factorization n = c_0 a_0 + c_1 a_1 + ... + c_t a_t where c_i >= 0. Such a factorization is maximal if c_0 + c_1 + ... + c_t is a maximum over all such factorizations of n. We provide an algorithm for computing the maximum number of maximal factorizations possible for an element in S, which is called the maximal denumerant of S. We also consider various cases that have connections to the Cohen-Macualay and Gorenstein properties of associated graded rings for which this algorithm simplifies.Comment: 13 Page

Complete genome sequence of the hippuricase-positive Campylobacter avium Type 5 LMG 24591

cited By 0Campylobacter avium is a thermotolerant Campylobacter species that has been isolated from poultry. C. avium was also the second hippuricase-positive species to be identified within Campylobacter. Here, we present the genome sequence of the C. avium type strain LMG 24591 (= CCUG 56292T), isolated in 2006 from a broiler chicken in Italy. © 2017 Miller et al.Peer reviewe

Modeling the Searching Behavior of Social Monkeys

We discuss various features of the trajectories of spider monkeys looking for food in a tropical forest, as observed recently in an extensive {\it in situ} study. Some of the features observed can be interpreted as the result of social interactions. In addition, a simple model of deterministic walk in a random environment reproduces the observed angular correlations between successive steps, and in some cases, the emergence of L\'evy distributions for the length of the steps.Comment: 7 pages, 3 figure

Structure-function analysis of the curli accessory protein CsgE defines surfaces essential for coordinating amyloid fiber formation

Curli amyloid fibers are produced as part of the extracellular biofilm matrix and are composed primarily of the major structural subunit CsgA. The CsgE chaperone facilitates the secretion of CsgA through CsgG by forming a cap at the base of the nonameric CsgG outer membrane pore. We elucidated a series of finely tuned nonpolar and charge-charge interactions that facilitate the oligomerization of CsgE and its ability to transport unfolded CsgA to CsgG for translocation. CsgE oligomerization in vitro is temperature dependent and is disrupted by mutations in the W48 and F79 residues. Using nuclear magnetic resonance (NMR), we identified two regions of CsgE involved in the CsgE-CsgA interaction: a head comprising a positively charged patch centered around R47 and a stem comprising a negatively charged patch containing E31 and E85. Negatively charged residues in the intrinsically disordered N- and C-terminal “tails” were not implicated in this interaction. Head and stem residues were mutated and interrogated using in vivo measurements of curli production and in vitro amyloid polymerization assays. The R47 head residue of CsgE is required for stabilization of CsgA- and CsgE-mediated curli fiber formation. Mutation of the E31 and E85 stem residues to positively charged side chains decreased CsgE-mediated curli fiber formation but increased CsgE-mediated stabilization of CsgA. No single-amino-acid substitutions in the head, stem, or tail regions affected the ability of CsgE to cap the CsgG pore as determined by a bile salt sensitivity assay. These mechanistic insights into the directed assembly of functional amyloids in extracellular biofilms elucidate possible targets for biofilm-associated bacterial infections.Curli represent a class of functional amyloid fibers produced by Escherichia coli and other Gram-negative bacteria that serve as protein scaffolds in the extracellular biofilm matrix. Despite the lack of sequence conservation among different amyloidogenic proteins, the structural and biophysical properties of functional amyloids such as curli closely resemble those of amyloids associated with several common neurodegenerative diseases. These parallels are underscored by the observation that certain proteins and chemicals can prevent amyloid formation by the major curli subunit CsgA and by alpha-synuclein, the amyloid-forming protein found in Lewy bodies during Parkinson’s disease. CsgA subunits are targeted to the CsgG outer membrane pore by CsgE prior to secretion and assembly into fibers. Here, we use biophysical, biochemical, and genetic approaches to elucidate a mechanistic understanding of CsgE function in curli biogenesis

Stabilization of Hydrodynamic Flows by Small Viscosity Variations

Motivated by the large effect of turbulent drag reduction by minute concentrations of polymers we study the effects of a weakly space-dependent viscosity on the stability of hydrodynamic flows. In a recent Letter [Phys. Rev. Lett. {\bf 87}, 174501, (2001)] we exposed the crucial role played by a localized region where the energy of fluctuations is produced by interactions with the mean flow (the "critical layer"). We showed that a layer of weakly space-dependent viscosity placed near the critical layer can have a very large stabilizing effect on hydrodynamic fluctuations, retarding significantly the onset of turbulence. In this paper we extend these observation in two directions: first we show that the strong stabilization of the primary instability is also obtained when the viscosity profile is realistic (inferred from simulations of turbulent flows with a small concentration of polymers). Second, we analyze the secondary instability (around the time-dependent primary instability) and find similar strong stabilization. Since the secondary instability develops around a time-dependent solution and is three-dimensional, this brings us closer to the turbulent case. We reiterate that the large effect is {\em not} due to a modified dissipation (as is assumed in some theories of drag reduction), but due to reduced energy intake from the mean flow to the fluctuations. We propose that similar physics act in turbulent drag reduction.Comment: 10 pages, 17 figs., REVTeX4, PRE, submitte

Parametric Polyhedra with at least kk Lattice Points: Their Semigroup Structure and the k-Frobenius Problem

Given an integral $d \times n$ matrix $A$, the well-studied affine semigroup \mbox{ Sg} (A)=\{ b : Ax=b, \ x \in {\mathbb Z}^n, x \geq 0\} can be stratified by the number of lattice points inside the parametric polyhedra $P_A(b)=\{x: Ax=b, x\geq0\}$. Such families of parametric polyhedra appear in many areas of combinatorics, convex geometry, algebra and number theory. The key themes of this paper are: (1) A structure theory that characterizes precisely the subset \mbox{ Sg}_{\geq k}(A) of all vectors b \in \mbox{ Sg}(A) such that $P_A(b) \cap {\mathbb Z}^n$ has at least $k$ solutions. We demonstrate that this set is finitely generated, it is a union of translated copies of a semigroup which can be computed explicitly via Hilbert bases computations. Related results can be derived for those right-hand-side vectors $b$ for which $P_A(b) \cap {\mathbb Z}^n$ has exactly $k$ solutions or fewer than $k$ solutions. (2) A computational complexity theory. We show that, when $n$, $k$ are fixed natural numbers, one can compute in polynomial time an encoding of \mbox{ Sg}_{\geq k}(A) as a multivariate generating function, using a short sum of rational functions. As a consequence, one can identify all right-hand-side vectors of bounded norm that have at least $k$ solutions. (3) Applications and computation for the $k$-Frobenius numbers. Using Generating functions we prove that for fixed $n,k$ the $k$-Frobenius number can be computed in polynomial time. This generalizes a well-known result for $k=1$ by R. Kannan. Using some adaptation of dynamic programming we show some practical computations of $k$-Frobenius numbers and their relatives

The primary structure of three hemoglobin chains from the indigo snake (Drymarchon corais erebennus, Serpentes): First evidence for αD chains and two β chain types in snakes

The hemoglobin of the indigo snake (Drymarchon corais erebennus, Colubrinae) consists of two components, HbA and HbD, in the ratio of 1:1. They differ in both their alpha and beta chains. The amino acid sequences of both alpha chains (alpha(A) and alpha(D)) and one beta chain (betaI) were determined. The presence of an alpha(D)chain in a snake hemoglobin is described for the first time. A comparison of all snake beta chain sequences revealed the existence of two paralogous beta chain types in snakes as well, which are designated as betaI and betaII type. For the discussion of the physiological properties of Drymarchon hemoglobin, the sequences were compared with those of the human alpha and beta chains and those of the closely related water snake Liophis miliaris where functional data are available. Among the heme contacts, the substitution alpha(D)58(E7)His-->Gln is unusual but most likely without any effect. The residues responsible for the main part of the Bohr effect are the same as in mammalian hemoglobins. In each of the three globin chains only two residues at positions involved in the alpha1/beta2 interface contacts, most important for the stability and the properties of the hemoglobin molecule, are substituted with regard to human hemoglobin. On the contrary, nine, eleven, and six alpha1/beta1 contact residues are replaced in the alpha(A), alpha(D), betaI chains, respectively

The Biology Instrument for the Viking Mars Mission

Two Viking spacecraft have successfully soft landed on the surface of Mars. Each carries, along with other scientific instruments, one biology laboratory with three different experiments designed to search for evidence of living microorganisms in material sampled from the Martian surface. This 15.5-kg biology instrument which occupies a volume of almost 28.3 dm3 is the first to carry out an in situ search for extraterrestrial life on a planet. The three experiments are called the pyrolytic release, labeled release, and gas exchange. The pyrolytic release experiment has the capability to measure the fixation of carbon dioxide or carbon monoxide into organic matter. The labeled release experiment detects metabolic processes by monitoring the production of volatile carbon compounds from a radioactively labeled nutrient mixture. The gas exchange experiment monitors the gas changes in the head space above a soil sample which is either incubated in a humid environment or supplied with a rich organic nutrient solution. Each experiment can analyze a soil sample as it is received from the surface or, as a control, analyze a soil which has been heated to above 160C. Each instrument has the capability to receive four different soils dug from the Martian surface and perform a number of analysis cycles depending on the particular experiment. This paper describes in detail the design and operation of the three experiments and the supporting subsystems

Turbulent diffusion and drift in galactic magnetic fields and the explanation of the knee in the cosmic ray spectrum

We reconsider the scenario in which the knee in the cosmic ray spectrum is explained as due to a change in the escape mechanism of cosmic rays from the Galaxy from one dominated by transverse diffusion to one dominated by drifts. We solve the diffusion equations adopting realistic galactic field models and using diffusion coefficients appropriate for strong turbulence (with a Kolmogorov spectrum of fluctuations) and consistent with the assumed magnetic fields. We show that properly taking into account these effects leads to a natural explanation of the knee in the spectrum, and a transition towards a heavier composition above the knee is predicted.Comment: 17 pp., 6 figures; revised version with minor changes. To appear in JHE