Analytical results for the plectonemic response of supercoiled DNA

The DNA molecule is modeled as an elastic rod with bending and twisting rigidities, subjected to external tension and twist applied at one end, the other end being clamped. We study the plectonemic equilibrium of such a rod, taking into account the impenetrability constraint. Numerical solutions of this boundary value problem have previously shown that purely elastic models can reproduce the supercoiling response of the DNA molecule. Using a variational approach, we derive analytical formulae for the elastic response of the filament, and extend former numerical results.     

Location and calculation-free node-scheduling schemes in large wireless sensor networks

In wireless sensor networks that consist of a large number of low-power, short-lived, unreliable sensors, one of the main design challenges is to obtain long system lifetime without sacrificing system original performance (sensing coverage and sensing reliability). To solve this problem, one of the potential approaches is to identify redundant nodes at the sensing interface and then assign them an off-duty operation mode that has lower energy consumption than the normal on-duty mode. In our previous work [J. Wireless Commun. Mobile Comput. 3 (2003) 271; Processing of ACM Wireless Sensor Network and Application Workshop 2002, September 2002], we proposed a node-scheduling scheme, which can provide a 100% sensing coverage preservation capability. This, however, requires each node to be aware of its own and its neighbors’ location information. Also, in that scheme, each node has to do accurate geometrical calculation to determine whether to take an off-duty status. In this paper, we propose and study several alternative node-scheduling schemes, which cannot completely preserve the original system coverage, but are nonetheless light-weighted and flexible compared with the previous one. Our simulation results compare these schemes with the previous one and demonstrate their effectiveness.     

Analysis and visualisation with host-based software – The features of STNAnaVist™

This article is based on experiences with data and text mining to gain information for strategic business decisions, using host-based analysis and visualisation (A/V), primarily in the field of patents. The potential advantages of host-based A/V are pointed out and the features of the first such A/V software, STN^®AnaVist™, are described in detail. Areas covered include the user interfaces, initial set of documents for A/V, data mining, text mining, reporting, and suggestions for further development.     

Inhibition of Undesirable Gas Production in Tofu

Of 100 gas-producing bacterial isolates, 65% were Gram-negative. Bacterial growth and gas production in commercial tofu was accompanied by acidification, and pH decreases as low as 5.2. Coliform bacteria constituted 15% of the total bacterial flora. Sporeformers and yeast counts remained < 10³ CFU/mL. Pasteurization was effective in lowering the bacterial counts, and retarded gas production. The addition of lactic acid (reducing pH to 5.5) or lactic acid bacteria (2 × 10⁷ CFU/g) to tofu helped reduce gas production by about 50%. Addition of both lactic acid and Lactobacillus plantarum stopped gas production in contaminated tofu.     

Peridynamic modeling of concrete structures

The peridynamic model described in Silling (Silling, S.A., 1998. Reformation of Elasticity Theory for Discontinuous and Long-Range Forces, SAND98-2176. Sandia National Laboratories, Albuquerque, NM), being a central-force model, is limited to modeling materials with a Poisson's ratio of 1/4. In this paper, the peridynamic model is generalized by adding pairwise peridynamic moments to simulate linear elastic materials with varying Poisson's ratios. The new model is called the “micropolar peridynamic model”. The micropolar peridynamic model is placed within a finite element context to enable efficacious application of boundary conditions and efficient computational solutions using an implicit, rather than an explicit solution algorithm. The implicit solution algorithm is suitable for quasistatic simulation of damage and cracking in concrete structures. With this new model, very simple tensile damage mechanisms at the micro structural (peridynamic) level are sufficient to explain a great deal of the microcracking (damage) and fracture mechanics observed in concrete structures. The new implementation appears to be computationally efficient.     

Does social dominance generate prejudice? Integrating individual and contextual determinants of intergroup cognitions.

Social dominance orientation (SDO) has been proposed as an important variable in the explanation of prejudice. We distinguish between three conceptualizations of SDO: SDO as a personality trait (personality model), SDO as a moderator of the effects of situational variables (Person X Situation model), and SDO as a mediator of the effect of social position on prejudice (group socialization model [GSM]). Four studies (N = 1,657) looking at the relations between social positions, SDO, and prejudice in a natural setting and in a laboratory setting provide strong support for the GSM. In contrast to previous correlational findings, there is evidence of a cause (dominant social position), an effect (prejudice increases), and a mediator (SDO). These results suggest new perspectives on the integration of individual and contextual determinants of prejudice. (PsycINFO Database Record (c) 2010 APA, all rights reserved)     

The determinants of cost efficiency of hydroelectric generating plants: A random frontier approach

This paper analyses the technical efficiency in the hydroelectric generating plants of a main Portuguese electricity enterprise EDP (Electricity of Portugal) between 1994 and 2004, investigating the role played by increase in competition and regulation. A random cost frontier method is adopted. A translog frontier model is used and the maximum likelihood estimation technique is employed to estimate the empirical model. We estimate the efficiency scores and decompose the exogenous variables into homogeneous and heterogeneous. It is concluded that production and capacity are heterogeneous, signifying that the hydroelectric generating plants are very distinct and therefore any energy policy should take into account this heterogeneity. It is also concluded that competition, rather than regulation, plays the key role in increasing hydroelectric plant efficiency.     

Rapid tamoxifen-induced inactivation of an estrogenic response is accompanied by a localized epigenetic modification but not by mutations

Ethidium was found to be efficiently cross-linked to DNA by glyoxal. Kinetic studies showed that the rate of the cross-linking reaction is strongly dependent on the glyoxal concentration. Comparative studies using a series of phenanthridines and acridines showed that NH2 groups at both the 2 and 7 positions on the phenanthridine ring are necessary for efficient cross-linking. Studies using synthetic polydeoxynucleotides showed that the 2-amino group of guanine is absolutely required for cross-linking. Fluorescence contact energy transfer and relative viscosity experiments showed that the cross-linked drug remains intercalated into DNA. DNA gel electrophoresis and melting studies demonstrated that cross-linked ethidium does not dissociate the DNA double helix to single strands.     

Analysis of the Structure and Biosynthesis of the Lipopolysaccharide Core Oligosaccharide of Pseudomonas syringae pv. tomato DC3000

Lipopolysaccharide (LPS), the major component of the outer membrane of Gram-negative bacteria, is important for bacterial viability in general and host–pathogen interactions in particular. Negative charges at its core oligosaccharide (core-OS) contribute to membrane integrity through bridging interactions with divalent cations. The molecular structure and synthesis of the core-OS have been resolved in various bacteria including the mammalian pathogen Pseudomonas aeruginosa. A few core-OS structures of plant-associated Pseudomonas strains have been solved to date, but the genetic components of the underlying biosynthesis remained unclear. We conducted a comparative genome analysis of the core-OS gene cluster in Pseudomonas syringae pv. tomato (Pst) DC3000, a widely used model pathogen in plant–microbe interactions, within the P. syringae species complex and to other plant-associated Pseudomonas strains. Our results suggest a genetic and structural conservation of the inner core-OS but variation in outer core-OS composition within the P. syringae species complex. Structural analysis of the core-OS of Pst DC3000 shows an uncommonly high phosphorylation and presence of an O-acetylated sugar. Finally, we combined the results of our genomic survey with available structure information to estimate the core-OS composition of other Pseudomonas species.