Phase behaviour of DNA in presence of DNA-binding proteins

To characterize the thermodynamical equilibrium of DNA chains interacting with a solution of non-specific binding proteins, a Flory-Huggins free energy model was implemented. We explored the dependence on DNA and protein concentrations of the DNA collapse. For physiologically relevant values of the DNA-protein affinity, this collapse gives rise to a biphasic regime with a dense and a dilute phase; the corresponding phase diagram was computed. Using an approach based on Hamiltonian paths, we show that the dense phase has either a molten globule or a crystalline structure, depending on the DNA bending rigidity, which is influenced by the ionic strength. These results are valid at the thermodynamical equilibrium and should therefore be consistent with many biological processes, whose characteristic timescales range typically from 1 ms to 10 s. Our model may thus be applied to biological phenomena that involve DNA-binding proteins, such as DNA condensation with crystalline order, which occurs in some bacteria to protect their chromosome from detrimental factors; or transcription initiation, which occurs in clusters called transcription factories that are reminiscent of the dense phase characterized in this study.Comment: 20 pages, 9 figures, accepted for publication at The Biophysical Journa

Fuel injector: Air swirl characterization aerothermal modeling, phase 2, volume 1

A well integrated experimental/analytical investigation was conducted to provide benchmark quality relevant to a prefilming type airblast fuel nozzle and its interaction with the combustor dome air swirler. The experimental investigation included a systematic study of both single-phase flows that involved single and twin co-axial jets with and without swirl. A two-component Phase Doppler Particle Analyzer (PDPA) was used to document the interaction of single and co-axial air jets with glass beads that simulate nonevaporating spray and simultaneously avoid the complexities associated with fuel atomization processes and attendant issues about the specification of relevant boundary conditions. The interaction of jets with methanol spray produced by practical airblast nozzle was also documented in the spatial domain of practical interest. Model assessment activities included the use of three turbulence models (k-epsilon, algebraic second moment (ASM), and differential second moment (DSM)) for the carrier phase, deterministic or stochastic Lagrangian treatment of the dispersed phase, and advanced numerical schemes. Although qualitatively good comparison with data was obtained for most of the cases investigated, the model deficiencies in regard to modeled dissipation rate transport equation, single length scale, pressure-strain correlation, and other critical closure issues need to be resolved before one can achieve the degree of accuracy required to analytically design combustion systems

Social and cultural aspects of HIV and AIDS in West Africa: A narrative review of qualitative research

With the increasing focus on the role of social aspects of the HIV epidemic in sub-Saharan Africa, the need for an overview of existing research dealing with such issues has become more urgent. The objective of this article is to provide a thematic overview of existing qualitative research on HIV and AIDS in the West African region and to analyze the main researchfindings in order to identify possible gaps and recommend new research themes to inform future research-based interventions. The analysis is based on a total of 58 articles published from 2001 to 2009 in English or French identified through a literature search in seven scientific, bibliographical databases. Searches included terms related to qualitative studies combined with various terms related to HIV/AIDS. The results of this narrative review show that there was a geographical concentration on Nigeria, Ghana, Burkina Faso and Coˆte d’Ivoire and a strong urban bias, with most studies taking place in the capital cities of these countries. The majority of the studies focused on women or women and men; only four articles dealt exclusively with men, of which only two were on men who have sex with men. The main study groups were people living with HIV, young people or female sex workers. Sexual risk-taking and  stigmatization were the themes that were most prominently explored in the articles we reviewed. We conclude that research needs to be strengthened in relation to the analysis of experiences with antiretroviraltherapy and the non-optimal access to treatment in West Africa. Also, more research is needed on men and their exposure to HIV/AIDS, as well as on the role of concurrent partnership in the spread of HIV

Aerothermal modeling program, phase 2. Element C: Fuel injector-air swirl characterization

The main objectives of the NASA-sponsored Aerothermal Modeling Program, Phase 2--Element C, are experimental evaluation of the air swirler interaction with a fuel injector in a simulated combustor chamber, assessment of the current two-phase models, and verification of the improved spray evaporation/dispersion models. This experimental and numerical program consists of five major tasks. Brief descriptions of the five tasks are given

Aerothermal modeling program, Phase 2, Element C: Fuel injector-air swirl characterization

The main objectives of the NASA sponsored Aerothermal Modeling Program, Phase 2, Element C, are to collect benchmark quality data to quantify the fuel spray interaction with the turbulent swirling flows and to validate current and advanced two phase flow models. The technical tasks involved in this effort are discussed

Aerothermal modeling program, phase 2

The main objectives of the Aerothermal Modeling Program, Phase 2 are: to develop an improved numerical scheme for incorporation in a 3-D combustor flow model; to conduct a benchmark quality experiment to study the interaction of a primary jet with a confined swirling crossflow and to assess current and advanced turbulence and scalar transport models; and to conduct experimental evaluation of the air swirler interaction with fuel injectors, assessments of current two-phase models, and verification the improved spray evaporation/dispersion models

The fear of bad smell: Health risk awareness related to using waste in agricultural production in Vietnam

Waste watersWater reuseAgricultural productionFish farmingIrrigation waterPublic healthRisksSkin diseasesOrganic fertilizersWomen

Water masses constrain the distribution of deep-sea sponges in the North Atlantic Ocean and Nordic Seas

Water masses are bodies of water with distinctive physical and biogeochemical properties. They impart vertical structure to the deep ocean, participate in circulation, and can be traced over great distances, potentially influencing the distributions of deep-sea fauna. The classic potential temperature-salinity (theta-s) diagram was used to investigate deep-sea sponge (demosponge genus Geodia) association with water masses over the North Atlantic Ocean and Nordic Seas. A novel analysis was conducted, based on sampling the curvature of climatological mean theta-s curves at sponge locations. Sponges were particularly associated with turning points in the theta-s curves, indicative of intermediate and deep water masses. Arctic geodiid species (G. hentscheli and G. parva) were associated with Arctic intermediate and deep waters in the Nordic Seas, and with dense overflows into the northern North Atlantic. Boreal species (G. atlantica, G. barretti, G. macandrewii, and G. phlegraei) were associated with upper and intermediate water masses in the Northeast Atlantic and with upper, Atlantic-derived waters in the Nordic Seas. Taken together with distributional patterns, a link with thermohaline currents was also inferred. We conclude that water masses and major current pathways structure the distribution of a key deep-sea benthic faunal group on an ocean basin scale. This is most likely because of a combination of the physical constraints they place on the dispersal of early life-history stages, ecophysiological adaptation (evolved tolerances) to specific water masses, and the benefits to filter-feeders of certain phenomena linked to water column structure (e.g. nepheloid layers, internal waves/ tides, density-driven currents)