Immobilization of single strand DNA on solid substrate

Thin films based on Layer-by-Layer (LbL) self assembled technique are useful for immobilization of DNA onto solid support. This communication reports the immobilization of DNA onto a solid support by electrostatic interaction with a polycation Poly (allylamine hydrochloride) (PAH). UV-Vis absorption and steady state fluorescence spectroscopic studies exhibit the characteristics of DNA organized in LbL films. The most significant observation is that single strand DNA are immobilized on the PAH backbone of LbL films when the films are fabricated above the melting temperature of DNA. DNA immobilized in this way on LbL films remains as such when the temperature is restored at room temperature and the organization remains unaffected even after several days. UV-Vis absorption spectroscopic studies confirm this finding.Comment: Eight pages, five figure

Self-gravitating domain walls and the thin-wall limit

We analyse the distributional thin wall limit of self gravitating scalar field configurations representing thick domain wall geometries. We show that thick wall solutions can be generated by appropiate scaling of the thin wall ones, and obtain an exact solution for a domain wall that interpolates between AdS_4 asymptotic vacua and has a well-defined thin wall limit.Solutions representing scalar field configurations obtained via the same scaling but that do not have a thin wall limit are also presented.Comment: 10 pages, revte

Macroscopic Dynamics of Multi-Lane Traffic

We present a macroscopic model of mixed multi-lane freeway traffic that can be easily calibrated to empirical traffic data, as is shown for Dutch highway data. The model is derived from a gas-kinetic level of description, including effects of vehicular space requirements and velocity correlations between successive vehicles. We also give a derivation of the lane-changing rates. The resulting dynamic velocity equations contain non-local and anisotropic interaction terms which allow a robust and efficient numerical simulation of multi-lane traffic. As demonstrated by various examples, this facilitates the investigation of synchronization patterns among lanes and effects of on-ramps, off-ramps, lane closures, or accidents.Comment: For related work see http://www.theo2.physik.uni-stuttgart.de/helbing.htm

Virus shapes and buckling transitions in spherical shells

We show that the icosahedral packings of protein capsomeres proposed by Caspar and Klug for spherical viruses become unstable to faceting for sufficiently large virus size, in analogy with the buckling instability of disclinations in two-dimensional crystals. Our model, based on the nonlinear physics of thin elastic shells, produces excellent one parameter fits in real space to the full three-dimensional shape of large spherical viruses. The faceted shape depends only on the dimensionless Foppl-von Karman number \gamma=YR^2/\kappa, where Y is the two-dimensional Young's modulus of the protein shell, \kappa is its bending rigidity and R is the mean virus radius. The shape can be parameterized more quantitatively in terms of a spherical harmonic expansion. We also investigate elastic shell theory for extremely large \gamma, 10^3 < \gamma < 10^8, and find results applicable to icosahedral shapes of large vesicles studied with freeze fracture and electron microscopy.Comment: 11 pages, 12 figure

Phase space reduction of the one-dimensional Fokker-Planck (Kramers) equation

A pointlike particle of finite mass m, moving in a one-dimensional viscous environment and biased by a spatially dependent force, is considered. We present a rigorous mapping of the Fokker-Planck equation, which determines evolution of the particle density in phase space, onto the spatial coordinate x. The result is the Smoluchowski equation, valid in the overdamped limit, m->0, with a series of corrections expanded in powers of m. They are determined unambiguously within the recurrence mapping procedure. The method and the results are interpreted on the simplest model with no field and on the damped harmonic oscillator.Comment: 13 pages, 1 figur

New primers for promising single-copy genes in fungal phylogenetics and systematics

Developing powerful phylogenetic markers is a key concern in fungal phylogenetics. Here we report degenerate primers that amplify the single-copy genes Mcm7 (MS456) and Tsr1 (MS277) across a wide range of Pezizomycotina (Ascomycota). Phylogenetic analyses of 59 taxa belonging to the Eurotiomycetes, Lecanoromycetes, Leotiomycetes, Lichinomycetes and Sordariomycetes, indicate the utility of these loci for fungal phylogenetics at taxonomic levels ranging from genus to class. We also tested the new primers in silico using sequences of Saccharomycotina, Taphrinomycotina and Basidiomycota to predict their potential of amplifying widely across the Fungi. The analyses suggest that the new primers will need no, or only minor sequence modifications to amplify Saccharomycotina, Taphrinomycotina and Basidiomycota

Disordered Type-II Superconductors: A Universal Phase Diagram for Low-Tc_c Systems

A universal phase diagram for weakly pinned low-T$_c$ type-II superconductors is revisited and extended with new proposals. The low-temperature ``Bragg glass'' phase is argued to transform first into a disordered, glassy phase upon heating. This glassy phase, a continuation of the high-field equilibrium vortex glass phase, then melts at higher temperatures into a liquid. This proposal provides an explanation for the anomalies observed in the peak effect regime of 2H-NbSe$_2$ and several other low-T$_c$ materials which is independent of the microscopic mechanisms of superconductivity in these systems.Comment: 23 pages, 9 figure

Effect of wind speed on aerosol optical depth over remote oceans, based on data from the Maritime Aerosol Network

The Maritime Aerosol Network (MAN) has been collecting data over the oceans since November 2006. The MAN archive provides a valuable resource for aerosol studies in maritime environments. In the current paper we investigate correlations between ship-borne aerosol optical depth (AOD) and near-surface wind speed, either measured (onboard or from satellite) or modeled (NCEP). According to our analysis, wind speed influences columnar aerosol optical depth, although the slope of the linear regression between AOD and wind speed is not steep (~0.004–0.005), even for strong winds over 10 m s−1. The relationships show significant scatter (correlation coefficients typically in the range 0.3–0.5); the majority of this scatter can be explained by the uncertainty on the input data. The various wind speed sources considered yield similar patterns. Results are in good agreement with the majority of previously published relationships between surface wind speed and ship-based or satellite-based AOD measurements. The basic relationships are similar for all the wind speed sources considered; however, the gradient of the relationship varies by around a factor of two depending on the wind data used

Farming and the geography of nutrient production for human use: a transdisciplinary analysis

Background: Information about the global structure of agriculture and nutrient production and its diversity is essential to improve present understanding of national food production patterns, agricultural livelihoods, and food chains, and their linkages to land use and their associated ecosystems services. Here we provide a plausible breakdown of global agricultural and nutrient production by farm size, and also study the associations between farm size, agricultural diversity, and nutrient production. This analysis is crucial to design interventions that might be appropriately targeted to promote healthy diets and ecosystems in the face of population growth, urbanisation, and climate change. Methods: We used existing spatially-explicit global datasets to estimate the production levels of 41 major crops, seven livestock, and 14 aquaculture and fish products. From overall production estimates, we estimated the production of vitamin A, vitamin B₁₂, folate, iron, zinc, calcium, calories, and protein. We also estimated the relative contribution of farms of different sizes to the production of different agricultural commodities and associated nutrients, as well as how the diversity of food production based on the number of different products grown per geographic pixel and distribution of products within this pixel (Shannon diversity index [H]) changes with different farm sizes. Findings: Globally, small and medium farms (≤50 ha) produce 51–77% of nearly all commodities and nutrients examined here. However, important regional differences exist. Large farms (>50 ha) dominate production in North America, South America, and Australia and New Zealand. In these regions, large farms contribute between 75% and 100% of all cereal, livestock, and fruit production, and the pattern is similar for other commodity groups. By contrast, small farms (≤20 ha) produce more than 75% of most food commodities in sub-Saharan Africa, southeast Asia, south Asia, and China. In Europe, west Asia and north Africa, and central America, medium-size farms (20–50 ha) also contribute substantially to the production of most food commodities. Very small farms (≤2 ha) are important and have local significance in sub-Saharan Africa, southeast Asia, and south Asia, where they contribute to about 30% of most food commodities. The majority of vegetables (81%), roots and tubers (72%), pulses (67%), fruits (66%), fish and livestock products (60%), and cereals (56%) are produced in diverse landscapes (H>1·5). Similarly, the majority of global micronutrients (53–81%) and protein (57%) are also produced in more diverse agricultural landscapes (H>1·5). By contrast, the majority of sugar (73%) and oil crops (57%) are produced in less diverse ones (H≤1·5), which also account for the majority of global calorie production (56%). The diversity of agricultural and nutrient production diminishes as farm size increases. However, areas of the world with higher agricultural diversity produce more nutrients, irrespective of farm size. Interpretation: Our results show that farm size and diversity of agricultural production vary substantially across regions and are key structural determinants of food and nutrient production that need to be considered in plans to meet social, economic, and environmental targets. At the global level, both small and large farms have key roles in food and nutrition security. Efforts to maintain production diversity as farm sizes increase seem to be necessary to maintain the production of diverse nutrients and viable, multifunctional, sustainable landscapes. Funding: Commonwealth Scientific and Industrial Research Organisation, Bill & Melinda Gates Foundation, CGIAR Research Programs on Climate Change, Agriculture and Food Security and on Agriculture for Nutrition and Health funded by the CGIAR Fund Council, Daniel and Nina Carasso Foundation, European Union, International Fund for Agricultural Development, Australian Research Council, National Science Foundation, Gordon and Betty Moore Foundation, and Joint Programming Initiative on Agriculture, Food Security and Climate Change—Belmont Forum