Showing papers by "Braunschweig University of Technology published in 2007"
23 May 2007
TL;DR: Model-Driven Engineering (MDE) is typically used to describe software development approaches in which abstract models of software systems are created and systematically transformed to concrete implementations as discussed by the authors, but full realizations of the MDE vision may not be possible in the near to medium-term primarily because of the wicked problems involved.
Abstract: The term model-driven engineering (MDE) is typically used to describe software development approaches in which abstract models of software systems are created and systematically transformed to concrete implementations. In this paper we give an overview of current research in MDE and discuss some of the major challenges that must be tackled in order to realize the MDE vision of software development. We argue that full realizations of the MDE vision may not be possible in the near to medium-term primarily because of the wicked problems involved. On the other hand, attempting to realize the vision will provide insights that can be used to significantly reduce the gap between evolving software complexity and the technologies used to manage complexity.
1,155 citations
TL;DR: Genome sequencing and functional genomic analysis of Alcanivorax borkumensis, the paradigm of OHCB, has provided significant insights into the genomic basis of the efficiency and versatility of its hydrocarbon utilization, the metabolic routes underlying its special hydrocarbon diet, and its ecological success.
775 citations
TL;DR: This review describes volatiles released into the air by bacteria growing on defined media and an effort has been made to organize the compounds according to their biosynthetic origin.
751 citations
TL;DR: The ROSETTA mission as discussed by the authors will rendezvous in 2014 with comet 67P/Churyumov-Gerasimenko close to its aphelion and will study the physical and chemical properties of the nucleus, the evolution of the coma during the comet's approach to the Sun, and the development of the interaction region of the solar wind and the comet, for more than one year until it reaches perihelion.
Abstract: The ROSETTA Mission, the Planetary Cornerstone Mission in the European Space Agency’s long-term programme Horizon 2000, will rendezvous in 2014 with comet 67P/Churyumov-Gerasimenko close to its aphelion and will study the physical and chemical properties of the nucleus, the evolution of the coma during the comet’s approach to the Sun, and the development of the interaction region of the solar wind and the comet, for more than one year until it reaches perihelion. In addition to the investigations performed by the scientific instruments on board the orbiter, the ROSETTA lander PHILAE will be deployed onto the surface of the nucleus. On its way to comet 67P/Churyumov-Gerasimenko, ROSETTA will fly by and study the two asteroids 2867 Steins and 21 Lutetia.
543 citations
TL;DR: This work analyses published and new 16S rDNA sequences from 60 frog species of Amazonia-Guianas to obtain a minimum estimate of the number of undescribed species in this region and proposes a more inclusive pairwise genetic distance of 0.03 between taxa to target lineages that could correspond to candidate species.
Abstract: Background. Amphibians are rapidly vanishing. At the same time, it is most likely that the number of amphibian species is highly underestimated. Recent DNA barcoding work has attempted to define a threshold between intra- and inter-specific genetic distances to help identify candidate species. In groups with high extinction rates and poorly known species boundaries, like amphibians, such tools may provide a way to rapidly evaluate species richness. Methodology. Here we analyse published and new 16S rDNA sequences from 60 frog species of Amazonia-Guianas to obtain a minimum estimate of the number of undescribed species in this region. We combined isolation by distance, phylogenetic analyses, and comparison of molecular distances to evaluate threshold values for the identification of candidate species among these frogs. Principal Findings. In most cases, geographically distant populations belong to genetically highly distinct lineages that could be considered as candidate new species. This was not universal among the taxa studied and thus widespread species of Neotropical frogs really do exist, contrary to previous assumptions. Moreover, the many instances of paraphyly and the wide overlap between distributions of inter- and intra-specific distances reinforce the hypothesis that many cryptic species remain to be described. In our data set, pairwise genetic distances below 0.02 are strongly correlated with geographical distances. This correlation remains statistically significant until genetic distance is 0.05, with no such relation thereafter. This suggests that for higher distances allopatric and sympatric cryptic species prevail. Based on our analyses, we propose a more inclusive pairwise genetic distance of 0.03 between taxa to target lineages that could correspond to candidate species. Conclusions. Using this approach, we identify 129 candidate species, two-fold greater than the 60 species included in the current study. This leads to estimates of around 170 to 460 frog taxa unrecognized in Amazonia-Guianas. Significance. As a consequence the global amphibian decline detected especially in the Neotropics may be worse than realised.
469 citations
TL;DR: Using DNA sequences 5′ to open reading frames, green fluorescent protein (GFP) fusions are constructed and generated spatial and temporal tissue expression profiles for 1,886 specific genes in the nematode Caenorhabditis elegans.
Abstract: Using DNA sequences 5′ to open reading frames, we have constructed green fluorescent protein (GFP) fusions and generated spatial and temporal tissue expression profiles for 1,886 specific genes in the nematode Caenorhabditis elegans. This effort encompasses about 10% of all genes identified in this organism. GFP-expressing wild-type animals were analyzed at each stage of development from embryo to adult. We have identified 5′ DNA regions regulating expression at all developmental stages and in 38 different cell and tissue types in this organism. Among the regulatory regions identified are sequences that regulate expression in all cells, in specific tissues, in combinations of tissues, and in single cells. Most of the genes we have examined in C. elegans have human orthologs. All the images and expression pattern data generated by this project are available at WormAtlas (http://gfpweb.aecom.yu.edu/index) and through WormBase (http://www.wormbase.org).
416 citations
TL;DR: Transport data supports the transport data suggesting that TT12 mediates anthocyanin transport in vitro, and it is proposed that TT 12 transports glycosylated flavan-3-ols in vivo.
Abstract: Phenotypic characterization of the Arabidopsis thaliana transparent testa12 (tt12) mutant encoding a membrane protein of the multidrug and toxic efflux transporter family, suggested that TT12 is involved in the vacuolar accumulation of proanthocyanidin precursors in the seed. Metabolite analysis in tt12 seeds reveals an absence of flavan-3-ols and proanthocyanidins together with a reduction of the major flavonol quercetin-3-O-rhamnoside. The TT12 promoter is active in cells synthesizing proanthocyanidins. Using translational fusions between TT12 and green fluorescent protein, it is demonstrated that this transporter localizes to the tonoplast. Yeast vesicles expressing TT12 can transport the anthocyanin cyanidin-3-O-glucoside in the presence of MgATP but not the aglycones cyanidin and epicatechin. Inhibitor studies demonstrate that TT12 acts in vitro as a cyanidin-3-O-glucoside/H+-antiporter. TT12 does not transport glycosylated flavonols and procyanidin dimers, and a direct transport activity for catechin-3-O-glucoside, a glucosylated flavan-3-ol, was not detectable. However, catechin-3-O-glucoside inhibited TT12-mediated transport of cyanidin-3-O-glucoside in a dose-dependent manner, while flavan-3-ol aglycones and glycosylated flavonols had no effect on anthocyanin transport. It is proposed that TT12 transports glycosylated flavan-3-ols in vivo. Mutant banyuls (ban) seeds accumulate anthocyanins instead of proanthocyanidins, yet the ban tt12 double mutant exhibits reduced anthocyanin accumulation, which supports the transport data suggesting that TT12 mediates anthocyanin transport in vitro.
392 citations
TL;DR: It is suggested that larger and more massive terrestrial-type exoplanets may better protect their atmospheres against CMEs, because the larger cores of such exoplanet would generate stronger magnetic moments and their higher gravitational acceleration would constrain the expansion of their thermosphere-exosphere regions and reduce atmospheric escape.
Abstract: Atmospheric erosion of CO2 -rich Earth-size exoplanets due to coronal mass ejection (CME)-induced ion pick up within close-in habitable zones of active M-type dwarf stars is investigated. Since M s...
346 citations
TL;DR: A novel iterative algorithm is introduced that is able to reliably investigate samples with thicknesses as small as 100microm, samples with low indexes of refraction, as well as samples with sharp peaks in the material parameter curves.
Abstract: We improve the existing data extraction algorithms for THz time-domain spectroscopy (THz TDS) in two aspects. On the one hand, we merge the up-to-date knowledge of THz TDS signal processing into a single powerful optical material parameter extraction algorithm. On the other hand, we introduce a novel iterative algorithm that further enhances the accuracy of the parameter extraction. In contrast to most of the published experiments, we are able to reliably investigate samples with thicknesses as small as 100μm, samples with low indexes of refraction, i.e. close to 1, as well as samples with sharp peaks in the material parameter curves.
327 citations
TL;DR: In this article, a nonlinear exponential regression model from diffusion and photosynthesis theory was developed for estimating CO2 fluxes using closed chambers over short closure times and if the application of nonlinear regression is necessary.
Abstract: . Closed (non-steady state) chambers are widely used for quantifying carbon dioxide (CO2) fluxes between soils or low-stature canopies and the atmosphere. It is well recognised that covering a soil or vegetation by a closed chamber inherently disturbs the natural CO2 fluxes by altering the concentration gradients between the soil, the vegetation and the overlying air. Thus, the driving factors of CO2 fluxes are not constant during the closed chamber experiment, and no linear increase or decrease of CO2 concentration over time within the chamber headspace can be expected. Nevertheless, linear regression has been applied for calculating CO2 fluxes in many recent, partly influential, studies. This approach has been justified by keeping the closure time short and assuming the concentration change over time to be in the linear range. Here, we test if the application of linear regression is really appropriate for estimating CO2 fluxes using closed chambers over short closure times and if the application of nonlinear regression is necessary. We developed a nonlinear exponential regression model from diffusion and photosynthesis theory. This exponential model was tested with four different datasets of CO2 flux measurements (total number: 1764) conducted at three peatlands sites in Finland and a tundra site in Siberia. Thorough analyses of residuals demonstrated that linear regression was frequently not appropriate for the determination of CO2 fluxes by closed-chamber methods, even if closure times were kept short. The developed exponential model was well suited for nonlinear regression of the concentration over time c(t) evolution in the chamber headspace and estimation of the initial CO2 fluxes at closure time for the majority of experiments. However, a rather large percentage of the exponential regression functions showed curvatures not consistent with the theoretical model which is considered to be caused by violations of the underlying model assumptions. Especially the effects of turbulence and pressure disturbances by the chamber deployment are suspected to have caused unexplainable curvatures. CO2 flux estimates by linear regression can be as low as 40% of the flux estimates of exponential regression for closure times of only two minutes. The degree of underestimation increased with increasing CO2 flux strength and was dependent on soil and vegetation conditions which can disturb not only the quantitative but also the qualitative evaluation of CO2 flux dynamics. The underestimation effect by linear regression was observed to be different for CO2 uptake and release situations which can lead to stronger bias in the daily, seasonal and annual CO2 balances than in the individual fluxes. To avoid serious bias of CO2 flux estimates based on closed chamber experiments, we suggest further tests using published datasets and recommend the use of nonlinear regression models for future closed chamber studies.
291 citations
TL;DR: In this article, the reflectivity of smooth, optically thick materials can be modeled with Fresnel equations and a Rayleigh roughness factor calculated from the measured surface height distribution of the sample under observation.
Abstract: Modeling propagation channels for future pico-cellular indoor THz communication systems requires the knowledge of the reflective properties of building materials. The reflectivity of smooth, optically thick materials can be modeled with Fresnel equations. In case of materials with a rough surface, diffuse scattering reduces the power reflected in the specular direction. Kirchhoff scattering theory can be employed to derive modified Fresnel equations which account for these losses by introducing a Rayleigh roughness factor calculated from the measured surface height distribution of the sample under observation. Using the resulting, analytically derived reflection coefficient based on material parameter and surface measurements in propagation models enables the simulation of arbitrary configurations. We present a set of calculated and measured reflection coefficients for a selection of common indoor building materials which are in good agreement, thus verifying our modeling approach. Furthermore, we illustrate by ray-tracing simulations the effect of wall and ceiling roughness on propagation in future indoor scenarios. Both, absolute power levels and propagation patterns are shown to be strongly influenced by scattering. In some cases, reflected transmissions with longer propagation paths can be more efficient than the shorter ones in terms of incurred losses.
TL;DR: Differential scanning calorimetry and X-ray diffraction play a prominent role in the characterization of lipid nanoparticle (LNP) dispersions and their applications in the field of nanodispersions of solid lipids are summarized.
TL;DR: Deletion of the A. niger kusA gene encoding the ortholog of the Ku70 protein in other eukaryotes, dramatically improved homologous integration efficiency and reached more than 80% compared to 7% in the wild-type background, when 500bp homologueous flanks were used.
TL;DR: In this paper, three recycled coarse aggregate (RCA) replacement percentages (i.e., 0, 50% and 100%) and two types of steel rebars (plain and deformed) were considered in order to investigate the bond behavior between recycled aggregate concrete (RAC) and rebars.
TL;DR: The exceptional chaotropicity of MgCl(2) is document here, and it is shown that this property, rather than water activity reduction, inhibits life by denaturing biological macromolecules, in hypersaline environments.
Abstract: The biosphere of planet Earth is delineated by physico-chemical conditions that are too harsh for, or inconsistent with, life processes and maintenance of the structure and function of biomolecules. To define the window of life on Earth (and perhaps gain insights into the limits that life could tolerate elsewhere), and hence understand some of the most unusual biological activities that operate at such extremes, it is necessary to understand the causes and cellular basis of systems failure beyond these windows. Because water plays such a central role in biomolecules and bioprocesses, its availability, properties and behaviour are among the key life-limiting parameters. Saline waters dominate the Earth, with the oceans holding 96.5% of the planet's water. Saline groundwater, inland seas or saltwater lakes hold another 1%, a quantity that exceeds the world's available freshwater. About one quarter of Earth's land mass is underlain by salt, often more than 100 m thick. Evaporite deposits contain hypersaline waters within and between their salt crystals, and even contain large subterranean salt lakes, and therefore represent significant microbial habitats. Salts have a major impact on the nature and extent of the biosphere, because solutes radically influence water's availability (water activity) and exert other activities that also affect biological systems (e.g. ionic, kosmotropic, chaotropic and those that affect cell turgor), and as a consequence can be major stressors of cellular systems. Despite the stressor effects of salts, hypersaline environments can be heavily populated with salt-tolerant or -dependent microbes, the halophiles. The most common salt in hypersaline environments is NaCl, but many evaporite deposits and brines are also rich in other salts, including MgCl(2) (several hundred million tonnes of bischofite, MgCl(2).6H(2)O, occur in one formation alone). Magnesium (Mg) is the third most abundant element dissolved in seawater and is ubiquitous in the Earth's crust, and throughout the Solar System, where it exists in association with a variety of anions. Magnesium chloride is exceptionally soluble in water, so can achieve high concentrations (> 5 M) in brines. However, while NaCl-dominated hypersaline environments are habitats for a rich variety of salt-adapted microbes, there are contradictory indications of life in MgCl(2)-rich environments. In this work, we have sought to obtain new insights into how MgCl(2) affects cellular systems, to assess whether MgCl(2) can determine the window of life, and, if so, to derive a value for this window. We have dissected two relevant cellular stress-related activities of MgCl(2) solutions, namely water activity reduction and chaotropicity, and analysed signatures of life at different concentrations of MgCl(2) in a natural environment, namely the 0.05-5.05 M MgCl(2) gradient of the seawater : hypersaline brine interface of Discovery Basin - a large, stable brine lake almost saturated with MgCl(2), located on the Mediterranean Sea floor. We document here the exceptional chaotropicity of MgCl(2), and show that this property, rather than water activity reduction, inhibits life by denaturing biological macromolecules. In vitro, a test enzyme was totally inhibited by MgCl(2) at concentrations below 1 M; and culture medium with MgCl(2) concentrations above 1.26 M inhibited the growth of microbes in samples taken from all parts of the Discovery interface. Although DNA and rRNA from key microbial groups (sulfate reducers and methanogens) were detected along the entire MgCl(2) gradient of the seawater : Discovery brine interface, mRNA, a highly labile indicator of active microbes, was recovered only from the upper part of the chemocline at MgCl(2) concentrations of less than 2.3 M. We also show that the extreme chaotropicity of MgCl(2) at high concentrations not only denatures macromolecules, but also preserves the more stable ones: such indicator molecules, hitherto regarded as evidence of life, may thus be misleading signatures in chaotropic environments. Thus, the chaotropicity of MgCl(2) would appear to be a window-of-life-determining parameter, and the results obtained here suggest that the upper MgCl(2) concentration for life, in the absence of compensating (e.g. kosmotropic) solutes, is about 2.3 M.
Babraham Institute1, Lund University2, Los Alamos National Laboratory3, University College Dublin4, University of Provence5, University of Bordeaux6, Braunschweig University of Technology7, European Bioinformatics Institute8, University of Kassel9, German Cancer Research Center10, University of Tübingen11, Max Planck Society12, Uppsala University13, Leiden University Medical Center14, Wellcome Trust Sanger Institute15, VU University Amsterdam16, Royal Institute of Technology17, University of Zurich18, University of Rijeka19, University of Konstanz20, Technische Universität München21
TL;DR: ProteomeBinders is a new European consortium aiming to establish a comprehensive resource of well-characterized affinity reagents, including but not limited to antibodies, for analysis of the human proteome.
Abstract: ProteomeBinders is a new European consortium aiming to establish a comprehensive resource of well-characterized affinity reagents, including but not limited to antibodies, for analysis of the human proteome. Given the huge diversity of the proteome, the scale of the project is potentially immense but nevertheless feasible in the context of a pan-European or even worldwide coordination.
TL;DR: The genome sequence of two different strains, plasmidless DSM319 and QM B1551 carrying seven natural plasmids, is now available, which allow for a systems biotechnology optimization of the production host B. megaterium.
Abstract: Bacillus megaterium has been industrially employed for more than 50 years, as it possesses some very useful and unusual enzymes and a high capacity for the production of exoenzymes. It is also a desirable cloning host for the production of intact proteins, as it does not possess external alkaline proteases and can stably maintain a variety of plasmid vectors. Genetic tools for this species include transducing phages and several hundred mutants covering the processes of biosynthesis, catabolism, division, sporulation, germination, antibiotic resistance, and recombination. The seven plasmids of B. megaterium strain QM B1551 contain several unusual metabolic genes that may be useful in bioremediation. Recently, several recombinant shuttle vectors carrying different strong inducible promoters and various combinations of affinity tags for simple protein purification have been constructed. Leader sequences-mediated export of affinity-tagged proteins into the growth medium was made possible. These plasmids are commercially available. For a broader application of B. megaterium in industry, sporulation and protease-deficient as well as UV-sensitive mutants were constructed. The genome sequence of two different strains, plasmidless DSM319 and QM B1551 carrying seven natural plasmids, is now available. These sequences allow for a systems biotechnology optimization of the production host B. megaterium. Altogether, a “toolbox” of hundreds of genetically characterized strains, genetic methods, vectors, hosts, and genomic sequences make B. megaterium an ideal organism for industrial, environmental, and experimental applications.
TL;DR: In this paper, the frequency dependent refractive index and absorption coefficient of a variety of common building and plastic materials between 100 and 1000 GHz were measured for the modeling of bound media propagation phenomena including single and multiple reflections, transmission, diffraction and scattering effects.
Abstract: We present measurements of the frequency dependent refractive index and absorption coefficient of a variety of common building and plastic materials between 100 and 1000 GHz. Accurate knowledge of the material parameters is indispensable for the modeling of bound media propagation phenomena including single and multiple reflections, transmission, diffraction and scattering effects. These models are for example required for a reliable channel simulation to investigate signal propagation in future wireless communication systems operating with Gigabit data rates at frequencies above 100 GHz. Also, the measured material parameters can be used for the investigation and development of THz system components.
TL;DR: The results give strong evidence that the phase, which separates the homogeneous superconducting state from the normal state is a realization of a Fulde-Ferrell-Larkin-Ovchinnikov state.
Abstract: The specific heat of the layered organic superconductor kappa-(BEDT-TTF)(2)Cu(NCS)(2), where BEDT-TTF is bisethylenedithio-tetrathiafulvalene, has been studied in magnetic fields up to 28 T applied perpendicular and parallel to the superconducting layers. In parallel fields above 21 T, the superconducting transition becomes first order, which signals that the Pauli-limiting field is reached. Instead of saturating at this field value, the upper-critical-field increases sharply and a second first-order transition line appears within the superconducting phase. Our results give strong evidence that the phase, which separates the homogeneous superconducting state from the normal state is a realization of a Fulde-Ferrell-Larkin-Ovchinnikov state.
TL;DR: A forward scheme for simulating backward SDEs is introduced that avoids high order nestings of conditional expectations backwards in time and an implementable algorithm is presented and its convergence is proved.
TL;DR: In this article, a transgenic Grey poplar (Populusxcanescens) plants were developed in which gene expression of isoprene synthase was either silenced by RNA interference (RNAi) or upregulated by over-expression of the ISPS gene.
Abstract: The physiological role of isoprene emission in plants is a matter of much debate. One of the most widely propagated hypotheses suggests a function of isoprene in the protection of leaf physiological processes against thermal and oxidative stress. To test this hypothesis, we developed transgenic Grey poplar (Populusxcanescens) plants in which gene expression of isoprene synthase (ISPS) was either silenced by RNA interference (RNAi) or upregulated by over-expression of the ISPS gene. Despite increased ISPS mRNA levels, we did not observe consistent increases in isoprene emission in the over-expressing lines, indicating post-transcriptional control of ISPS by co-suppression. In the RNAi lines, levels of isoprene emission were effectively suppressed to virtually zero. Transgenic plants were subjected to temperature stress with three transient heat phases of 38-40 degrees C, each followed by phases of recovery at 30 degrees C. Parallel measurements of gas exchange, chlorophyll fluorescence and isoprene emission provided new insights into the physiological link between isoprene and enhanced temperature tolerance. Transgenic non-isoprene-emitting poplars showed reduced rates of net assimilation and photosynthetic electron transport during heat stress, but not in the absence of stress. The decrease in the efficiency of photochemistry was inversely correlated with the increase in heat dissipation of absorbed light energy, measured as NPQ (non-photochemical quenching). Isoprene-repressed poplars also displayed an increased formation of the xanthophyll cycle pigment zeaxanthin in the absence of stress, which can cause increased NPQ or may indicate an increased requirement for antioxidants. In conclusion, using a molecular genetic approach, we show that down-regulation of isoprene emission affects thermotolerance of photosynthesis and induces increased energy dissipation by NPQ pathways.
TL;DR: The Bayesian phylogenetic and haplotype network analyses revealed the presence of three separated haplotype clades, suggesting a probable hybridization between M. cowani and M. baroni and at least three units for conservation in the Mantella cowani group.
Abstract: The genus Mantella, endemic poison frogs of Madagascar with 16 described species, are known in the field of international pet trade and entered under the CITES control for the last four years. The phylogeny and phylogeography of this genus have been recently subject of study for conservation purposes. Here we report on the studies of the phylogeography of the Mantella cowani group using a fragment of 453 bp of the mitochondrial cytochrome b gene from 195 individuals from 21 localities. This group is represented by five forms: M. cowani, a critically endangered species, a vulnerable species, M. haraldmeieri, and the non-threatened M. baroni, M. aff. baroni, and M. nigricans. The Bayesian phylogenetic and haplotype network analyses revealed the presence of three separated haplotype clades: (1) M. baroni, M. aff. baroni, M. nigricans, and putative hybrids of M. cowani and M. baroni, (2) M. cowani and putative hybrids of M. cowani and M. baroni, and (3) M. haraldmeieri. The putative hybrids were collected from sites where M. cowani and M. baroni live in sympatry. These results suggest (a) a probable hybridization between M. cowani and M. baroni, (b) a lack of genetic differentiation between M. baroni/M. aff. baroni and M. nigricans, (c) evidence of recent gene-flow between the northern (M. nigricans), eastern (M. baroni), and south-eastern (M. aff. baroni) forms of distinct coloration, and (d) the existence of at least three units for conservation in the Mantella cowani group.
TL;DR: Results show that the DFTB method with the present parameters reproduces structural properties very well, but the bond energies and the relative energies of different spin states only qualitatively compared to the B3LYP/SDD+6-31G(d) density functional (DFT) results.
Abstract: Recently developed parameters for five first-row transition-metal elements (M = Sc, Ti, Fe, Co, and Ni) in combination with H, C, N, and O as well as the same metal (M−M) for the spin-polarized self-consistent-charge density-functional tight-binding (DFTB) method have been calibrated. To test their performance a couple sets of compounds have been selected to represent a variety of interactions and bonding schemes that occur frequently in transition-metal containing systems. The results show that the DFTB method with the present parameters in most cases reproduces structural properties very well, but the bond energies and the relative energies of different spin states only qualitatively compared to the B3LYP/SDD+6-31G(d) density functional (DFT) results. An application to the ONIOM(DFT:DFTB) indicates that DFTB works well as the low level method for the ONIOM calculation.
TL;DR: In this article, a two-level tree search algorithm for solving higher-dimensional orthogonal packing problems to optimality is presented. But this algorithm is not optimal for all two-dimensional test problems from recent literature.
Abstract: Higher-dimensional orthogonal packing problems have a wide range of practical applications, including packing, cutting, and scheduling. Combining the use of our data structure for characterizing feasible packings with our new classes of lower bounds, and other heuristics, we develop a two-level tree search algorithm for solving higher-dimensional packing problems to optimality. Computational results are reported, including optimal solutions for all two-dimensional test problems from recent literature.
This is the third in a series of articles describing new approaches to higher-dimensional packing.
TL;DR: In spite of the recent progress in development of new culturing techniques most extremophiles cannot be cultured using traditional culturing technologies; and the problem of the very low biomass densities often occurs under the conditions hostile for life, which often do not yield enough DNA and reduces the effectiveness of cloning.
TL;DR: The data indicate that Cb is essential for gephyrin‐dependent clustering of a specific set of GABAA receptors, but not required for glycine receptor postsynaptic localization.
Abstract: Collybistin (Cb) is a brain-specific guanine nucleotide exchange factor that has been implicated in plasma membrane targeting of the postsynaptic scaffolding protein gephyrin found at glycinergic and GABAergic synapses. Here we show that Cb-deficient mice display a region-specific loss of postsynaptic gephyrin and GABAA receptor clusters in the hippocampus and the basolateral amygdala. Cb deficiency is accompanied by significant changes in hippocampal synaptic plasticity, due to reduced dendritic GABAergic inhibition. Long-term potentiation is enhanced, and long-term depression reduced, in Cb-deficient hippocampal slices. Consistent with the anatomical and electrophysiological findings, the animals show increased levels of anxiety and impaired spatial learning. Together, our data indicate that Cb is essential for gephyrin-dependent clustering of a specific set of GABAA receptors, but not required for glycine receptor postsynaptic localization.
TL;DR: The problem of nitrogen will be discussed in detail according to the separate problem fields based on the authors' experience, as well as on the basis of a review of the relevant literature.
TL;DR: It is demonstrated that the introduction of a polypeptide linker between the fragment difficult (Fd) and the light chain (LC), resulting in the formation of a single chain Fab fragment (scFab), can lead to improved production of functional molecules.
Abstract: The connection of the variable part of the heavy chain (VH) and and the variable part of the light chain (VL) by a peptide linker to form a consecutive polypeptide chain (single chain antibody, scFv) was a breakthrough for the functional production of antibody fragments in Escherichia coli. Being double the size of fragment variable (Fv) fragments and requiring assembly of two independent polypeptide chains, functional Fab fragments are usually produced with significantly lower yields in E. coli. An antibody design combining stability and assay compatibility of the fragment antigen binding (Fab) with high level bacterial expression of single chain Fv fragments would be desirable. The desired antibody fragment should be both suitable for expression as soluble antibody in E. coli and antibody phage display. Here, we demonstrate that the introduction of a polypeptide linker between the fragment difficult (Fd) and the light chain (LC), resulting in the formation of a single chain Fab fragment (scFab), can lead to improved production of functional molecules. We tested the impact of various linker designs and modifications of the constant regions on both phage display efficiency and the yield of soluble antibody fragments. A scFab variant without cysteins (scFabΔC) connecting the constant part 1 of the heavy chain (CH1) and the constant part of the light chain (CL) were best suited for phage display and production of soluble antibody fragments. Beside the expression system E. coli, the new antibody format was also expressed in Pichia pastoris. Monovalent and divalent fragments (DiFabodies) as well as multimers were characterised. A new antibody design offers the generation of bivalent Fab derivates for antibody phage display and production of soluble antibody fragments. This antibody format is of particular value for high throughput proteome binder generation projects, due to the avidity effect and the possible use of common standard sera for detection.
TL;DR: In this paper, the fluxgate magnetometer experiment onboard the ROSETTA spacecraft aims to measure the magnetic field in the interaction region of the solar wind plasma with comet 67P/Churyumov-Gerasimenko.
Abstract: The fluxgate magnetometer experiment onboard the ROSETTA spacecraft aims to measure the magnetic field in the interaction region of the solar wind plasma with comet 67P/Churyumov-Gerasimenko. It consists of a system of two ultra light (about 28 g each ) triaxial fluxgate magnetometer sensors, mounted on the 1.5 m long spacecraft boom. The measurement range of each sensor is ±16384 nT with quantization steps of 31 pT. The magnetometer sensors are operated with a time resolution of up to 0.05 s, corresponding to a bandwidth of 0–10 Hz. This performance of the RPC-MAG sensors allows detailed analyses of magnetic field variations in the cometary environment. RPC-MAG furthermore is designed to study possible remnant magnetic fields of the nucleus, measurements which will be done in close cooperation with the ROSETTA lander magnetometer experiment ROMAP.
TL;DR: It is shown how a lower bound on a genericEntanglement measure can be derived from the measured expectation values of any finite collection of entanglement witnesses, and witness measurements are given a quantitative meaning without the need of further experimental data.
Abstract: We present a method to estimate entanglement measures in experiments. We show how a lower bound on a generic entanglement measure can be derived from the measured expectation values of any finite collection of entanglement witnesses. Hence witness measurements are given a quantitative meaning without the need of further experimental data. We apply our results to a recent multiphoton experiment [M. Bourennane et al., Phys. Rev. Lett. 92, 087902 (2004)], giving bounds on the entanglement of formation and the geometric measure of entanglement in this experiment.