Optimal aeroassisted orbital transfer with plane change using collocation and nonlinear programming

The fuel optimal control problem arising in the non-planar orbital transfer employing aeroassisted technology is addressed. The mission involves the transfer from high energy orbit (HEO) to low energy orbit (LEO) with orbital plane change. The basic strategy here is to employ a combination of propulsive maneuvers in space and aerodynamic maneuvers in the atmosphere. The basic sequence of events for the aeroassisted HEO to LEO transfer consists of three phases. In the first phase, the orbital transfer begins with a deorbit impulse at HEO which injects the vehicle into an elliptic transfer orbit with perigee inside the atmosphere. In the second phase, the vehicle is optimally controlled by lift and bank angle modulations to perform the desired orbital plane change and to satisfy heating constraints. Because of the energy loss during the turn, an impulse is required to initiate the third phase to boost the vehicle back to the desired LEO orbital altitude. The third impulse is then used to circularize the orbit at LEO. The problem is solved by a direct optimization technique which uses piecewise polynomial representation for the state and control variables and collocation to satisfy the differential equations. This technique converts the optimal control problem into a nonlinear programming problem which is solved numerically. Solutions were obtained for cases with and without heat constraints and for cases of different orbital inclination changes. The method appears to be more powerful and robust than other optimization methods. In addition, the method can handle complex dynamical constraints

Rate variation in parasitic plants: correlated and uncorrelated patterns among plastid genes of different function

BACKGROUND: The analysis of synonymous and nonsynonymous rates of DNA change can help in the choice among competing explanations for rate variation, such as differences in constraint, mutation rate, or the strength of genetic drift. Nonphotosynthetic plants of the Orobanchaceae have increased rates of DNA change. In this study 38 taxa of Orobanchaceae and relatives were used and 3 plastid genes were sequenced for each taxon. RESULTS: Phylogenetic reconstructions of relative rates of sequence evolution for three plastid genes (rbcL, matK and rps2) show significant rate heterogeneity among lineages and among genes. Many of the non-photosynthetic plants have increases in both synonymous and nonsynonymous rates, indicating that both (1) selection is relaxed, and (2) there has been a change in the rate at which mutations are entering the population in these species. However, rate increases are not always immediate upon loss of photosynthesis. Overall there is a poor correlation of synonymous and nonsynonymous rates. There is, however, a strong correlation of synonymous rates across the 3 genes studied and the lineage-speccific pattern for each gene is strikingly similar. This indicates that the causes of synonymous rate variation are affecting the whole plastid genome in a similar way. There is a weaker correlation across genes for nonsynonymous rates. Here the picture is more complex, as could be expected if there are many causes of variation, differing from taxon to taxon and gene to gene. CONCLUSIONS: The distinctive pattern of rate increases in Orobanchaceae has at least two causes. It is clear that there is a relaxation of constraint in many (though not all) non-photosynthetic lineages. However, there is also some force affecting synonymous sites as well. At this point, it is not possible to tell whether it is generation time, speciation rate, mutation rate, DNA repair efficiency or some combination of these factors

Magnetic field dependence of charge stripe order in La2-xBaxCuO4 (x~1/8)

We have carried out a detailed investigation of the magnetic field dependence of charge ordering in La2-xBaxCuO4 (x~1/8) utilizing high-resolution x-ray scattering. We find that the charge order correlation length increases as the magnetic field greater than ~5T is applied in the superconducting phase (T=2K). The observed unusual field dependence of the charge order correlation length suggests that the static charge stripe order competes with the superconducting ground state in this sample.Comment: 4 pages, 4 figure

Free Energies of Isolated 5- and 7-fold Disclinations in Hexatic Membranes

We examine the shapes and energies of 5- and 7-fold disclinations in low-temperature hexatic membranes. These defects buckle at different values of the ratio of the bending rigidity, $\kappa$, to the hexatic stiffness constant, $K_A$, suggesting {\em two} distinct Kosterlitz-Thouless defect proliferation temperatures. Seven-fold disclinations are studied in detail numerically for arbitrary $\kappa/K_A$. We argue that thermal fluctuations always drive $\kappa/K_A$ into an ``unbuckled'' regime at long wavelengths, so that disclinations should, in fact, proliferate at the {\em same} critical temperature. We show analytically that both types of defects have power law shapes with continuously variable exponents in the ``unbuckled'' regime. Thermal fluctuations then lock in specific power laws at long wavelengths, which we calculate for 5- and 7-fold defects at low temperatures.Comment: LaTeX format. 17 pages. To appear in Phys. Rev.

Evolution of electron transfer out of the cell: comparative genomics of six Geobacter genomes

Background: Geobacter species grow by transferring electrons out of the cell - either to Fe(III)-oxides or to manmade substances like energy-harvesting electrodes. Study of Geobacter sulfurreducens has shown that TCA cycle enzymes, inner-membrane respiratory enzymes, and periplasmic and outer-membrane cytochromes are required. Here we present comparative analysis of six Geobacter genomes, including species from the clade that predominates in the subsurface. Conservation of proteins across the genomes was determined to better understand the evolution of Geobacter species and to create a metabolic model applicable to subsurface environments. Results: The results showed that enzymes for acetate transport and oxidation, and for proton transport across the inner membrane were well conserved. An NADH dehydrogenase, the ATP synthase, and several TCA cycle enzymes were among the best conserved in the genomes. However, most of the cytochromes required for Fe(III)-reduction were not, including many of the outer-membrane cytochromes. While conservation of cytochromes was poor, an abundance and diversity of cytochromes were found in every genome, with duplications apparent in several species. Conclusions: These results indicate there is a common pathway for acetate oxidation and energy generation across the family and in the last common ancestor. They also suggest that while cytochromes are important for extracellular electron transport, the path of electrons across the periplasm and outer membrane is variable. This combination of abundant cytochromes with weak sequence conservation suggests they may not be specific terminal reductases, but rather may be important in their heme-bearing capacity, as sinks for electrons between the inner-membrane electron transport chain and the extracellular acceptor

Evolution from a respiratory ancestor to fill syntrophic and fermentative niches: comparative fenomics of six Geobacteraceae species

<p>Abstract</p> <p>Background</p> <p>The anaerobic degradation of organic matter in natural environments, and the biotechnical use of anaerobes in energy production and remediation of subsurface environments, both require the cooperative activity of a diversity of microorganisms in different metabolic niches. The <it>Geobacteraceae </it>family contains members with three important anaerobic metabolisms: fermentation, syntrophic degradation of fermentation intermediates, and anaerobic respiration.</p> <p>Results</p> <p>In order to learn more about the evolution of anaerobic microbial communities, the genome sequences of six <it>Geobacteraceae </it>species were analyzed. The results indicate that the last common <it>Geobacteraceae </it>ancestor contained sufficient genes for anaerobic respiration, completely oxidizing organic compounds with the reduction of external electron acceptors, features that are still retained in modern <it>Geobacter </it>and <it>Desulfuromonas </it>species. Evolution of specialization for fermentative growth arose twice, via distinct lateral gene transfer events, in <it>Pelobacter carbinolicus </it>and <it>Pelobacter propionicus</it>. Furthermore, <it>P. carbinolicus </it>gained hydrogenase genes and genes for ferredoxin reduction that appear to permit syntrophic growth via hydrogen production. The gain of new physiological capabilities in the <it>Pelobacter </it>species were accompanied by the loss of several key genes necessary for the complete oxidation of organic compounds and the genes for the <it>c</it>-type cytochromes required for extracellular electron transfer.</p> <p>Conclusion</p> <p>The results suggest that <it>Pelobacter </it>species evolved parallel strategies to enhance their ability to compete in environments in which electron acceptors for anaerobic respiration were limiting. More generally, these results demonstrate how relatively few gene changes can dramatically transform metabolic capabilities and expand the range of environments in which microorganisms can compete.</p

Dislocation-mediated growth of bacterial cell walls

Recent experiments have illuminated a remarkable growth mechanism of rod-shaped bacteria: proteins associated with cell wall extension move at constant velocity in circles oriented approximately along the cell circumference (Garner et al., Science (2011), Dominguez-Escobar et al. Science (2011), van Teeffelen et al. PNAS (2011). We view these as dislocations in the partially ordered peptidoglycan structure, activated by glycan strand extension machinery, and study theoretically the dynamics of these interacting defects on the surface of a cylinder. Generation and motion of these interacting defects lead to surprising effects arising from the cylindrical geometry, with important implications for growth. We also discuss how long range elastic interactions and turgor pressure affect the dynamics of the fraction of actively moving dislocations in the bacterial cell wall.Comment: to appear in PNA

Pinning and Tribology of Tethered Monolayers on Disordered Substrates

We study the statistical mechanics and dynamics of crystalline films with a fixed internal connectivity on a random substrate. Defect free triangular lattices exhibit a sharp transition to a low temperature glassy phase with anomalous phonon fluctuations and a nonlinear force-displacement law with a continuously variable exponent, similar to the vortex glass phase of directed lines in 1+1 dimensions. The periodicity of the tethered monolayer acts like a filter which amplifies particular Fourier components of the disorder. However, the absence of annealed topological defects like dislocations is crucial: the transition is destroyed when the constraint of fixed connectivity is relaxed and dislocations are allowed to proliferate.Comment: revtex, preprint style, 27 pages. This submission is a revision of cond-mat/9607184. The revisions affect only Appendix B, Appendix C, and Eqs. 2.27, 2.28, 2.3

"If chemists don’t do it, who is going to?" Peer-driven occupational change and the emergence of green chemistry

Occupational membership guides what people do, how they think of themselves, and how they interact in organizations and with society. While a rich literature explains how occupations adapt in response to external triggers for change, we have limited insight into how occupational incumbents, absent external triggers, work to influence how their peers do their work. We investigate the emergence and growth of “green chemistry,” an effort by chemists to encourage other chemists to reduce the health, safety, and environmental impacts of chemical products and processes. We find that advocates simultaneously advanced normalizing, moralizing, and pragmatizing frames for green chemistry and that each frame resonated differently with chemists in their various occupational roles. While this pluralistic approach generated broad acceptance of the change effort, it also exposed tensions, which threatened the coherence of the change. Divergent responses of advocates to these tensions contribute to a persistent state of pluralism and dynamism in the change effort. We discuss implications for theory on occupational change arising from our attention to internally-generated peer-driven change, heterogeneity within occupations, and change efforts that moralize occupational work.Meyer Fund for Sustainability grant (University of Oregon

Hexatic Order and Surface Ripples in Spherical Geometries

In flat geometries, two dimensional hexatic order has only a minor effect on capillary waves on a liquid substrate and on undulation modes in lipid bilayers. However, extended bond orientational order alters the long wavelength spectrum of these ripples in spherical geometries. We calculate this frequency shift and suggest that it might be detectable in lipid bilayer vesicles, at the surface of liquid metals and in multielectron bubbles in liquid helium at low temperatures. Hexatic order also leads to a shift in the threshold for the fission instability induced in the later two systems by an excess of electric charge.Comment: 5 pages, 1 figure; revised version; to appear in Phys. Rev. Let