Calculation of the Aqueous Thermodynamic Properties of Citric Acid Cycle Intermediates and Precursors and the Estimation of High Temperature and Pressure Equation of State Parameters

The citric acid cycle (CAC) is the central pathway of energy transfer for many organisms, and understanding the origin of this pathway may provide insight into the origins of metabolism. In order to assess the thermodynamics of this key pathway for microorganisms that inhabit a wide variety of environments, especially those found in high temperature environments, we have calculated the properties and parameters for the revised Helgeson-Kirkham-Flowers equation of state for the major components of the CAC. While a significant amount of data is not available for many of the constituents of this fundamental pathway, methods exist that allow estimation of these missing data

Sulfate Removal from Mine Impacted Waters

Woo Pig Sulfate (WPS) has developed two methods for reducing levels of calcium sulfate in mine impacted waters, a “hot process” and a two-stage nanofiltration process. Both processes were designed to treat gypsum saturated water that is currently being pumped via interceptor wells to prevent the spread of a sulfate plume into a nearby community. Each solution was designed for Freeport McMoran’s Sierrita mine in Green Valley, Arizona, which was visited in order to gain insight about the problem. Below 250 ppm on the treated stream, nanofiltration and the hot process achieve overall recoveries of 84 and 99%, respectively. The waste, concentrated gypsum water, can be disposed of via evaporation ponds. Both processes are similar economically, but the hot process produces less waste, therefore requiring a smaller footprint for the evaporation pond, is less complex due to possessing fewer unit processes, and is less intensive maintenance-wise. However, since the hot process is more expensive than nanofiltration and is unused on an industrial scale, both processes are being presented as viable, with preference for either depending on whether the mine wants to maximize water recovery. A thorough evaluation of potential technologies to treat the impacted mine water was conducted by generating full-scale economic analyses for each process, taking note of the various advantages and disadvantages of each process. When conducting the research, the most important factors taken into account were capital and operating costs, complexity, frequency for maintenance and operator involvement, concentration of sulfate in water recovered, and percent recovery of water fed to the process

Calculation of the relative metastabilities of proteins using the CHNOSZ software package

<p>Abstract</p> <p>Background</p> <p>Proteins of various compositions are required by organisms inhabiting different environments. The energetic demands for protein formation are a function of the compositions of proteins as well as geochemical variables including temperature, pressure, oxygen fugacity and pH. The purpose of this study was to explore the dependence of metastable equilibrium states of protein systems on changes in the geochemical variables.</p> <p>Results</p> <p>A software package called CHNOSZ implementing the revised Helgeson-Kirkham-Flowers (HKF) equations of state and group additivity for ionized unfolded aqueous proteins was developed. The program can be used to calculate standard molal Gibbs energies and other thermodynamic properties of reactions and to make chemical speciation and predominance diagrams that represent the metastable equilibrium distributions of proteins. The approach takes account of the chemical affinities of reactions in open systems characterized by the chemical potentials of basis species. The thermodynamic database included with the package permits application of the software to mineral and other inorganic systems as well as systems of proteins or other biomolecules.</p> <p>Conclusion</p> <p>Metastable equilibrium activity diagrams were generated for model cell-surface proteins from archaea and bacteria adapted to growth in environments that differ in temperature and chemical conditions. The predicted metastable equilibrium distributions of the proteins can be compared with the optimal growth temperatures of the organisms and with geochemical variables. The results suggest that a thermodynamic assessment of protein metastability may be useful for integrating bio- and geochemical observations.</p

Estimation and application of the thermodynamic properties of aqueous phenanthrene and isomers of methylphenanthrene at high temperature

Estimates of standard molal Gibbs energy (ΔGf°) and enthalpy (ΔHf°) of formation, entropy (S°), heat capacity (Cp°) and volume (V°) at 25 °C and 1 bar of aqueous phenanthrene (P) and 1-, 2-, 3-, 4- and 9-methylphenanthrene (1-MP, 2-MP, 3-MP, 4-MP, 9-MP) were made by combining reported standard-state properties of the crystalline compounds, solubilities and enthalpies of phenanthrene and 1-MP, and relative Gibbs energies, enthalpies and entropies of aqueous MP isomers from published quantum chemical simulations. The calculated properties are consistent with greater stabilities of the β isomers (2-MP and 3-MP) relative to the α isomers (1-MP and 9-MP) at 25 °C. However, the metastable equilibrium values of the abundance ratios 2-MP/1-MP (MPR) and (2-MP + 3-MP)/(1-MP + 9-MP) (MPI-3) decrease with temperature, becoming <1 at ~375–455 °C. The thermodynamic model is consistent with observations of reversals of these organic maturity parameters at high temperature in hydrothermal and metamorphic settings. Application of the model to data reported for the Paleoproterozoic Here’s Your Chance (HYC) Pb–Zn–Ag ore deposit (McArthur River, Northern Territory, Australia) indicates a likely effect of high-temperature equilibration on reported values of MPR and MPI-3, but this finding is contingent on the location within the deposit. If metastable equilibrium holds, a third aromatic maturity ratio, 1.5 × (2-MP + 3-MP)/(P + 1-MP + 9-MP) (MPI-1), can be used as a proxy for oxidation potential. Values of log aH2(aq) determined from data reported for HYC and for a sequence of deeply buried source rocks are indicative of more reducing conditions at a given temperature than those inferred from data reported for two sets of samples exposed to contact or regional metamorphism. These results are limiting-case scenarios for the modeled systems that do not account for effects of non-ideal mixing or kinetics, or external sources or transport of the organic matter.Nevertheless, quantifying the temperature dependence of equilibrium constants of organic reactions enables the utilization of organic maturity parameters as relative geothermometers at temperatures higher than the nominal limits of the oil window

"AmaRosa," a Red Skinned, Red Fleshed Fingerling with High Phytonutrient Value

The diversity of traits in varieties of potato outside of its South American birthplace is a small subset of that available in the Andean center of origin. Among the traits that evoke most interest are skin and flesh pigments. Recent studies have pointed to the high antioxidant activity and potential healthful benefits from these pigments or other antioxidant compounds. The market for potatoes with unusual color patterns has been supplied largely by heirloom varieties of uncertain origin and the highly successful Yukon Gold. Interest has intensified and been transformed into a focused effort in the breeding of specialty varieties, remarkable for their unusual colors. The purpose of this paper is to describe a new potato variety in the Fingerling Class with red skin and red flesh.This is the publisher’s final pdf. The article is copyrighted by the Potato Association of America and published by Springer. It can be found at: http://www.springerlink.com/content/1099-209x/Keywords: Fingerling, ORAC, Anthocyanin, Antioxidant

The influence of ultramafic rocks on microbial communities at the Logatchev Hydrothermal field, located 15°N on the Mid-Atlantic Ridge

The ultramafic-hosted Logatchev hydrothermal field (LHF) on the Mid-Atlantic Ridge is characterized by high hydrogen and methane contents in the subseafloor, which support a specialized microbial community of phylogenetically diverse, hydrogen-oxidizing chemolithoautotrophs. We compared the prokaryotic communities of three sites located in the LHF and encountered a predominance of archaeal sequences affiliated with methanogenic Methanococcales at all three. However, the bacterial composition varied in accordance with differences in fluid chemistry between the three sites investigated. An increase in hydrogen seemed to coincide with the diversification of hydrogen-oxidizing bacteria. This might indicate that the host rock indirectly selects this specific group of bacteria. However, next to hydrogen availability further factors are evident (e.g. mixing of hot reduced hydrothermal fluids with cold oxygenated seawater), which have a significant impact on the distribution of microorganism

Ionization constants of aqueous amino acids at temperatures up to 250°C using hydrothermal pH indicators and UV-visible spectroscopy: Glycine, α-alanine, and proline

Ionization constants for several simple amino acids have been measured for the first time under hydrothermal conditions, using visible spectroscopy with a high-temperature, high-pressure flow cell and thermally stable colorimetric pH indicators. This method minimizes amino acid decomposition at high temperatures because the data can be collected rapidly with short equilibration times. The first ionization constant for proline and α-alanine, Ka,COOH, and the first and second ionization constants for glycine, Ka,COOH and Ka,NH4+, have been determined at temperatures as high as 250°C. Values for the standard partial molar heat capacity of ionization, ΔrCpo,COOH and ΔrCpo,NH4+, have been determined from the temperature dependence of ln (Ka,COOH) and ln (Ka,NH4+). The methodology has been validated by measuring the ionization constant of acetic acid up to 250°C, with results that agree with literature values obtained by potentiometric measurements to within the combined experimental uncertainty. We dedicate this paper to the memory of Dr. Donald Irish (1932–2002) of the University of Waterloo—friend and former supervisor of two of the authors (R.J.B. and P.R.T.)

Cooperative formation of porous silica and peptides on the prebiotic Earth

Modern technology has perfected the synthesis of catalysts such as zeolites and mesoporous silicas using organic structure directing agents (SDA) and their industrial use to catalyze a large variety of organic reactions within their pores. We suggest that early in prebiotic evolution, synergistic interplay arose between organic species in aqueous solution and silica formed from rocks by dynamic dissolution-recrystallization. The natural organics, for example, amino acids, small peptides, and fatty acids, acted as SDA for assembly of functional porous silica structures that induced further polymerization of amino acids and peptides, as well as other organic reactions. Positive feedback between synthesis and catalysis in the silica-organic system may have accelerated the early stages of abiotic evolution by increasing the formation of polymerized species