Low-oxygen and chemical kinetic constraints on the geochemical niche of neutrophilic iron(II) oxidizing microorganisms

Neutrophilic iron oxidizing bacteria (FeOB) must actively compete with rapid abiotic processes governing Fe(II) oxidation and as a result have adapted to primarily inhabit low-O₂ environments where they can more successfully compete with abiotic Fe(II) oxidation. The spatial distribution of these microorganisms can be observed through the chemical gradients they affect, as measured using in situ voltammetric analysis for dissolved Fe(II), Fe(III), O₂, and FeS_(aq). Field and laboratory determination of the chemical environments inhabited by the FeOB were coupled with detailed kinetic competition studies for abiotic and biotic oxidation processes using a pure culture of FeOB to quantify the geochemical niche these organisms inhabit. In gradient culture tubes, the maximum oxygen levels, which were associated with growth bands of Sideroxydans lithotrophicus (ES-1, a novel FeOB), were 15-50 μM. Kinetic measurements made on S. lithotrophicus compared biotic/abiotic (killed control) Fe oxidation rates. The biotic rate can be a significant and measurable fraction of the total Fe oxidation rate below O₂ concentrations of approximately 50 μM, but biotic Fe(II) oxidation (via the biotic/abiotic rate comparison) becomes difficult to detect at higher O₂ levels. These results are further supported by observations of conditions supporting FeOB communities in field settings. Variablity in cell densities and cellular activity as well as variations in hydrous ferrous oxide mineral quantities significantly affect the laboratory kinetic rates. The microbial habitat (or geochemical niche) where FeOB are active is thus largely controlled by the competition between abiotic and biotic kinetics, which are dependent on Fe(II) concentration, P_O2, temperature and pH in addition to the surface area of hydrous ferric oxide minerals and the cell density/activity of FeOB. Additional field and lab culture observations suggest a potentially important role for the iron-sulfide aqueous molecular cluster, FeS_(aq), in the overall cycling of iron associated with the environments these microorganisms inhabit.     

The Fe-C system at 5 GPa and implications for Earth’s core

Earth’s core may contain C, and it has been suggested that C in the core could stabilize the formation of a solid inner core composed of Fe₃C. We experimentally examined the Fe-C system at a pressure of 5 GPa and determined the Fe-C phase diagram at this pressure. In addition, we measured solid metal/liquid metal partition coefficients for 17 trace elements and examined the partitioning behavior between Fe₃C and liquid metal for 14 trace elements. Solid metal/liquid metal partition coefficients are similar to those found in one atmosphere studies, indicating that the effect of pressure to 5 GPa is negligible. All measured Fe₃C/liquid metal partition coefficients investigated are less than one, such that all trace elements prefer the C-rich liquid to Fe₃C. Fe₃C/liquid metal partition coefficients tend to decrease with decreasing atomic radii within a given period. Of particular interest, our 5 GPa Fe-C phase diagram does not show any evidence that the Fe-Fe₃C eutectic composition shifts to lower C contents with increasing pressure, which is central to the previous reasoning that the inner core may be composed of Fe₃C.     

Coupled hydrogeological and reactive transport modelling of the Simpevarp area (Sweden)

The Simpevarp area is one of the alternative sites being considered for the deep geological disposal of high level radioactive waste in Sweden. In this paper, a coupled regional groundwater flow and reactive solute transport model of the Simpevarp area is presented that integrates current hydrogeological and hydrochemical data of the area. The model simulates the current hydrochemical pattern of the groundwater system in the area. To that aim, a conceptual hydrochemical model was developed in order to represent the dominant chemical processes. Groundwater flow conditions were reproduced by taking into account fluid-density-dependent groundwater flow and regional hydrogeologic boundary conditions. Reactive solute transport calculations were performed on the basis of the velocity field so obtained. The model was calibrated and sensitivity analyses were carried out in order to investigate the effects of heterogeneities of hydraulic conductivity in the subsurface medium. Results provided by the reactive transport model are in good agreement with much of the measured hydrochemical data. This paper emphasizes the appropriateness of the use of reactive solute transport models when water-rock interaction reactions are involved, and demonstrates what powerful tools they are for the interpretation of hydrogeological and hydrochemical data from site geological repository characterization programs, by providing a qualitative framework for data analysis and testing of conceptual assumptions in a process-oriented approach.     

In situ strength measurements on natural upper-mantle minerals

Using in situ strength measurements at pressures up to 10 GPa and at room temperature, 400, 600, and 700°C, we examined rheological properties of olivine, orthopyroxene, and chromian-spinel contained in a mantle-derived xenolith. Mineral strengths were estimated using widths of X-ray diffraction peaks as a function of pressure, temperature, and time. Differential stresses of all minerals increase with increasing pressure, but they decrease with increasing temperature because of elastic strain on compression and stress relaxation during heating. During compression at room temperature, all minerals deform plastically at differential stress of 4–6 GPa. During subsequent heating, thermally induced yielding is observed in olivine at 600°C. Neither orthopyroxene nor spinel shows complete stress relaxation, but both retain some stress even at 700°C. The strength of the minerals decreases in the order of chromian-spinel ≈ orthopyroxene > olivine for these conditions. This order of strength is consistent with the residual pressure of fluid inclusions in mantle xenoliths.     

Analysis of medaka cytochrome P450 3A homotropic and heterotropic cooperativity

We have previously demonstrated that medaka CYP3A is associated with metabolism of several endobiotics including steroids and bile acids. In this study, we demonstrate that medaka CYP3A catalysis exhibits unusual kinetic behaviors consistent with allosteric interaction which cannot be described by hyperbolic kinetic models. Using 7-benzyloxy-4-(trifluoromethyl)-coumarin (BFC) and nonylphenol as CYP3A substrates, we describe both homotropic and heterotropic cooperative interactions. Given the role of CYP3A in maintaining the homeostatic balance for numerous endobiotics, enzymatic activation/inhibition by endocrine disruptors (EDCs) represents a putative (non-genomic) mechanism for endocrine disruption.     

Constraining the origin and evolution of confined turbidite systems: southern Cretan margin,Eastern Mediterranean Sea (34°30–36°N)

Bathymetric, 9.5-kHz long-range sidescan sonar (OKEAN), seismic reflection and sediment-core data are used in the analysis of two tectonic troughs south of Crete, Eastern Mediterranean Sea. Here, up to 1.2 s two-way travel time (TWTT) of strata have accumulated since the Middle Miocene in association with extension in the South Aegean region. The study area comprises >100-km- long by >25-km-wide basins filled by sediments subdivided into two seismic units: (1) an upper Unit 1 deposited in sub-basins which follow the present-day configuration of the southern Cretan margin; (2) a basal Unit 2, more than 500 ms (TWTT) thick, accumulated in deeper half-graben/grabens distinct from the present-day depocentres. Both units overlap a locally stratified Unit 3 comprising the pre-Neogene core complex of Crete and Gavdos. In this work, the interpreted seismic units are correlated with the onshore stratigraphy, demonstrating that denudation processes occurring on Crete and Gavdos in response to major tectonic events have been responsible for high sedimentation rates along the proximal southern Cretan margin. Consequently, topographically confined sedimentary units have been deposited south of Crete in the last 12 Ma, including turbidites and other mass-flow deposits fed by evolving transverse and axial channel systems. Surface processes controlling facies distribution include the direct inflow of sediment from alluvial-fan systems and incising mountain rivers onto the Cretan slope, where significant sediment instability processes occur at present. In this setting, seismic profiles reveal eight different types of stratigraphic contacts on basin-margin highs, and basinal areas show evidence of halokinesis and/or fluid escape. The acquired data also show that significant changes to the margin’s configuration occurred in association with the post-Alpine tectonic and eustatic episodes affecting the Eastern Mediterranean.     

Depth Zonation, Micro habitat, and Morphology of Three Species of Acanthemblemaria (Pisces: Blennioidea) in the Guif of California, Mexico

Abstract. The utilization of the spatial resources of refuge type, size and depth placement is investigated in the three sympatric species of Acanthemblemaria at the cape region of Baja California, Mexico. A. balanorum occupies barnacle testes (Balanus tintinnabulum), A. macrospilus occupies barnacles and mollusk tubes (vermetid gastropods and pholadids), and A. crockeri occupies only mollusk tubes (pholadids). Refuge diameter overlap is higher than overlap in depth. A. crockeri consistently occupies depths below 5m. Competition experiments for barnacle refuges among the three species indicate that A. balanorum is a superior competitor for such refuges. Prior residency of a less superior species changes the outcome of refuge competition in its favor. The morphological specialization of A. balanorum and A. macrospilus is evident in a high correlation between head size and standard length. A. balanorum selects refuges with entrance diameters highly correlated to standard length.