Geochemical and Microbial Community Attributes in Relation to Hyporheic Zone Geological Facies.

The hyporheic zone (HZ) is the active ecotone between the surface stream and groundwater, where exchanges of nutrients and organic carbon have been shown to stimulate microbial activity and transformations of carbon and nitrogen. To examine the relationship between sediment texture, biogeochemistry, and biological activity in the Columbia River HZ, the grain size distributions for sediment samples were characterized to define geological facies, and the relationships among physical properties of the facies, physicochemical attributes of the local environment, and the structure and activity of associated microbial communities were examined. Mud and sand content and the presence of microbial heterotrophic and nitrifying communities partially explained the variability in many biogeochemical attributes such as C:N ratio and %TOC. Microbial community analysis revealed a high relative abundance of putative ammonia-oxidizing Thaumarchaeota and nitrite-oxidizing Nitrospirae. Network analysis showed negative relationships between sets of co-varying organisms and sand and mud contents, and positive relationships with total organic carbon. Our results indicate grain size distribution is a good predictor of biogeochemical properties, and that subsets of the overall microbial community respond to different sediment texture. Relationships between facies and hydrobiogeochemical properties enable facies-based conditional simulation/mapping of these properties to inform multiscale modeling of hyporheic exchange and biogeochemical processes.

Environmental chemistry of chromium.

The processes that control the environmental chemistry of chromium include redox transformation, precipitation/dissolution, and adsorption/desorption reactions. Commonly occurring reductants, such as ferrous iron and organic material, can transform Cr(VI) to Cr(III), but manganese oxides are the only inorganic oxidants found in the environment that cause the rapid oxidation of Cr(III) to Cr(VI). In the trivalent state, chromium readily forms compounds such as Cr(OH)3 and (Cr,Fe)(OH)3. These solids show amphoteric solubility behavior, with hydroxo complexes being the dominant aqueous species of Cr(III). The relatively low solubilities of Cr(OH)3 and (Cr,Fe)(OH)3 limit Cr(III) concentrations to less than the drinking water limit over much of the pH range of environmental interest. In the hexavalent state, the formation of the Ba(S,Cr)O4 solid solution controls the dissolved chromium concentrations in environments that contain BaSO4. In the absence of solubility-controlling Cr(VI) solids, Cr(VI) concentrations in acidic to slightly alkaline conditions are expected to be limited by adsorption. Iron oxides are the most important absorbents for aqueous Cr(VI) species in most soil environments. Although these processes are complex and interrelated, each must be considered to predict the aqueous concentrations, mobility, and toxicity of chromium in the environment.

River-induced flow dynamics in long-screen wells and impact on aqueous samples.

Previously published field investigations and modeling studies have demonstrated the potential for sample bias associated with vertical wellbore flow in conventional monitoring wells constructed with long-screened intervals. This article builds on the existing body of literature by (1) demonstrating the utility of continuous (i.e., hourly measurements for ∼1 month) ambient wellbore flow monitoring and (2) presenting results from a field experiment where relatively large wellbore flows (up to 4 L/min) were induced by aquifer hydrodynamics associated with a fluctuating river boundary located approximately 250 m from the test well. The observed vertical wellbore flows were strongly correlated with fluctuations in river stage, alternating between upward and downward flow throughout the monitoring period in response to changes in river stage. Continuous monitoring of ambient wellbore flows using an electromagnetic borehole flowmeter allowed these effects to be evaluated in concert with continuously monitored river-stage elevations (hourly) and aqueous uranium concentrations (daily) in a long-screen well and an adjacent multilevel well cluster. This study demonstrates that when contaminant concentrations within the aquifer vary significantly over the depth interval interrogated, river-induced vertical wellbore flow can result in variations in measured concentration that nearly encompass the full range of variation in aquifer contaminant concentration with depth.

Role of outer-membrane cytochromes MtrC and OmcA in the biomineralization of ferrihydrite by Shewanella oneidensis MR-1.

In an effort to improve the understanding of electron transfer mechanisms at the microbe-mineral interface, Shewanella oneidensis MR-1 mutants with in-frame deletions of outer-membrane cytochromes (OMCs), MtrC and OmcA, were characterized for the ability to reduce ferrihydrite (FH) using a suite of microscopic, spectroscopic, and biochemical techniques. Analysis of purified recombinant proteins demonstrated that both cytochromes undergo rapid electron exchange with FH in vitro with MtrC displaying faster transfer rates than OmcA. Immunomicroscopy with cytochrome-specific antibodies revealed that MtrC co-localizes with iron solids on the cell surface while OmcA exhibits a more diffuse distribution over the cell surface. After 3-day incubation of MR-1 with FH, pronounced reductive transformation mineral products were visible by electron microscopy. Upon further incubation, the predominant phases identified were ferrous phosphates including vivianite [Fe(3)(PO(4))(2)x8H(2)O] and a switzerite-like phase [Mn(3),Fe(3)(PO(4))(2)x7H(2)O] that were heavily colonized by MR-1 cells with surface-exposed outer-membrane cytochromes. In the absence of both MtrC and OmcA, the cells ability to reduce FH was significantly hindered and no mineral transformation products were detected. Collectively, these results highlight the importance of the outer-membrane cytochromes in the reductive transformation of FH and support a role for direct electron transfer from the OMCs at the cell surface to the mineral.

Electron transfer at the microbe-mineral interface: a grand challenge in biogeochemistry.

The interplay between microorganisms and minerals is a complex and dynamic process that has sculpted the geosphere for nearly the entire history of the Earth. The work of Dr Terry Beveridge and colleagues provided some of the first insights into metal-microbe and mineral-microbe interactions and established a foundation for subsequent detailed investigations of interactions between microorganisms and minerals. Beveridge also envisioned that interdisciplinary approaches and teams would be required to explain how individual microbial cells interact with their immediate environment at nano- or microscopic scales and that through such approaches and using emerging technologies that the details of such interactions would be revealed at the molecular level. With this vision as incentive and inspiration, a multidisciplinary, collaborative team-based investigation was initiated to probe the process of electron transfer (ET) at the microbe-mineral interface. The grand challenge to this team was to address the hypothesis that multiheme c-type cytochromes of dissimilatory metal-reducing bacteria localized to the cell exterior function as the terminal reductases in ET to Fe(III) and Mn(IV) oxides. This question has been the subject of extensive investigation for years, yet the answer has remained elusive. The team involves an integrated group of experimental and computational capabilities at US Department of Energy's Environmental Molecular Sciences Laboratory, a national scientific user facility, as the collaborative focal point. The approach involves a combination of in vitro and in vivo biologic and biogeochemical experiments and computational analyses that, when integrated, provide a conceptual model of the ET process. The resulting conceptual model will be evaluated by integrating and comparing various experimental, i.e. in vitro and in vivo ET kinetics, and theoretical results. Collectively, the grand challenge will provide a detailed view of how organisms engage with mineral surfaces to exchange energy and electron density as required for life function.

Reduction of Tc(VII) by Fe(II) sorbed on Al (hydr)oxides.

Under oxic conditions, Tc exists as the soluble, weakly sorbing pertechnetate [TcO4-] anion. The reduced form of technetium, Tc(IV), is stable in anoxic environments and is sparingly soluble as TcO2 x nH2O(s). Here we investigate the heterogeneous reduction of Tc(VII) by Fe(II) adsorbed on Al (hydr)oxides [diaspore (alpha-AlOOH) and corundum (alpha-Al2O3)]. Experiments were performed to study the kinetics of Tc(VII) reduction, examine changes in Fe surface speciation during Tc(VII) reduction (Mössbauer spectroscopy), and identify the nature of Tc(IV)-containing reaction products (X-ray absorption spectroscopy). We found that Tc(VII) was completely reduced by adsorbed Fe(II) within 11 (diaspore suspension) and 4 days (corundum suspension). Mössbauer measurements revealed thatthe Fe(II) signal became less intense with Tc(VII) reduction and was accompanied by an increase in the intensity of the Fe(III) doublet and magnetically ordered Fe(III) sextet signals. Tc-EXAFS spectroscopy revealed that the final heterogeneous redox product on corundum was similar to Tc(IV) oxyhydroxide, TcO2 x nH2O.

Spectroscopic evidence for uranium bearing precipitates in vadose zone sediments at the Hanford 300-area site.

Uranium (U) solid-state speciation in vadose zone sediments collected beneath the former North Process Pond (NPP) in the 300 Area of the Hanford site (Washington) was investigated using multi-scale techniques. In 30 day batch experiments, only a small fraction of total U (approximately 7.4%) was released to artificial groundwater solutions equilibrated with 1% pCO2. Synchrotron-based micro-X-rayfluorescence spectroscopy analyses showed that U was distributed among at least two types of species: (i) U discrete grains associated with Cu and (ii) areas with intermediate U concentrations on grains and grain coatings. Metatorbernite (Cu[UO2]2[PO4]2 x 8H2O) and uranophane (Ca[UO2]2[SiO3(OH)]2 x 5H2O) at some U discrete grains, and muscovite at U intermediate concentration areas, were identified in synchrotron-based micro-X-ray diffraction. Scanning electron microscopy/energy dispersive X-ray analyses revealed 8-10 microm size metatorbernite particles that were embedded in C-, Al-, and Si-rich coatings on quartz and albite grains. In mu- and bulk-X-ray absorption structure (mu-XAS and XAS) spectroscopy analyses, the structure of metatorbernite with additional U-C and U-U coordination environments was consistently observed at U discrete grains with high U concentrations. The consistency of the mu- and bulk-XAS analyses suggests that metatorbernite may comprise a significant fraction of the total U in the sample. The entrapped, micrometer-sized metatorbernite particles in C-, Al-, and Si-rich coatings, along with the more soluble precipitated uranyl carbonates and uranophane, likely control the long-term release of U to water associated with the vadose zone sediments.

Uncertainties of Monod kinetic parameters nonlinearly estimated from batch experiments.

Monod kinetic parameters (Ks, micromax, and Y) that are estimated from batch experimental data can have large uncertainties due to linear correlations between them. The degree of correlation and the resulting uncertainties of the Monod parameters are functions of the initial experimental conditions, the values of the parameters, the type and magnitude of measurement errors, and the sampling number. Careful manipulation of experimental conditions can reduce the correlations between Monod parameters allowing for the estimation of Monod kinetic parameters with the lowest degree of uncertainty. By dimensionless analysis, the correlation and relative standard deviations of Monod parameters were found to be functions of a few dimensionless variables involving the initial substrate (S0) and cell (X0) concentrations. Quantitative relationships were analyzed between the dimensionless variables and the correlation and the uncertainties of the Monod parameters. This analysis allowed for identification of the optimal experimental conditions for estimating Monod parameters under both no growth and growth conditions coupled with two kinds of measurement errors: those with constant absolute standard deviation and those with constant relative standard deviation. Examples involving the microbial reduction of iron(III) as an electron acceptor are used to illustrate the application of the developed technique.

Kinetic analysis of the bacterial reduction of goethite.

The kinetics of dissimilatory reduction of goethite (alpha-FeOOH) was studied in batch cultures of a groundwater bacterium, Shewanella putrefaciens, strain CN32 in pH 7 bicarbonate buffer. The rate and extent of goethite reduction were measured as a function of electron acceptor (goethite) and donor (lactate) concentrations. Increasing goethite concentrations increased both the rate and extent of Fe(III) reduction when cell and lactate concentrations were held constant. However, constant initial reduction rates were observed after normalization to the Fe(II) sorption capacity of FeOOH, suggesting that the bacterial reduction rate was first orderwith respect to surface site concentration. Increasing the lactate concentration also increased the rate and extent of FeOOH reduction. Monod-type kinetic behaviorwas observed with respectto lactate concentration. Fe(II) sorption on FeOOH was well-described by the Langmuir sorption isotherm. However, the Fe(II) sorption capacities hyperbolically decreased with increasing FeOOH concentration (10-100 mM) implying aggregation, while the affinity constant between Fe(II) and goethite was constant (log K approximately equals 3). Evaluation of the end states of the variable FeOOH and lactate experiments when iron reduction ceased indicated a consistent excess in reaction free energy of -22.7 kJ/mol. This value was remarkably close to the minimum value reported for bacteria to mediate a given reaction (-20 kJ/mol). X-ray diffraction (XRD) and scanning electron microscopy (SEM) indicated that siderite (FeCO3) was the only biogenic Fe(II) solid formed upon FeOOH bioreduction. A kinetic biogeochemical model that incorporated Monod kinetics with respect to lactate concentration, first-order kinetics with respectto goethite surface concentration, a Gibbs free energy availability factor, the rates of Fe(II) sorption on goethite and siderite precipitation, and aqueous speciation reactions was applied to the experimental data. Using independently estimated parameters, the developed model successfully described bacterial goethite reduction with variable FeOOH and lactate concentrations.

Microbial reduction of Fe(III) and sorption/precipitation of Fe(II) on Shewanella putrefaciens strain CN32.

The influence of Fe(II) on the dissimilatory bacterial reduction of an Fe(III) aqueous complex (Fe(III)-citrate(aq)) was investigated using Shewanella putrefaciens strain CN32. The sorption of Fe(II) on CN32 followed a Langmuir isotherm. Least-squares fitting gave a maximum sorption capacity of Qmax = 4.19 x 10(-3) mol/10(12) cells (1.19 mmol/m2 of cell surface area) and an affinity coefficient of log K = 3.29. The growth yield of CN32 with respect to Fe(III)aq reduction showed a linear trend with an average value of 5.24 (+/-0.12) x 10(9) cells/mmol of Fe(III). The reduction of Fe(III)aq by CN32 was described by Monod kinetics with respect to the electron acceptor concentration, Fe(III)aq, with a half-saturation constant (Ks) of 29 (+/-3) mM and maximum growth rate (micromax) of 0.32 (+/-0.02) h(-1). However, the pretreatment of CN32 with Fe(II)aq significantly inhibited the reduction of Fe(III)aq, resulting in a lag phase of about 3-30 h depending on initial cell concentrations. Lower initial cell concentration led to longer lag phase duration, and higher cell concentration led to a shorter one. Transmission electron microscopy and energy dispersive spectroscopy revealed that many cells carried surface precipitates of Fe mineral phases (valence unspecified) during the lag phase. These precipitates disappeared after the cells recovered from the lag phase. The cell inhibition and recovery mechanisms from Fe(II)-induced mineral precipitation were not identified by this study, but several alternatives were discussed. A modified Monod model incorporating a lag phase, Fe(II) adsorption, and aqueous complexation reactions was able to describe the experimental results of microbial Fe(III)aq reduction and cell growth when cells were pretreated with Fe(II)aq.

Physiological diversity and distributions of heterotrophic bacteria in deep cretaceous sediments of the atlantic coastal plain.

A series of 23 intact core segments was obtained from two distinct deep subsurface geological formations, the Middendorf and the Cape Fear formations, underlying the southeastern coastal plain of South Carolina. The Middendorf formation in this region consists of permeable, saturated, sandy sediments; the Cape Fear formation consists mainly of less permeable sediments. The core segments were separated by vertical distances ranging from several centimeters to 48 m. Aerobic chemoheterotrophic bacteria were enumerated on a dilute medium, and populations ranged from 3.1 to 6.4 log CFU g of sediment in the Middendorf cores and from below detection to 4.3 log CFU g in the Cape Fear cores. A total of 198 morphologically distinct colony types were isolated, purified, and subjected to 108 different physiological measurements. The isolates from the two formations were distinct (i.e., they produced substantially different response patterns to the various physiological measurements), as were those in different core samples from the same formation. Cluster analysis revealed 21 different biotypes based on similarities of 75% or higher in response patterns to 21 physiological assays. One biotype contained 57 (29%) of the subsurface isolates, 10 biotypes contained 5 or more isolates, and the remainder had 4 or fewer. The organic compounds that were most commonly metabolized by the subsurface bacteria included Tween 40 (85%) and beta-hydroxybutyric acid (60%). Organic acids, in general, were also commonly metabolized by the subsurface bacteria. Isolates from the Cape Fear core segments were capable of metabolizing a higher percentage of the substrates than were bacteria isolated from the Middendorf formation. Although the heterogeneous distributions of bacteria in deep subsurface sediments may make it difficult to use aquifer microcosms to predict in situ biotransformation rates, the diversity of the physiological properties of these organisms offers promise for in situ remediation of contaminants.

Biotransformation of Ni-substituted hydrous ferric oxide by an Fe(III)-reducing bacterium.

The reductive biotransformation of a Ni(2+)-substituted (5 mol %) hydrous ferric oxide (NiHFO) by Shewanella putrefaciens, strain CN32, was investigated under anoxic conditions at circumneutral pH. Our objectives were to define the influence of Ni2+ substitution on the bioreducibility of the HFO and the biomineralization products formed and to identify biogeochemical factors controlling the phase distribution of Ni2+ during bioreduction. Incubations with CN32 and NiHFO were sampled after 14 and 32 d, and both aqueous chemistry and solid phases were characterized. By comparison of these results with a previous study (Fredrickson, J. K.; Zachara, J. M.; Kennedy, D. W.; Dong, H.; Onstott, T. C.; Hinman, N. W.; Li, S. W. Geochim. Cosmochim. Acta 1998, 62, 3239-3257), it was concluded that coprecipitated/sorbed Ni2+ inhibited the bioreduction of HFO through an undefined chemical mechanism. Mössbauer spectroscopy allowed analysis of the residual HFO phase and the identity and approximate mass percent of biogenic mineral phases. The presence of AQDS, a soluble electron shuttle that obviates need for cell--oxide contact, was found to counteract the inhibiting effect of Ni2+. Nickel was generally mobilized during bioreduction in a trend that correlated with final pH, except in cases where PO4(3-) was present and vivianite precipitation occurred. CN32 promoted the formation of Ni(2+)-substituted magnetite (Fe2IIIFe(1-x)IINixIIO4) in media with AQDS but without PO4(3-). The formation of this biogenic coprecipitate, however, had little discernible impact on final aqueous Ni2+ concentrations. These results demonstrate that coprecipitated Ni can inhibit dissimilatory microbial reduction of amorphous iron oxide, but the presence of humic acids may facilitate the immobilization of Ni within the crystal structure of biogenic magnetite.

Distribution and retention of 137Cs in sediments at the Hanford Site, Washington.

137Cesium and other contaminants have leaked from single-shell storage tanks (SSTs) into coarse-textured, relatively unweathered unconsolidated sediments. Contaminated sediments were retrieved from beneath a leaky SST to investigate the distribution of adsorbed 137Cs+ across different sediment size fractions. All fractions contained mica (biotite, muscovite, vermiculatized biotite), quartz, and plagioclase along with smectite and kaolinite in the clay-size fraction. A phosphor-plate autoradiograph method was used to identify particular sediment particles responsible for retaining 137Cs+. The Cs-bearing particles were found to be individual mica flakes or agglomerated smectite, mica, quartz, and plagioclase. Of these, only the micaceous component was capable of sorbing Cs+ strongly. Sorbed 137Cs+ could not be significantly removed from sediments by leaching with dithionite citrate buffer or KOH, but a fraction of the sorbed 137Cs+ (5-22%) was desorbable with solutions containing an excess of Rb+. The small amount of 137Cs+ that might be mobilized by migrating fluids in the future would likely sorb to nearby micaceous clasts in downgradient sediments.