Zinc sorption to biogenic hexagonal-birnessite particles within a hydrated bacterial biofilm

Biofilm-embedded Mn oxides exert important controls on trace metal cycling in aquatic and soil environments. The speciation and mobility of Zn in particular has been linked to Mn oxides found in streams, wetlands, soils, and aquifers. We investigated the mechanisms of Zn sorption to a biogenic Mn oxide within a biofilm produced by model soil and freshwater Mn^II-oxidizing bacteria Pseudomonas putida. The biogenic Mn oxide is a c-disordered birnessite with hexagonal layer symmetry. Zinc adsorption isotherm and Zn and Mn K-edge extended X-ray absorption fine structure (EXAFS) spectroscopy experiments were conducted at pH 6.9 to characterize Zn sorption to this biogenic Mn oxide, and to determine whether the bioorganic components of the biofilm affect metal sorption properties. The EXAFS data were analyzed by spectral fitting, principal component analysis, and linear least-squares fitting with reference spectra. Zinc speciation was found to change as Zn loading to the biosorbent [bacterial cells, extracellular polymeric substances (EPS), and biogenic Mn oxide] increased. At low Zn loading (0.13 ± 0.04 mol Zn kg⁻¹ biosorbent), Zn was sorbed to crystallographically well-defined sites on the biogenic oxide layers in tetrahedral coordination to structural O atoms. The fit to the EXAFS spectrum was consistent with Zn sorption above and below the Mn^IV vacancy sites of the oxide layers. As Zn loading increased to 0.72 ± 0.04 mol Zn kg⁻¹ biosorbent, Zn was also detected in octahedral coordination to these sites. Overall, our results indicate that the biofilm did not intervene in Zn sorption by the Mn-oxide because sorption to the organic material was observed only after all Mn vacancy sites were capped by Zn. The organic functional groups present in the biofilm contributed significantly to Zn removal from solution when Zn concentrations exceeded the sorption capacity of the biooxide. At the highest Zn loading studied, 1.50 ± 0.36 mol Zn kg⁻¹ biosorbent, the proportion of total Zn sorption attributed to bioorganic material was 38 mol%. The maximum Zn loading to the biogenic oxide that we observed was 4.1 mol Zn kg⁻¹ biogenic Mn oxide, corresponding to 0.37 ± 0.02 mol Zn mol⁻¹ Mn. This loading is in excellent agreement with previous estimates of the content of cation vacancies in the biogenic oxide. The results of this study improve our knowledge of Zn speciation in natural systems and are consistent with those of Zn speciation in mineral soil fractions and ferromanganese nodules where the Mn oxides present are possibly biogenic.     

Structural characterization of terrestrial microbial Mn oxides from Pinal Creek, AZ

The microbial catalysis of Mn(II) oxidation is believed to be a dominant source of abundant sorption- and redox-active Mn oxides in marine, freshwater, and subsurface aquatic environments. In spite of their importance, environmental oxides of known biogenic origin have generally not been characterized in detail from a structural perspective. Hyporheic zone Mn oxide grain coatings at Pinal Creek, Arizona, a metals-contaminated stream, have been identified as being dominantly microbial in origin and are well studied from bulk chemistry and contaminant hydrology perspectives. This site thus presents an excellent opportunity to study the structures of terrestrial microbial Mn oxides in detail. XRD and EXAFS measurements performed in this study indicate that the hydrated Pinal Creek Mn oxide grain coatings are layer-type Mn oxides with dominantly hexagonal or pseudo-hexagonal layer symmetry. XRD and TEM measurements suggest the oxides to be nanoparticulate plates with average dimensions on the order of 11 nm thick × 35 nm diameter, but with individual particles exhibiting thickness as small as a single layer and sheets as wide as 500 nm. The hydrated oxides exhibit a 10-Å basal-plane spacing and turbostratic disorder. EXAFS analyses suggest the oxides contain layer Mn(IV) site vacancy defects, and layer Mn(III) is inferred to be present, as deduced from Jahn-Teller distortion of the local structure. The physical geometry and structural details of the coatings suggest formation within microbial biofilms. The biogenic Mn oxides are stable with respect to transformation into thermodynamically more stable phases over a time scale of at least 5 months. The nanoparticulate layered structural motif, also observed in pure culture laboratory studies, appears to be characteristic of biogenic Mn oxides and may explain the common occurrence of this mineral habit in soils and sediments.     

Characterization of the manganese oxide produced by pseudomonas putida strain MnB1

Manganese oxides form typically in natural aqueous environments via Mn(II) oxidation catalyzed by microorganisms, primarily bacteria, but little is known about the structure of the incipient solid-phase products. The Mn oxide produced by a Pseudomonas species representative of soils and freshwaters was characterized as to composition, average Mn oxidation number, and N₂ specific surface area. Electron microscopy, X-ray diffraction, and X-ray absorption near edge structure spectroscopy were applied to complement the physicochemical data with morphological and structural information. A series of synthetic Mn oxides also was analyzed by the same methods to gain better comparative understanding of the structure of the biogenic oxide. The latter was found to be a poorly crystalline layer type Mn(IV) oxide with hexagonal symmetry, significant negative structural charge arising from cation vacancies, and a relatively small number of randomly stacked octahedral sheets per particle. Its properties were comparable to those of δ-MnO₂ (vernadite) and a poorly crystalline hexagonal birnessite (“acid birnessite”) synthesized by reduction of permanganate with HCl, but they were very different from those of crystalline triclinic birnessite. Overall, the structure and composition of the Mn oxide produced by P. putida were similar to what has been reported for other freshly precipitated Mn oxides in natural weathering environments, yielding further support to the predominance of biological oxidation as the pathway for Mn oxide formation. Despite variations in the degree of sheet stacking and Mn(III) content, all poorly crystalline oxides studied showed hexagonal symmetry. Thus, there is a need to distinguish layer type Mn oxides with structures similar to those of natural birnessites from the synthetic triclinic variety. We propose designating the unit cell symmetry as an addition to the current nomenclature for these minerals.     

Formation of todorokite from vernadite in Ni-rich hemipelagic sediments

Todorokite is considered to form from vernadite in nature and commonly concentrates nickel. However, this mineralogical transformation has never been imaged nor explained mechanistically, and its effect on the uptake of nickel has never been quantified at the molecular-level. We have characterized these reactions at the macroscopic, microscopic, nanoscopic and atomic scales in a marine manganese concretion by combining transmission electron microscopy, electron and X-ray microprobe analysis, powder and micro X-ray diffraction, and Mn and Ni K-edge EXAFS spectroscopy. The concretion was collected during the Ticoflux II expedition near the Nicoya Peninsula, Costa Rica, and is representative of Mn deposits in hemipelagic sediments. It consists of 5 to 25 μm aggregates, shaped like sea-urchins, with a core of 7Å-vernadite (1.0 wt% Ni), a rim of 10Å-vernadite (3.8 wt% Ni), and an outermost region of todorokite fibers (1.9 wt% Ni) that extend outwards. The crystallites of 7Å-vernadite are single- to bi-layered, with hexagonal layer symmetry (a = b = 2.83 Å), and an average structural formula of . The crystallites of 10Å-vernadite contain 10 to 20 layers semi-coherently stacked in the ab plane and uniformly separated in the [0 0 1] direction by ∼9 Å due to the intercalation of hydrated Mg²⁺ cations. The average structural formula of 10Å-vernadite is if the layers contain vacancy sites, or alternately , if they contain Mn³⁺. The average formula of todorokite is .A genetic model is proposed based on combining these new data with previously published results. The thermodynamically unstable 7Å-vernadite transforms via dissolution-recrystallization to semi-ordered Mg-rich 10Å-vernadite. Nickel is released from dissolved biogenic silica or reduced organic matter, and taken up mainly in the Mn layer of 10Å-vernadite. Interlayer magnesium serves as a template to the further topotactic transformation of 10Å-vernadite to todorokite. The dimension of the todorokite tunnels in the [0 0 1] direction is uniform and determined by the size of the hydrated Mg²⁺ ion (8.6 Å). The tunnel dimension in the [1 0 0] direction depends on the density of Mg²⁺ in the interlayer and the superstructure of the phyllomanganate layer. If the parent phyllomanganate contains high amounts of Mg²⁺ (i.e., high layer charge), or Mn³⁺ and Mn⁴⁺ cations ordered following the Mn³⁺-Mn⁴⁺-Mn⁴⁺ sequence as in synthetic triclinic birnessite, then the tunnel dimension is ideally 3 × 3 octahedral chain widths in both crystallographic directions. Otherwise, the tunnel dimension is incoherent in the [1 0 0] direction (i.e., T(3,n) tunnel structure), as has been observed in all natural todorokites. Natural todorokite is defective because the precursor natural phyllomanganates either have a layer charge deficit below 0.33e per octahedral site, or rarely are triclinic birnessite. The abundance of Mg in seawater and its key role in converting phyllomanganate to tectomanganate with T(3,n) tunnel structure explain why todorokite is common in marine ferromanganese oxides, and seldom present in terrestrial environments. The topotactic phase transformation described here is the only known route to todorokite crystallization. This implies that all natural todorokites may be authigenic because they are formed in situ from a phyllomanganate precursor.     

Mechanisms of nickel sorption by a bacteriogenic birnessite

A synergistic experimental-computational approach was used to study the molecular-scale mechanisms of Ni sorption at varying loadings and at pH 6-8 on the biogenic hexagonal birnessite produced by Pseudomonas putida GB-1. We found that Ni is scavenged effectively by bacterial biomass-birnessite assemblages. At surface excess values below 0.18 mol Ni kg⁻¹ sorbent (0.13 mol Ni mol⁻¹ Mn), the biomass component of the sorbent did not interfere with Ni sorption on mineral sites. Extended X-ray absorption fine structure (EXAFS) spectra showed two dominant coordination environments: Ni bound as a triple-corner-sharing (Ni-TCS) complex at vacancy sites and Ni incorporated (Ni-inc) into the MnO₂ sheet, with the latter form of Ni favored at high sorptive concentrations and decreased proton activity. In parallel to our spectral analysis, first-principles geometry optimizations based on density functional theory (DFT) were performed to investigate the structure of Ni surface complexes at vacancy sites. Excellent agreement was achieved between EXAFS- and DFT-derived structural parameters for Ni-TCS and Ni-inc. Reaction-path calculations revealed a pH-dependent energy barrier associated with the transition from Ni-TCS to Ni-inc. Our results are consistent with the rate-limited incorporation of Ni at vacancy sites in our sorption samples, but near-equilibrium state of Ni in birnessite phases found in nodule samples. This study thus provides direct and quantitative evidence of the factors governing the occurrence of Ni adsorption versus Ni incorporation in biogenic hexagonal birnessite, a key mineral in the terrestrial manganese cycle.     

A specific Ce oxidation process during sorption of rare earth elements on biogenic Mn oxide produced by Acremonium sp. strain KR21-2

Sorption of rare earth elements (REEs) and Ce oxidation on natural and synthetic Mn oxides have been investigated by many researchers. Although Mn(II)-oxidizing microorganisms are thought to play an important role in the formation of Mn oxides in most natural environments, Ce oxidation by biogenic Mn oxide and the relevance of microorganisms to the Ce oxidation process have not been well understood. Therefore, in this study, we conducted sorption experiments of REEs on biogenic Mn oxide produced by Acremonium sp. strain KR21-2. The distribution coefficients, K_d(REE), between biogenic Mn oxide (plus hyphae) and 10 mmol/L NaCl solution showed a large positive Ce anomaly and convex tetrad effect variations at pH 3.8, which was consistent with previous works using synthetic Mn oxide. The positive Ce anomaly was caused by oxidation of Ce(III) to Ce(IV) by the biogenic Mn oxide, which was confirmed by analysis of the Ce L_III-edge XANES spectra. With increasing pH, the positive Ce anomaly and convex tetrad effects became less pronounced. Furthermore, negative Ce anomalies were observed at a pH of more than 6.5, suggesting that Ce(IV) was stabilized in the solution (<0.2 μm) phase, although Ce(III) oxidation to Ce(IV) on the biogenic Mn oxide was confirmed by XANES analysis. It was demonstrated that no Ce(III) oxidation occurred during sorption on the hyphae of strain KR21-2 by the K_d(REE) patterns and XANES analysis. The analysis of size exclusion HPLC-ICP-MS showed that some fractions of REEs in the filtrates (<0.2 μm) after sorption experiments were bound to organic molecules (40 and <670 kDa fractions), which were possibly released from hyphae. A line of our data indicates that the negative Ce anomalies under circumneutral pH conditions arose from Ce(III) oxidation on the biogenic Mn oxide and subsequent complexation of Ce(IV) with organic ligands. The suppression of tetrad effects is also explained by the complexation of REEs with organic ligands. The results of this study demonstrate that the coexistence of the biogenic Mn oxide and hyphae of strain KR21-2 produces a specific redox chemistry which cannot be explained by inorganic species.     

Rare earth elements (REE) and yttrium in stream waters, stream sediments, and Fe-Mn oxyhydroxides: Fractionation, speciation, and controls over REE + Y patterns in the surface environment

We have collected ∼500 stream waters and associated bed-load sediments over an ∼400 km² region of Eastern Canada and analyzed these samples for Fe, Mn, and the rare earth elements (REE + Y). In addition to analyzing the stream sediments by total digestion (multi-acid dissolution with metaborate fusion), we also leached the sediments with 0.25 M hydroxylamine hydrochloride (in 0.05 M HCl), to determine the REE + Y associated with amorphous Fe- and Mn-oxyhydroxide phases. We are thus able to partition the REE into “dissolved” (<0.45 μm), labile (hydroxylamine) and detrital sediment fractions to investigate REE fractionation, and in particular, with respect to the development of Ce and Eu anomalies in oxygenated surface environments. Surface waters are typically LREE depleted ([La/Sm]_NASC ranges from 0.16 to 5.84, average = 0.604, n = 410; where the REE are normalized to the North America Shale Composite), have strongly negative Ce anomalies ([Ce/Ce^∗]_NASC ranges from 0.02 to 1.25, average = 0.277, n = 354), and commonly have positive Eu anomalies ([Eu/Eu^∗]_NASC ranges from 0.295 to 1.77, average = 0.764, n = 84). In contrast, the total sediment have flatter REE + Y patterns relative to NASC ([La/Sm]_NASC ranges from 0.352 to 1.12, average = 0.778, n = 451) and are slightly middle REE enriched ([Gd/Yb]_NASC ranges from 0.55 to 3.75, average = 1.42). Most total sediments have negative Ce and Eu anomalies ([Ce/Ce^∗]_NASC ranges from 0.097 to 2.12, average = 0.799 and [Eu/Eu^∗]_NASC ranges from 0.39 to 1.43, average = 0.802). The partial extraction sediments are commonly less LREE depleted than the total sediments ([La/Sm]_NASC ranges from 0.24 to 3.31, average = 0.901, n = 4537), more MREE enriched ([Gd/Yb]_NASC ranges from 0.765 to 6.28, average = 1.97) and Ce and Eu anomalies (negative and positive) are more pronounced.The partial extraction recovered, on average ∼20% of the Fe in the total sediment, ∼80% of the Mn, and 21-29% of the REEs (Ce = 19% and Y = 32%). Comparison between REEs in water, partial extraction and total sediment analyses indicates that REEs + Y in the stream sediments have two primary sources, the host lithologies (i.e., mechanical dispersion) and hydromorphically transported (the labile fraction). Furthermore, Eu appears to be more mobile than the other REE, whereas Ce is preferentially removed from solution and accumulates in the stream sediments in a less labile form than the other REEs + Y. Despite poor statistical correlations between the REEs + Y and Mn in either the total sediment or partial extractions, based on apparent distribution coefficients and the pH of the stream waters, we suggest that either sediment organic matter and/or possibly δ-MnO₂/FeOOH are likely the predominant sinks for Ce, and to a lesser extent the other REE, in the stream sediments.     

Characterization of manganese oxide precipitates from Appalachian coal mine drainage treatment systems

The removal of Mn(II) from coal mine drainage (CMD) by chemical addition/active treatment can significantly increase treatment costs. Passive treatment for Mn removal involves promotion of biological oxidative precipitation of manganese oxides (MnO_x). Manganese(II) removal was studied in three passive treatment systems in western Pennsylvania that differed based on their influent Mn(II) concentrations (20–150 mg/L), system construction (±inoculation with patented Mn(II)-oxidizing bacteria), and bed materials (limestone vs. sandstone). Manganese(II) removal occurred at pH values as low as 5.0 and temperatures as low as 2 °C, but was enhanced at circumneutral pH and warmer temperatures. Trace metals such as Zn, Ni and Co were removed effectively, in most cases preferentially, into the MnO_x precipitates. Based on synchrotron radiation X-ray diffraction and Mn K-edge extended X-ray absorption fine structure spectroscopy, the predominant Mn oxides at all sites were poorly crystalline hexagonal birnessite, triclinic birnessite and todorokite. The surface morphology of the MnO_x precipitates from all sites was coarse and “sponge-like” composed of nm-sized lathes and thin sheets. Based on scanning electron microscopy (SEM), MnO_x precipitates were found in close proximity to both prokaryotic and eukaryotic organisms. The greatest removal efficiency of Mn(II) occurred at the one site with a higher pH in the bed and a higher influent total organic C (TOC) concentration (provided by an upstream wetland). Biological oxidation of Mn(II) driven by heterotrophic activity was most likely the predominant Mn removal mechanism in these systems. Influent water chemistry and Mn(II) oxidation kinetics affected the relative distribution of MnO_x mineral assemblages in CMD treatment systems.     

Rapid, oxygen-dependent microbial Mn(II) oxidation kinetics at sub-micromolar oxygen concentrations in the Black Sea suboxic zone

Microbial Mn(II) oxidation kinetics in response to oxygen concentration were assessed in suboxic zone water at six sites throughout the Black Sea. Mn(II) oxidation rates increased asymptotically with increasing oxygen concentration, consistent with Michaelis-Menten enzyme kinetics. The environmental half-saturation constant, K_E, of Mn(II) removal (oxidation) varied from 0.30 to 10.5 μM dissolved oxygen while the maximal environmental rate, V_E−max, ranged from 4 to 50 nM h⁻¹. These parameters varied spatially and temporally, consistent with a diverse population of enzymes catalyzing Mn oxide production in the Black Sea. Coastally-influenced sites produced lower K_E and higher V_E−max constants relative to the Western and Eastern Gyre sites. In the Bosporus Region, the Mn(II) residence time calculated using our K_E and V_E−max values with 0.1 μM oxygen was 4 days, 25-fold less than previous estimates. Our results (i) indicate that rapid Mn(II) oxidation to solid phase Mn oxides in the Black Sea’s suboxic zone is stimulated by oxygen concentrations well below the 3-5 μM concentration reliably detected by current oceanographic methods, (ii) suggest the existence of multiple, diverse Mn(II)-oxidizing enzymes, (iii) are consistent with shorter residence times than previously calculated for Mn(II) in the suboxic zone and (iv) cast further doubt on the existence of proposed reactions coupling solid phase Mn oxide production to electron acceptors other than oxygen.     

Mn-Cr systematics of carbonates in CM chondrites: Implications for the timing and duration of aqueous alteration

CM chondrites contain carbonates and other secondary minerals such as phyllosilicates, sulfides, sulfates, oxides and hydroxides that are believed to have formed by aqueous alteration reactions on their parent asteroid. We report in situ Mn-Cr isotope measurements in the highly aqueously altered CM2.1 chondrites QUE 93005 and ALH 83100 using secondary ion mass spectrometry (Cameca ims-1270 ion microprobe). The ⁵³Cr excesses are correlated with the ⁵³Mn/⁵⁵Mn ratio and result from the in situ decay of ⁵³Mn, a short-lived radioisotope with a half-life of 3.7 Ma. If we assume that carbonate grains in samples QUE 93005 and ALH 83100 are cogenetic, then the excesses define initial ⁵³Mn/⁵⁵Mn ratios ((⁵³Mn/⁵⁵Mn)₀) of (4.1 ± 1.2) × 10⁻⁶ and (5.1 ± 1.7) × 10⁻⁶, respectively. These values are comparable to those in carbonates from other CM chondrites as reported in the literature. Initial ⁵³Mn/⁵⁵Mn ratios for calculated model isochrones for individual carbonate grains range from (3.8 ± 1.4) × 10⁻⁶ to (4.8 ± 2.1) × 10⁻⁶ for QUE 93005 and from (3.1 ± 1.6) × 10⁻⁶ to (1.3 ± 0.5) × 10⁻⁵ for ALH 83100. A possible interpretation for the ranges in (⁵³Mn/⁵⁵Mn)₀ could be that alteration in individual CM chondrites was episodic and occurred over an extended period of time. However, isochrones based on the entire set of carbonate grains in each of the CM chondrites imply that the degree of aqueous alteration is roughly correlated with the age of carbonate formation in CM chondrites of different subtypes and that alteration on the CM parent asteroid started contemporaneously with or shortly after CAI formation and lasted at least 4 Ma.     

Geochemical chaos: Periodic and nonperiodic growth of mixed-layer phyllosilicates

Interstratification—periodic or nonperiodic stacking of two different silicate layers along a c^∗-axis—is common in phyllosilicates. Published evidence indicates that some interstratified minerals precipitate directly from aqueous solutions. In this paper, we have demonstrated, based on chaos theory, that both periodic and nonperiodic interstratification can autonomously arise from simple kinetics of mineral growth from a solution. Growth of a mixed-layer mineral is assumed to proceed layer by layer, and each layer starts with the formation of a base (Si, Al)-O tetrahedral sheet, whose structural configuration in a-b dimensions determines the type of new layer that forms. The sequence of layer stacking can be described by a one-dimensional map (i.e., a difference equation), which accounts for two competing factors: (1) the affinity of each end-member structural component for attaching to the surface of the preceding layer, and (2) the strain energy created by stacking next to each other two silicate layers with different structural configurations. Chaotic (or nonperiodic) interstratification emerges when the contacting solution becomes slightly supersaturated with respect to both structural components. The transition from one interstratification pattern to another reflects a change in chemical environment during mineral crystallization. Our model can successfully predict the occurrence of mixed-layer phyllosilicates and the associated layer stacking sequences observed in both hydrothermal alteration and sediment diagenesis. The model suggests that the diagenetic transition of smectite → nonperiodic illite/smectite → ordered illite/smectite → illite may reflect relative changes in the saturation degree of pore water with respect to two end-member phases as a result of increasing burial temperatures.     

Coupled biotic-abiotic Mn(II) oxidation pathway mediates the formation and structural evolution of biogenic Mn oxides

Manganese (Mn) oxides are among the strongest oxidants and sorbents in the environment, impacting the transport and speciation of metals, cycling of carbon, and flow of electrons within soils and sediments. The oxidation of Mn(II) to Mn(III/IV) oxides has been primarily attributed to biological processes, due in part to the faster rates of bacterial Mn(II) oxidation compared to observed mineral-induced and other abiotic rates. Here we explore the reactivity of biogenic Mn oxides formed by a common marine bacterium (Roseobacter sp. AzwK-3b), which has been previously shown to oxidize Mn(II) via the production of extracellular superoxide. Oxidation of Mn(II) by superoxide results in the formation of highly reactive colloidal birnessite with hexagonal symmetry. The colloidal oxides induce the rapid oxidation of Mn(II), with dramatically accelerated rates in the presence of organics, presumably due to mineral surface-catalyzed organic radical generation. Mn(II) oxidation by the colloids is further accelerated in presence of both organics and light, implicating reactive oxygen species in aiding abiotic oxidation. Indeed, the enhancement of Mn(II) oxidation is negated when the colloids are reacted with Mn(II) in the presence of superoxide dismutase, an enzyme that scavenges the reactive oxygen species (ROS) superoxide. The reactivity of the colloidal phase is short-lived due to the rapid evolution of the birnessite from hexagonal to pseudo-orthogonal symmetry. The secondary particulate triclinic birnessite phase exhibits a distinct lack of Mn(II) oxidation and subsequent Mn oxide formation. Thus, the evolution of initial reactive hexagonal birnessite to non-reactive triclinic birnessite imposes the need for continuous production of new colloidal hexagonal particles for Mn(II) oxidation to be sustained, illustrating an intimate dependency of enzymatic and mineral-based reactions in Mn(II) oxidation. Further, the coupled enzymatic and mineral-induced pathways are linked such that enzymatic formation of Mn oxide is requisite for the mineral-induced pathway to occur. Here, we show that Mn(II) oxidation involves a complex network of abiotic and biotic processes, including enzymatically produced superoxide, mineral catalysis, organic reactions with mineral surfaces, and likely photo-production of ROS. The complexity of coupled reactions involved in Mn(II) oxidation here highlights the need for further investigations of microbially-mediated Mn oxide formation, including identifying the role of Mn oxide surfaces, organics, reactive oxygen species, and light in Mn(II) oxidation and Mn oxide phase evolution.     

Ab-initio structure, energy and stable Fe isotope equilibrium fractionation of some geochemically relevant H-O-Fe complexes

The hexa-aqua complexes [Fe(H₂O)_6−m−n(OH)_n]⁽²⁻ⁿ⁾⁺n = 0 → 3, m = 0 → 6 − n; [Fe(H₂O)_6−m−n(OH)_n]⁽³⁻ⁿ⁾⁺n = 0 → 4, m = 0 → 6 − n were investigated by ab-initio methods with the aim of determining their ground-state geometries, total energies and vibrational properties by treating their inner solvation shell as part of their gaseous precursor¹ (or “hybrid approach”). After a gas-phase energy optimization within the Density Functional Theory (DFT), the molecules were surrounded by a dielectric representing the Reaction Field through an implicit Polarized Continuum Model (PCM). The exploration of several structural ligand arrangements allowed us to quantify the relative stabilities of the various ionic species and the role of the various forms of energy (solute-solvent electronic interaction, cavitation, dispersion, repulsion, liberation free energy) that contribute to stabilize the aqueous complexes. A comparison with experimental thermochemistries showed that ab-initio gas-phase + solvation energies are quite consistent with experimental evidence and allow the depiction of the most stable form in solution and the eventual configurational disorder of water/hydroxyl species around central cations. A vibrational analysis performed on the ⁵⁴Fe, ⁵⁶Fe, ⁵⁷Fe and ⁵⁸Fe isotopomers indicated important separative effects systematically affected by the extent of deprotonation. The role of the system’s redox state (fO₂) and acidity (pH) on the isotopic imprinting of the aqueous species in solution was investigated by coupling the separative effects with speciation calculations. The observed systematics provided a tool of general utility in the interpretation of the iron isotopic signature of natural waters. Applications to the interpretation of isotopic fractionation in solution dictated by redox equilibria and to the significance of the Fe-isotopic imprinting of Banded Iron Formations are given.     

Defining manganese(II) removal processes in passive coal mine drainage treatment systems through laboratory incubation experiments

Oxic limestone beds are commonly used for the passive removal of Mn(II) from coal mine drainage (CMD). Aqueous Mn(II) is removed via oxidative precipitation of Mn(III/IV) oxides catalyzed by Mn(II)-oxidizing microbes and Mn oxide (MnO_x) surfaces. The relative importance of these two processes for Mn removal was examined in laboratory experiments conducted with sediments and CMD collected from eight Mn(II)-removal beds in Pennsylvania and Tennessee, USA. Sterile and non-sterile sediments were incubated in the presence/absence of air and presence/absence of fungicides to operationally define the relative contributions of Mn removal processes. Relatively fast rates of Mn removal were measured in four of the eight sediments where 63–99% of Mn removal was due to biological oxidation. In contrast, in the four sediments with slow rates of Mn(II) removal, 25–63% was due to biological oxidation. Laboratory rates of Mn(II) removal were correlated (R² = 0.62) to bacterial biomass concentration (measured by phospholipid fatty acids (PLFA)). Furthermore, laboratory rates of Mn(II) removal were correlated (R² = 0.87) to field-scale performance of the Mn(II)-removal beds. A practical recommendation from this study is to include MnO_x-coated limestone (and associated biomass) from an operating bed as “seed” material when constructing new Mn(II)-removal beds.     

Fractionation of oxygen isotopes in phosphate during its interactions with iron oxides

Iron (III) oxides are ubiquitous in near-surface soils and sediments and interact strongly with dissolved phosphates via sorption, co-precipitation, mineral transformation and redox-cycling reactions. Iron oxide phases are thus, an important reservoir for dissolved phosphate, and phosphate bound to iron oxides may reflect dissolved phosphate sources as well as carry a history of the biogeochemical cycling of phosphorus (P). It has recently been demonstrated that dissolved inorganic phosphate (DIP) in rivers, lakes, estuaries and the open ocean can be used to distinguish different P sources and biological reaction pathways in the ratio of ¹⁸O/¹⁶O (δ¹⁸O_P) in PO₄³⁻. Here we present results of experimental studies aimed at determining whether non-biological interactions between dissolved inorganic phosphate and solid iron oxides involve fractionation of oxygen isotopes in PO₄. Determination of such fractionations is critical to any interpretation of δ¹⁸O_P values of modern (e.g., hydrothermal iron oxide deposits, marine sediments, soils, groundwater systems) to ancient and extraterrestrial samples (e.g., BIF’s, Martian soils). Batch sorption experiments were performed using varied concentrations of synthetic ferrihydrite and isotopically-labeled dissolved ortho-phosphate at temperatures ranging from 4 to 95 °C. Mineral transformations and morphological changes were determined by X-Ray, Mössbauer spectroscopy and SEM image analyses.Our results show that isotopic fractionation between sorbed and aqueous phosphate occurs during the early phase of sorption with isotopically-light phosphate (P¹⁶O₄) preferentially incorporated into sorbed/solid phases. This fractionation showed negligible temperature-dependence and gradually decreased as a result of O-isotope exchange between sorbed and aqueous-phase phosphate, to become insignificant at greater than ∼100 h of reaction. In high-temperature experiments, this exchange was very rapid resulting in negligible fractionation between sorbed and aqueous-phase phosphate at much shorter reaction times. Mineral transformation resulted in initial preferential desorption/loss of light phosphate (P¹⁶O₄) to solution. However, the continual exchange between sorbed and aqueous PO₄, concomitant with this mineralogical transformation resulted again in negligible fractionation between aqueous and sorbed PO₄ at long reaction times (>2000 h). This finding is consistent with results obtained from natural marine samples. Therefore, ¹⁸O values of dissolved phosphate (DIP) in sea water may be preserved during its sorption to iron-oxide minerals such as hydrothermal plume particles, making marine iron oxides a potential new proxy for dissolved phosphate in the oceans.     

Silicon isotopes in meteorites and planetary core formation

The silicon (Si) isotope compositions of 42 meteorite and terrestrial samples have been determined using MC-ICPMS with the aim of resolving the current debate over their compositions and the implications for core formation. No systematic δ³⁰Si differences are resolved between chondrites (δ³⁰Si = −0.49 ± 0.15‰, 2σ_SD) and achondrites (δ³⁰Si = −0.47 ± 0.11‰, 2σ_SD), although enstatite chondrites are consistently lighter (δ³⁰Si = −0.63 ± 0.07‰, 2σ_SD) in comparison to other meteorite groups. The data reported here for meteorites and terrestrial samples display an average difference Δ³⁰Si_{BSE−meteorite∗} = 0.15 ± 0.10‰, which is consistent within uncertainty with previous studies. No effect from sample heterogeneity, preparation, chemistry or mass spectrometry can be identified as responsible for the reported differences between current datasets. The heavier composition of the bulk silicate Earth is consistent with previous conclusions that Si partitioned into the metal phase during metal-silicate equilibration at the time of core formation. Fixing the temperature of core formation to the peridotite liquidus and using an appropriate metal silicate fractionation factor (ε ∼0.89), the Δ³⁰Si_{BSE−meteorite∗} value from this study indicates that the Earth core contains at least 2.5 and possibly up to 16.8 wt% Si.     

Enzymatic microbial Mn(II) oxidation and Mn biooxide production in the Guaymas Basin deep-sea hydrothermal plume

Microorganisms play important roles in mediating biogeochemical reactions in deep-sea hydrothermal plumes, but little is known regarding the mechanisms that underpin these transformations. At Guaymas Basin (GB) in the Gulf of California, hydrothermal vents inject fluids laden with dissolved Mn(II) (dMn) into the deep waters of the basin where it is oxidized and precipitated as particulate Mn(III/IV) oxides, forming turbid hydrothermal “clouds”. Previous studies have predicted extremely short residence times for dMn at GB and suggested they are the result of microbially-mediated Mn(II) oxidation and precipitation. Here we present biogeochemical results that support a central role for microorganisms in driving Mn(II) oxidation in the GB hydrothermal plume, with enzymes being the primary catalytic agent. dMn removal rates at GB are remarkably fast for a deep-sea hydrothermal plume (up to 2 nM/h). These rapid rates were only observed within the plume, not in background deep-sea water above the GB plume or at GB plume depths (∼1750-2000 m) in the neighboring Carmen Basin, where there is no known venting. dMn removal is dramatically inhibited under anoxic conditions and by the presence of the biological poison, sodium azide. A conspicuous temperature optimum of dMn removal rates (∼40 °C) and a saturation-like (i.e. Michaelis-Menten) response to O₂ concentration were observed, indicating an enzymatic mechanism. dMn removal was resistant to heat treatment used to select for spore-forming organisms, but very sensitive to low concentrations of added Cu, a cofactor required by the putative Mn(II)-oxidizing enzyme. Extended X-ray absorption fine structure spectroscopy (EXAFS) and synchrotron radiation-based X-ray diffraction (SR-XRD) revealed the Mn oxides to have a hexagonal birnessite or δ-MnO₂-like mineral structure, indicating that these freshly formed deep-sea Mn oxides are strikingly similar to primary biogenic Mn oxides produced by laboratory cultures of bacteria. Overall, these results reveal a vigorous Mn biogeochemical cycle in the GB hydrothermal plume, where a distinct microbial community enzymatically catalyzes rapid Mn(II) oxidation and the production of Mn biooxides.     

Diversity of Mn oxides produced by Mn(II)-oxidizing fungi

Manganese (Mn) oxides are environmentally abundant, highly reactive mineral phases that mediate the biogeochemical cycling of nutrients, contaminants, carbon, and numerous other elements. Despite the belief that microorganisms (specifically bacteria and fungi) are responsible for the majority of Mn oxide formation in the environment, the impact of microbial species, physiology, and growth stage on Mn oxide formation is largely unresolved. Here, we couple microscopic and spectroscopic techniques to characterize the Mn oxides produced by four different species of Mn(II)-oxidizing Ascomycete fungi (Plectosphaerella cucumerina strain DS2psM2a2, Pyrenochaeta sp. DS3sAY3a, Stagonospora sp. SRC1lsM3a, and Acremonium strictum strain DS1bioAY4a) isolated from acid mine drainage treatment systems in central Pennsylvania. The site of Mn oxide formation varies greatly among the fungi, including deposition on hyphal surfaces, at the base of reproductive structures (e.g., fruiting bodies), and on envisaged extracellular polymers adjacent to the cell. The primary product of Mn(II) oxidation for all species growing under the same chemical and physical conditions is a nanoparticulate, poorly-crystalline hexagonal birnessite-like phase resembling synthetic δ-MnO₂. The phylogeny and growth conditions (planktonic versus surface-attached) of the fungi, however, impact the conversion of the initial phyllomanganate to more ordered phases, such as todorokite (A. strictum strain DS1bioAY4a) and triclinic birnessite (Stagonospora sp. SRC1lsM3a). Our findings reveal that the species of Mn(II)-oxidizing fungi impacts the size, morphology, and structure of Mn biooxides, which will likely translate to large differences in the reactivity of the Mn oxide phases.     

Ar loss in experimentally deformed muscovite and biotite with implications for Ar/Ar geochronology of naturally deformed rocks

The effects of deformation on radiogenic argon (⁴⁰Ar^∗) retentivity in mica are described from high pressure experiments performed on rock samples of peraluminous granite containing euhedral muscovite and biotite. Cylindrical cores, ∼15 mm in length and 6.25 mm in diameter, were drilled from granite collected from the South Armorican Massif in northwestern France, loaded into gold capsules, and weld-sealed in the presence of excess water. The samples were deformed at a pressure of 10 kb and a temperature of 600 °C over a period 29 of hours within a solid medium assembly in a Griggs-type triaxial hydraulic deformation apparatus. Overall shortening in the experiments was approximately 10%. Transmitted light and secondary and backscattered electron imaging of the deformed granite samples reveals evidence of induced defects and for significant physical grain size reduction by kinking, cracking, and grain segmentation of the micas.Infrared (IR) laser (CO₂) heating of individual 1.5-2.5 mm diameter grains of muscovite and biotite separated from the undeformed granite yield well-defined ⁴⁰Ar/³⁹Ar plateau ages of 311 ± 2 Ma (2σ). Identical experiments on single grains separated from the experimentally deformed granite yield results indicating ⁴⁰Ar^∗ loss of 0-35% in muscovite and 2-3% ⁴⁰Ar^∗ loss in biotite. Intragrain in situ ultraviolet (UV) laser ablation ⁴⁰Ar/³⁹Ar ages (±4-10%, 1σ) of deformed muscovites range from 309 ± 13 to 264 ± 7 Ma, consistent with 0-16% ⁴⁰Ar^∗ loss relative to the undeformed muscovite. The in situ UV laser ablation ⁴⁰Ar/³⁹Ar ages of deformed biotite vary from 301 to 217 Ma, consistent with up to 32% ⁴⁰Ar^∗ loss. No spatial correlation is observed between in situ⁴⁰Ar/³⁹Ar age and position within individual grains. Using available argon diffusion data for muscovite the observed ⁴⁰Ar^∗ loss in the experimentally treated muscovite can be utilized to predict average ⁴⁰Ar^∗ diffusion dimensions. Maximum ⁴⁰Ar/³⁹Ar ages obtained by UV laser ablation overlap those of the undeformed muscovite, indicating argon loss of <1% and an average effective grain radius for ⁴⁰Ar^∗ diffusion ?700 μm. The UV laser ablation and IR laser incremental ⁴⁰Ar/³⁹Ar ages indicating ⁴⁰Ar^∗ loss of 16% and 35%, respectively, are consistent with an average diffusion radius ?100 μm. These results support a hypothesis of grain-scale ⁴⁰Ar^∗ diffusion distances in undeformed mica and a heterogeneous mechanical reduction in the intragrain effective diffusion length scale for ⁴⁰Ar^∗ in deformed mica. Reduction in the effective diffusion length scale in naturally deformed samples occurs most probably through production of mesoscopic and submicroscopic defects such as, e.g., stacking faults. A network of interconnected defects, continuously forming and annealing during dynamic deformation likely plays an important role in controlling both ⁴⁰Ar^∗ retention and intragrain distribution in deformed mica. Intragrain ⁴⁰Ar/³⁹Ar ages, when combined with estimates of diffusion kinetics and distances, may provide a means of establishing thermochronological histories from individual micas.     

The reactivity of iron oxides towards reductive dissolution with ascorbic acid in a shallow sandy aquifer (Rømø, Denmark)

The pool of iron oxides, available in sediments for reductive dissolution, is usually estimated by wet chemical extraction methods. Such methods are basically empirically defined and calibrated against various synthetic iron oxides. However, in natural sediments, iron oxides are present as part of a complex mixture of iron oxides with variable crystallinity, clays and organics etc. Such a mixture is more accurately described by a reactive continuum covering a range from highly reactive iron oxides to non-reactive iron oxide. The reactivity of the pool of iron oxides in sediment can be determined by reductive dissolution in 10 mM ascorbic acid at pH 3. Parallel dissolution experiments in HCl at pH 3 reveal the release of Fe(II) by proton assisted dissolution. The difference in Fe(II)-release between the two experiments is attributed to reductive dissolution of iron oxides and can be quantified using the rate equation J/m₀ = k′(m/m₀)^γ, where J is the overall rate of dissolution (mol s⁻¹), m₀ the initial amount of iron oxide, k′ a rate constant (s⁻¹), m/m₀ the proportion of undissolved mineral and γ a parameter describing the change in reaction rate over time. In the Rømø aquifer, Denmark, the reduction of iron oxides is an important electron accepting process for organic matter degradation and is reflected by the steep increase in aqueous Fe²⁺ over depth. Sediment from the Rømø aquifer was used for reductive dissolution experiments with ascorbic acid. The rate parameters describing the reactivity of iron oxides in the sediment are in the range k′ = 7·10⁻⁶ to 1·10⁻³ s⁻¹ and γ = 1 to 2.4. These values are intermediate between a synthetic 2-line ferrihydrite and a goethite. The rate constant increases by two orders of magnitude over depth suggesting an increase in iron oxide reactivity with depth. This increase was not captured by traditional oxalate and dithionite extractions.