Adenine oxidation by pyrite-generated hydroxyl radicals

Modified spectrophotometry for micromolar H2O2 determination in iron-containing solutions with leuco crystal violet under both aerobic and anaerobic conditions

Accurately quantifying hydrogen peroxide (H2O2) is essential for elucidating its role across diverse environments. Spectrophotometry is widely employed in laboratories for this purpose due to its convenience, cost-effectiveness, and low detection limits for micromolar H2O2 concentrations. However, accurate measurement of H2O2 in iron-containing solutions presents challenges due to the interference of iron ions. In this study, we propose a modified spectrophotometric method for H2O2 determination in iron-containing solutions by adding two types of iron ion chelators and selecting leuco crystal violet (LCV) as a chromogenic reagent due to its stability. By sequentially adding 1,10-phenanthroline and EDTA, and using a phosphate buffer at pH 4.2 to provide the optimal chromogenic pH condition, this modified method effectively mitigates the interference of iron ions in the LCV chromogenic reaction. The applicability of this method under aerobic and anaerobic conditions was confirmed by comparing the experimental results with theoretical simulations. Under optimal chromogenic conditions, this method achieves a detection limit of 300 nM. This improved method allows better detection of H2O2 in iron-containing systems and investigation of its significance in various environmental processes.

Ozonation products of purine derivatives, the basic structures of antiviral micropollutants

Purine and its nucleobases adenine and guanine are the basic structures of a large group of antiviral agents such as acyclovir and penciclovir. Hence, their ozonation is of interest with regard to wastewater treatment due to the formation of products that could affect the aquatic environment. In this study, the transformation products of the mentioned substances are investigated under different defined reaction conditions in order to gain insight into the ozonation characteristics of this compound class. Results show that examining related molecules significantly improves product screening by compiling known products and analogues leading to comprehensive candidate lists, for the purines with a total number of >120 candidates (including possible duplicates for several purines) of which 49 were detected for the derivatives studied. One product, cyanuric acid, which was previously postulated for adenine, was tentatively confirmed and quantified for the first time for the reaction of purine and adenine with ozone. In addition, two prioritisation approaches are presented to identify the major products that are either formed under specific reaction conditions or are potentially relevant for structurally related pollutants. First, principal component analysis allowed the prioritisation of the products formed according to reaction conditions. In the analysis of guanine and the two antivirals, this approach showed that at neutral and basic pH the 2-imino-5-oxoimidazoline products dominated while at acidic pH either analogues of 5-amino-2,4-imidazolidinedione or 2,4-diamino-1,3-oxazol-5-(2H)-one were abundant. A second approach prioritising common products in the ozonation of all three basic structures revealed the formation of two products that had not been reported before: C4H8O3 and C3H2N2O3, presumably oxalylurea. Both molecules or their analogues may also be formed from related micropollutants. Overall, examining basic structures and exemplary micropollutants in combination was shown to be a worthwhile approach to gain knowledge on the ozonation of a whole range of compounds.

Mechanisms for hydroxyl radical production and arsenic removal in sulfur-vacancy greigite (Fe3S4)

Herein, we systematically investigated the mechanisms of OH production and arsenic (As(III)) oxidation induced by sulfur vacancy greigite (Fe₃S₄) under anoxic and oxic conditions. Reactive oxygen species analyses revealed that sulfur vacancy-rich Fe₃S₄ (SV-rich Fe₃S₄) activated molecular oxygen to produce hydrogen peroxide (H₂O₂) via a two-electron reduction pathway under oxic conditions. Subsequently, H₂O₂ was decomposed to OH via the Fenton reaction. Additionally, H₂O was directly oxidized to OH by surface high-valent iron (Fe(IV)) resulting from the abundance of sulfur vacancies in Fe₃S₄ under anoxic/oxic conditions. These differential OH-generating mechanisms of Fe₃S₄ resulted in higher OH production of SV-rich Fe₃S₄ compared to sulfur vacancy-poor Fe₃S₄ (SV-poor Fe₃S₄). Moreover, the OH production rate of SV-rich Fe₃S₄ under oxic conditions (19.3 ± 1.0 μM•h^-1) was 1.6 times greater than under anoxic conditions (11.8 ± 0.4 μM•h^-1). As(III) removal experiments and X-ray photoelectron spectra (XPS) showed that both OH production pathways were favorable for As(III) oxidation, and a higher concentration of As(V) was immobilized on the surface of SV-rich Fe₃S₄ under oxic conditions. This study provides new insights concerning OH production and environmental pollutants removal mechanisms on surface defects of Fe₃S₄ under anoxic and oxic conditions.

Iron-Rich Magnetic Coal Fly Ash Particles Induce Apoptosis in Human Bronchial Cells

Svalbard is an arctic archipelago where coal mining generates all electricity via the local coal-fired power station. Coal combustion produces a waste product in the form of particulate matter (PM) coal fly ash (CFA), derived from incombustible minerals present in the feed coal. PM ≤10 µm (diameter) may be “inhaled” into the human respiratory system, and particles ≤2.5 µm may enter the distal alveoli to disrupt normal pulmonary functions and trigger disease pathways. This study discovered that Svalbard CFA contained unusually high levels of iron-rich magnetic minerals that induced adverse effects upon human lungs cells. Iron is a well-characterised driver of reactive oxygen species (ROS) generation, a driving force for cell death and disease. CFA physicochemical characterisation showed non-uniform particle morphologies indicative of coal burnt at inefficient combustion temperatures. The bioreactivity (ROS generation) of PM2.5/10 fractions was measured using plasmid scission assay (PSA, DNA damage) and haemolysis assays (erythrocyte lysis), with PM2.5 CFA showing significant bioreactivity. CFA leached in mild acid caused a significant increase in toxicity, which could occur in CFA waste-stores. The CFA and leachates were exposed to a surrogate model of human bronchial epithelia that confirmed that CFA induced apoptosis in bronchial cells. This study shows that CFA containing magnetic iron-rich minerals mediated adverse reactions in the human lung, and thus CFA should be considered to be an environmental inhalation hazard.

The Fate of p-Nitrophenol in Goethite-Rich and Sulfide-Containing Dynamic Anoxic/Oxic Environments

Reaction mechanisms between sulfide and iron (hydr)oxides are well-documented; however, the effect of sulfidation of iron (hydr)oxides on the fate of contaminants in dynamic anoxic/oxic environments is largely overlooked. Taking p-nitrophenol (p-NP) as a targeted contaminant, we studied its fate during the sulfidation of goethite in dynamic anoxic/oxic environments. In anoxic environments, the adsorbed p-NP on goethite was sharply released in the presence of S(-II) at two different concentrations (denoted as G1 and G2, respectively) due to lower affinity of p-NP on ═Fe-SH than ═Fe-OH. Then, the desorbed p-NP in the G1 system was completely reduced to p-aminophenol (p-AP), while negligible change of p-NP concentration occurred in the G2 system, which was ascribed to the generation of Fe(II)-bound goethite with high reactivity toward p-NP at G1. When the environments shifted to oxic conditions, the structural Fe(II) of FeS produced plenty of •OH in G1 and G2 through Fenton-like reaction, which attacked p-NP and p-AP toward complete degradation. Our study demonstrated that sulfidation of goethite and shift of redox conditions could be crucial factors in controlling the fate of p-NP, which needs to be considered when predicting the environmental fate of p-NP.

Degradation of Tetrabromobisphenol A by Sulfidated Nanoscale Zerovalent Iron in a Dynamic Two-Step Anoxic/Oxic Process

A dynamic two-step anoxic/oxic process using sulfidated nanoscale zerovalent iron (S-nZVI) was employed to degrade tetrabromobisphenol A (TBBPA). In the anoxic stage, TBBPA followed a four-step sequential debromination pathway and was completely transformed to bisphenol A (BPA) with the optimal S/Fe molar ratio of 0.3. S-nZVI inhibited H₂ evolution and preserved the reducing capacity of Fe(0). Fe(0), rather than the formed FeS in S-nZVI, was responsible for TBBPA debromination. In the oxic stage, the product BPA was attacked by ^•OH, transformed to dihydroxybenzenes and benzoquinones, and eventually, achieved mineralization via ring-opening reactions. The sulfidation process facilitated ^•OH production through a two-electron transfer pathway by surface-bound Fe(II), in which structural Fe(II) in FeS and regenerated Fe(II) from Fe(III) reduction by Fe(0) played significant roles toward total BPA degradation. S-nZVI was transformed to S₈ and α-FeOOH after the oxic treatment. After these two steps, complete degradation of TBBPA was achieved. This study demonstrated the feasibility that refractory contaminants could be completely degraded in the dynamic two-step anoxic/oxic process, thus broadening the utility of S-nZVI for environmental applications in water treatment.

Low blood lead levels impair intellectual and hematological function in children from Cartagena, Caribbean coast of Colombia

Lead produces numerous biochemical and physiological changes in humans, including hematological disorders, toxic effects on the central nervous system and in the function of several organs. The aim of this study was to determine blood lead levels (BLL) in children from Cartagena, Colombia, associating those with hematological and liver damage markers, the intelligence quotient (IQ), as well as with gene expression of the aminolevulinate dehydratase (ALAD), superoxide dismutase 1 (SOD1), gamma interferon (INF-γ), tumor necrosis factor (TNF) and tumor protein (p53). To achieve this purpose, 118 blood samples were collected from children 5-16 years old, with their respective informed consent from their parents. BLL was measured by atomic absorption; hematological parameters were obtained with automated systems; plasma was utilized to analyze hepatic toxicity markers, alanine aminotransferase (ALT), gamma-glutamyltransferase (γ-GT) and alkaline phosphatase (ALP); the Kaufman Brief Intelligence Test (K-BIT) was administered to measure the IQ; and gene expression was quantified from blood RNA. The mean BLL was 1.7±0.3μg/dL. A low proportion of the children (3.4%) had BLL above the CDC recommended limit (5μg/dL). BLL were correlated weakly, but negatively with child age, weight, height, body mass index, platelets wide distribution, mean platelet volume, γ-GT and IQ. There were not significant changes in the expression of evaluated genes. These results support the hypothesis that BLL below 5μg/dL may still be a detrimental factor on children's cognitive abilities, development and hematology, in line with recent concerns that there is no safe level of pediatric lead exposure.

Quantifying Fenton reaction pathways driven by self-generated H2O2 on pyrite surfaces

Oxidation of pyrite (FeS2) plays a significant role in the redox cycling of iron and sulfur on Earth and is the primary cause of acid mine drainage (AMD). It has been established that this process involves multi-step electron-transfer reactions between surface defects and adsorbed O2 and H2O, releasing sulfoxy species (e.g., S2O32-, SO42-) and ferrous iron (Fe2+) to the solution and also producing intermediate by-products, such as hydrogen peroxide (H2O2) and other reactive oxygen species (ROS), however, our understanding of the kinetics of these transient species is still limited. We investigated the kinetics of H2O2 formation in aqueous suspensions of FeS2 microparticles by monitoring, in real time, the H2O2 and dissolved O2 concentration under oxic and anoxic conditions using amperometric microsensors. Additional spectroscopic and structural analyses were done to track the dependencies between the process of FeS2 dissolution and the degradation of H2O2 through the Fenton reaction. Based on our experimental results, we built a kinetic model which explains the observed trend of H2O2, showing that FeS2 dissolution can act as a natural Fenton reagent, influencing the oxidation of third-party species during the long term evolution of geochemical systems, even in oxygen-limited environments.

Oxidants at the Surface of Mars: A Review in Light of Recent Exploration Results

In 1976, the Viking landers carried out the most comprehensive search for organics and microbial life in the martian regolith. Their results indicate that Mars' surface is lifeless and, surprisingly, depleted in organics at part-per-billion levels. Several biology experiments on the Viking landers gave controversial results that have since been explained by the presence of oxidizing agents on the surface of Mars. These oxidants may degrade abiotic or biological organics, resulting in their nondetection in the regolith. As several exploration missions currently focus on the detection of organics on Mars (or will do so in the near future), knowledge of the oxidative state of the surface is fundamental. It will allow for determination of the capability of organics to survive on a geological timescale, the most favorable places to seek them, and the best methods to process the samples collected at the surface. With this aim, we review the main oxidants assumed to be present on Mars, their possible formation pathways, and those laboratory studies in which their reactivity with organics under Mars-like conditions has been evaluated. Among the oxidants assumed to be present on Mars, only four have been detected so far: perchlorate ions (ClO₄^-) in salts, hydrogen peroxide (H₂O₂) in the atmosphere, and clays and metal oxides composing surface minerals. Clays have been suggested as catalysts for the oxidation of organics but are treated as oxidants in the following to keep the structure of this article straightforward. This work provides an insight into the oxidizing potential of the surface of Mars and an estimate of the stability of organic matter in an oxidizing environment. Key Words: Mars surface-Astrobiology-Oxidant-Chemical reactions. Astrobiology 16, 977-996.

Central composite design optimization of pilot plant fluidized-bed heterogeneous Fenton process for degradation of an azo dye

Optimization of Acid Yellow 36 (AY36) degradation by heterogeneous Fenton process in a recirculated fluidized-bed reactor was studied using central composite design (CCD). Natural pyrite was applied as the catalyst characterized by X-ray diffraction and scanning electron microscopy. The CCD model was developed for the estimation of degradation efficiency as a function of independent operational parameters including hydrogen peroxide concentration (0.5-2.5 mmol/L), initial AY36 concentration (5-25 mg/L), pH (3-9) and catalyst dosage (0.4-1.2 mg/L). The obtained data from the model are in good agreement with the experimental data (R(2 )= 0.964). Moreover, this model is applicable not only to determine the optimized experimental conditions for maximum AY36 degradation, but also to find individual and interactive effects of the mentioned parameters. Finally, gas chromatography-mass spectroscopy (GC-MS) was utilized for the identification of some degradation intermediates and a plausible degradation pathway was proposed.

Cobalamin Protection against Oxidative Stress in the Acidophilic Iron-oxidizing Bacterium Leptospirillum Group II CF-1

Members of the genus Leptospirillum are aerobic iron-oxidizing bacteria belonging to the phylum Nitrospira. They are important members of microbial communities that catalyze the biomining of sulfidic ores, thereby solubilizing metal ions. These microorganisms live under extremely acidic and metal-loaded environments and thus must tolerate high concentrations of reactive oxygen species (ROS). Cobalamin (vitamin B₁₂) is a cobalt-containing tetrapyrrole cofactor involved in intramolecular rearrangement reactions and has recently been suggested to be an intracellular antioxidant. In this work, we investigated the effect of the exogenous addition of cobalamin on oxidative stress parameters in Leptospirillum group II strain CF-1. Our results revealed that the external supplementation of cobalamin reduces the levels of intracellular ROSs and the damage to biomolecules, and also stimulates the growth and survival of cells exposed to oxidative stress exerted by ferric ion, hydrogen peroxide, chromate and diamide. Furthermore, exposure of strain CF-1 to oxidative stress elicitors resulted in the transcriptional activation of the cbiA gene encoding CbiA of the cobalamin biosynthetic pathway. Altogether, these data suggest that cobalamin plays an important role in redox protection of Leptospirillum strain CF-1, supporting survival of this microorganism under extremely oxidative environmental conditions. Understanding the mechanisms underlying the protective effect of cobalamin against oxidative stress may help to develop strategies to make biomining processes more effective.

Genetic Diversity as Consequence of a Microaerobic and Neutrophilic Lifestyle

As a neutrophilic bacterium, Helicobacter pylori is growth deficient under extreme acidic conditions. The gastric pathogen is equipped with an acid survival kit, regulating urease activity by a pH-gated urea channel, opening below pH 6.5. After overcoming acid stress, the bacterium’s multiplication site is situated at the gastric mucosa with near neutral pH. The pathogen exhibits exceptional genetic variability, mainly due to its capability of natural transformation, termed competence. Using single cell analysis, we show here that competence is highly regulated in H. pylori. DNA uptake complex activity was reversibly shut down below pH 6.5. pH values above 6.5 opened a competence window, in which competence development was triggered by the combination of pH increase and oxidative stress. In contrast, addition of sublethal concentrations of the DNA-damaging agents ciprofloxacin or mitomycin C did not trigger competence development under our conditions. An oxygen-sensitive mutant lacking superoxide dismutase (sodB) displayed a higher competent fraction of cells than the wild type under comparable conditions. In addition, the sodB mutant was dependent on adenine for growth in broth and turned into non-cultivable coccoid forms in its absence, indicating that adenine had radical quenching capacity. Quantification of periplasmically located DNA in competent wild type cells revealed outstanding median imported DNA amounts of around 350 kb per cell within 10 min of import, with maximally a chromosomal equivalent (1.6 Mb) in individual cells, far exceeding previous amounts detected in other Gram-negative bacteria. We conclude that the pathogen’s high genetic diversity is a consequence of its enormous DNA uptake capacity, triggered by intrinsic and extrinsic oxidative stress once a neutral pH at the site of chronic host colonization allows competence development.

Natural transformation, i.e. the capacity to take up DNA from the environment, is one of the crucial means for horizontal gene transfer and genetic diversity in bacteria. The human gastric pathogen Helicobacter pylori is confronted with acid stress before entering its multiplication site, the gastric mucosa. The bacterium causes lifelong chronic gastritis and is perfectly adapted to the human host, crucially by displaying unusual genetic diversity. Using a single cell approach and well-controlled conditions, we show here that the amount of imported DNA in competent H. pylori is outstanding, far exceeding previous measurement with other Gram-negative bacteria. Furthermore, DNA uptake activity was tightly regulated and limited to pH above 6.5, conditions thought to be met in close contact with the gastric mucosa. In addition, we show that within this pH competence window, competence development was triggered by an increase in pH in combination with the level of oxidative stress. Our data provide explanations for the extraordinary high genetic diversity, often referred to as genome plasticity of this unusual microaerobic pathogen.

Hydrothermal Synthesis of FeS2 as a High-Efficiency Fenton Reagent to Degrade Alachlor via Superoxide-Mediated Fe(II)/Fe(III) Cycle

In this study, we demonstrate that hydrothermally synthesized FeS2 (syn-FeS2) is highly efficient at catalyzing the H2O2 decomposition for alachlor degradation at a wide range of initial pH (3.2-9.2). The alachlor degradation rate of syn-FeS2 heterogeneous Fenton system was almost 55 times that of its commercial pyrite (com-FeS2) counterpart at an initial pH of 6.2. Experimental results revealed that the alachlor oxidation enhancement in the syn-FeS2 Fenton system was attributed to the molecular oxygen activation induced by more surface-bound ferrous ions on syn-FeS2. The molecular oxygen activation process could generate superoxide anions to accelerate the Fe(II)/Fe(III) cycle on the syn-FeS2 surface, which favored the H2O2 decomposition to generate more hydroxyl radicals for the alachlor oxidation. It was found that the hydroxyl radicals generation rate constant of syn-FeS2 Fenton system was 71 times that of its com-FeS2 counterpart, and even 1-3 orders of magnitude larger than those of commonly used Fe-bearing heterogeneous catalysts. We detected the alachlor degradation intermediates with gas chromatography-mass spectrometry to propose tentatively a possible alachlor degradation pathway. These interesting findings could provide some new insights on the molecular oxygen activation induced by FeS2 minerals and the subsequent heterogeneous Fenton degradation of organic pollutants in the environment.

Hydroxyl Radical Dosimetry for High Flux Hydroxyl Radical Protein Footprinting Applications Using a Simple Optical Detection Method

Hydroxyl radical protein footprinting (HRPF) by fast photochemical oxidation of proteins (FPOP) is a powerful benchtop tool used to probe protein structure, interactions, and conformational changes in solution. However, the reproducibility of all HRPF techniques is limited by the ability to deliver a defined concentration of hydroxyl radicals to the protein. This ability is impacted by both the amount of radical generated and the presence of radical scavengers in solution. In order to compare HRPF data from sample to sample, a hydroxyl radical dosimeter is needed that can measure the effective concentration of radical that is delivered to the protein, after accounting for both differences in hydroxyl radical generation and nonanalyte radical consumption. Here, we test three radical dosimeters (Alexa Fluor 488, terepthalic acid, and adenine) for their ability to quantitatively measure the effective radical dose under the high radical concentration conditions of FPOP. Adenine has a quantitative relationship between UV spectrophotometric response, effective hydroxyl radical dose delivered, and peptide and protein oxidation levels over the range of radical concentrations typically encountered in FPOP. The simplicity of an adenine-based dosimeter allows for convenient and flexible incorporation into FPOP applications, and the ability to accurately measure the delivered radical dose will enable reproducible and reliable FPOP across a variety of platforms and applications.

An improved pyrite pretreatment protocol for kinetic and isotopic studies

BACKGROUND

Pyrite is one of the most abundant and widespread of the sulfide minerals with a central role in biogeochemical cycles of iron and sulfur. Due to its diverse roles in the natural and anthropogenic sulfur cycle, pyrite has been extensively studied in various experimental investigations of the kinetics of its dissolution and oxidation, the isotopic fractionations associated with these reactions, the microbiological processes involved, and the effects of pyrite on human health. Elemental sulfur (S0) is a common product of incomplete pyrite oxidation. Preexisting S0 impurities as unaccounted reaction products are a source of experimental uncertainty, as are adhered fine grains of pyrite and its oxidation products. Removal of these impurities is, therefore, desirable. A robust standardized pretreatment protocol for removal of fine particles and oxidation impurities from pyrite is lacking. Here we describe a protocol for S0 and fine particle removal from the surface of pyrite by rinsing in acid followed by repeated ultrasonication with warm acetone.

RESULTS

Our data demonstrate the presence of large fractions of S0 on untreated pyrite particle surfaces, of which only up to 60% was removed by a commonly used pretreatment method described by Moses et al. (GCA 51:1561-1571, 1987). In comparison, after pretreatment by the protocol proposed here, approximately 98% S0 removal efficiency was achieved. Additionally, the new procedure was more efficient at removal of fine particles of adhered pyrite and its oxidation products and did not appear to affect the particle size distribution, the specific surface area, or the properties of grain surfaces.

CONCLUSIONS

The suggested pyrite pretreatment protocol is more efficient in removal of impurities from pyrite grains, and provides multiple advantages for both kinetic and isotopic investigations of pyrite transformations under various environmental conditions.

Mineral-organic interfacial processes: potential roles in the origins of life

Life is believed to have originated on Earth ∼4.4-3.5 Ga ago, via processes in which organic compounds supplied by the environment self-organized, in some geochemical environmental niches, into systems capable of replication with hereditary mutation. This process is generally supposed to have occurred in an aqueous environment and, likely, in the presence of minerals. Mineral surfaces present rich opportunities for heterogeneous catalysis and concentration which may have significantly altered and directed the process of prebiotic organic complexification leading to life. We review here general concepts in prebiotic mineral-organic interfacial processes, as well as recent advances in the study of mineral surface-organic interactions of potential relevance to understanding the origin of life.

Oxidative damage to DNA constituents by iron-mediated Fenton reactions: the deoxyadenosine family

The effect of exposing 2'-deoxyadenosine (dA), 5'-dAMP, 3'-dAMP, dApA, dA(pdA)(19,) and poly(dA): oligo(dT) to iron/H(2)O(2) in the presence and absence of ethanol or NADH has been studied. HPLC retention times, enzyme treatments, radio-labeled substrates, UV absorption spectra, and fast atom bombardment mass spectrometry (FABMS) have been used to distinguish 20 products arising from the reaction, of which 16 have been identified and four anomers proposed by comparison with earlier gamma radiation studies. The radical responsible for the reactions seems to be analogous to radiation-derived [Formula: see text], has many products in common, but has some novel ones probably specific for Fenton-induced damage. Two new dimeric adducts arising from the generation of hydroxylamine at N7 and its subsequent condensation with two known sugar damage products, dR-adenine-N1-oxide, and two isomers of dR-FAPy arising from radical attacks at C4 and C5, may be considered novel in the present study. Unlike radiation-derived [Formula: see text], the radical under study is difficult to eliminate due to its generation in the proximity of the substrate molecules. It is proposed that the iron binds to the phosphate group and generates the radical in its vicinity. Strand breaks in dA(pdA)(11) resulting from the Fenton reaction are of two types, spontaneous and alkali-labile. Duplex DNA is less sensitive to attack by this radical, as its various degradation products are a subset of those obtained with monomer substrates and only dR-FAPy production is relatively enhanced for poly (dA): oligo (dT) as compared to those from other substrates.

Phenylalanine as a hydroxyl radical-specific probe in pyrite slurries

The abundant iron sulfide mineral pyrite has been shown to catalytically produce hydrogen peroxide (H2O2) and hydroxyl radical (.OH) in slurries of oxygenated water. Understanding the formation and fate of these reactive oxygen species is important to biological and ecological systems as exposure can lead to deleterious health effects, but also environmental engineering during the optimization of remediation approaches for possible treatment of contaminated waste streams. This study presents the use of the amino acid phenylalanine (Phe) to monitor the kinetics of pyrite-induced .OH formation through rates of hydroxylation forming three isomers of tyrosine (Tyr) - ortho-, meta-, and para-Tyr. Results indicate that about 50% of the Phe loss results in Tyr formation, and that these products further react with .OH at rates comparable to Phe. The overall loss of Phe appeared to be pseudo first-order in [Phe] as a function of time, but for the first time it is shown that initial rates were much less than first-order as a function of initial substrate concentration, [Phe]o. These results can be rationalized by considering that the effective concentration of .OH in solution is lower at a higher level of reactant and that an increasing fraction of .OH is consumed by Phe-degradation products as a function of time. A simplified first-order model was created to describe Phe loss in pyrite slurries which incorporates the [Phe]o, a first-order dependence on pyrite surface area, the assumption that all Phe degradation products compete equally for the limited supply of highly reactive .OH, and a flux that is related to the release of H2O2 from the pyrite surface (a result of the incomplete reduction of oxygen at the pyrite surface). An empirically derived rate constant, Kpyr, was introduced to describe a variable .OH-reactivity for different batches of pyrite. Both the simplified first-order kinetic model, and a more detailed numerical simulation, yielded results that compare well to the observed kinetic data describing the effects of variations in concentrations of both initial Phe and pyrite. This work supports the use of Phe as a useful probe to assess the formation of .OH in the presence of pyrite, and its possible utility for similar applications with other minerals.

What makes a natural clay antibacterial?

Natural clays have been used in ancient and modern medicine, but the mechanism(s) that make certain clays lethal against bacterial pathogens has not been identified. We have compared the depositional environments, mineralogies, and chemistries of clays that exhibit antibacterial effects on a broad spectrum of human pathogens including antibiotic resistant strains. Natural antibacterial clays contain nanoscale (<200 nm), illite-smectite and reduced iron phases. The role of clay minerals in the bactericidal process is to buffer the aqueous pH and oxidation state to conditions that promote Fe(2+) solubility. Chemical analyses of E. coli killed by aqueous leachates of an antibacterial clay show that intracellular concentrations of Fe and P are elevated relative to controls. Phosphorus uptake by the cells supports a regulatory role of polyphosphate or phospholipids in controlling Fe(2+). Fenton reaction products can degrade critical cell components, but we deduce that extracellular processes do not cause cell death. Rather, Fe(2+) overwhelms outer membrane regulatory proteins and is oxidized when it enters the cell, precipitating Fe(3+) and producing lethal hydroxyl radicals.