Bio-dissolution of colloidal-size clay minerals entrapped in microporous silica gels

Bioavailability of Colloidal Iron to Heterotrophic Bacteria in Sediments, and Effects on the Mobility of Colloid-Associated Metal(loid)s

The submicrometric fraction of surface sediments that accumulate in the bottom of dam reservoirs represent important sources of nutrients and contaminants in freshwater systems. However, assessing their stability in the presence of sediment bacteria as well as their bioavailability in the sediment remains poorly understood. We hypothesized that sediment’s bacteria are able to extract nutrients from sedimentary colloids (<1 µm fraction) and thus contribute to the release of other colloid-associated elements to water. Experiments were performed under laboratory conditions, using the submicrometric fractions of sediments recovered from two dam reservoirs (in calcareous and crystalline granitic contexts) and two heterotrophic bacteria (Gram-negative Pseudomonas sp. and Gram-positive Mycolicibacterium sp.). The results demonstrated that bacteria were able to maintain their metabolic activity (the acidification of the growth medium and the production of organic ligands) in the presence of colloids as the sole source of iron (Fe) and regardless of their chemical composition. This demonstrates that bioavailable Fe, aside from ionic forms, can also occur in colloidal forms. However, the bacteria also catalyzed the release of potentially toxic metallic elements (such as Pb) associated with colloids. These results help improve our understanding of the processes that influence contaminants’ mobility in the ecosystems as well as provide an important insight into current research evaluating the bioavailability of different forms of nutrients.

Multifaceted synergistic electron transfer mechanism for enhancing denitrification by clay minerals

The performance and mechanism of denitrification enhanced by three clay minerals, montmorillonite (Mmt), illite and kaolinite, were first studied. Batch experiments indicated that clay minerals significantly enhanced denitrification at certain concentrations (0.1-1 g/L). The denitrification rate with 1 g/L Mmt was increased by 5.0-fold. The mechanism of clay minerals promoting denitrification was analyzed from three aspects: electron transfer characteristics, interfacial interaction and metabolism activity. Electrochemical tests showed that the clay minerals promoted electron transfer rate by improving current efficiency and electronic accommodation capacity. The biofilm formation on the clay minerals interface indicated that micro-domain catalytic phases were formed, which was beneficial to improve the nitrate reduction rate. In addition, nicotinamide adenine dinucleotide, nitrate reductase and nitrite reductase activities in Mmt-supplemented system were increased by 283.3%, 128.1% and 126.2%, respectively; and extracellular polymeric substance secretion was enhanced, indicating that the addition of clay minerals promoted microbial metabolic activity. Higher microbial diversity and enrichment of electroactive bacteria were observed in the Mmt-supplemented system. Based on the above exploration, the multifaceted synergistic mechanism was proposed to account for the enhanced denitrification performance on clay minerals. Overall, this study expanded understanding of the roles of clay minerals on denitrification and provided strategies for accelerating the biological transformation process.

Bioremediation of copper-contaminated soils by bacteria

Although copper (Cu) is an essential micronutrient for all living organisms, it can be toxic at low concentrations. Its beneficial effects are therefore only observed for a narrow range of concentrations. Anthropogenic activities such as fungicide spraying and mining have resulted in the Cu contamination of environmental compartments (soil, water and sediment) at levels sometimes exceeding the toxicity threshold. This review focuses on the bioremediation of copper-contaminated soils. The mechanisms by which microorganisms, and in particular bacteria, can mobilize or immobilize Cu in soils are described and the corresponding bioremediation strategies-of varying levels of maturity-are addressed: (i) bioleaching as a process for the ex situ recovery of Cu from Cu-bearing solids, (ii) bioimmobilization to limit the in situ leaching of Cu into groundwater and (iii) bioaugmentation-assisted phytoextraction as an innovative process for in situ enhancement of Cu removal from soil. For each application, the specific conditions required to achieve the desired effect and the practical methods for control of the microbial processes were specified.

Biofilm adaptation to iron availability in the presence of biotite and consequences for chemical weathering

Bacteria in nature often live within biofilms, exopolymeric matrices that provide a favorable environment that can differ markedly from their surroundings. Biofilms have been found growing on mineral surfaces and are expected to play a role in weathering those surfaces, but a clear understanding of how environmental factors, such as trace-nutrient limitation, influence this role is lacking. Here, we examine biofilm development by Pseudomonas putida in media either deficient or sufficient in Fe during growth on biotite, an Fe rich mineral, or on glass. We hypothesized that the bacteria would respond to Fe deficiency by enhancing biotite dissolution and by the formation of binding sites to inhibit Fe leaching from the system. Glass coupons acted as a no-Fe control to investigate whether biofilm response depended on the presence of Fe in the supporting solid. Biofilms grown on biotite, as compared to glass, had significantly greater biofilm biomass, specific numbers of viable cells (SNVC), and biofilm cation concentrations of K, Mg, and Fe, and these differences were greater when Fe was deficient in the medium. Scanning electron microscopy (SEM) confirmed that biofilm growth altered the biotite surface, smoothing the rough, jagged edges of channels scratched by hand on the biotite, and dissolving away small, easy-to-access particles scattered across the planar surface. High-resolution magic angle spinning proton nuclear magnetic resonance (HRMAS ¹ H NMR) spectroscopy showed that, in the Fe-deficient medium, the relative amount of polysaccharide nearly doubled relative to that in biofilms grown in the medium amended with Fe. The results imply that the bacteria responded to the Fe deficiency by obtaining Fe from biotite and used the biofilm matrix to enhance weathering and as a sink for released cation nutrients. These results demonstrate one mechanism by which biofilms may help soil microbes overcome nutrient deficiencies in oligotrophic systems.

Siderophore-Mediated Iron Dissolution from Nontronites Is Controlled by Mineral Cristallochemistry

Bacteria living in oxic environments experience iron deficiency due to limited solubility and slow dissolution kinetics of iron-bearing minerals. To cope with iron deprivation, aerobic bacteria have evolved various strategies, including release of siderophores or other organic acids that scavenge external Fe(III) and deliver it to the cells. This research investigated the role of siderophores produced by Pseudomonas aeruginosa in the acquisition of Fe(III) from two iron-bearing colloidal nontronites (NAu-1 and NAu-2), comparing differences in bioavailability related with site occupancy and distribution of Fe(III) in the two lattices. To avoid both the direct contact of the mineral colloids with the bacterial cells and the uncontrolled particle aggregation, nontronite suspensions were homogenously dispersed in a porous silica gel before the dissolution experiments. A multiparametric approach coupling UV-vis spectroscopy and spectral decomposition algorithm was implemented to monitor simultaneously the solubilisation of Fe and the production of pyoverdine in microplate-based batch experiments. Both nontronites released Fe in a particle concentration-dependent manner when incubated with the wild-type P. aeruginosa strain, however iron released from NAu-2 was substantially greater than from NAu-1. The profile of organic acids produced in both cases was similar and may not account for the difference in the iron dissolution efficiency. In contrast, a pyoverdine-deficient mutant was unable to mobilize Fe(III) from either nontronite, whereas iron dissolution occurred in abiotic experiments conducted with purified pyoverdine. Overall, our data provide evidence that P. aeruginosa indirectly mobilize Fe from nontronites primarily through the production of pyoverdine. The structural Fe present on the edges of NAu-2 rather than NAu-1 particles appears to be more bio-accessible, indicating that the distribution of Fe, in the tetrahedron and/or in the octahedron sites, governs the solubilisation process. Furthermore, we also revealed that P. aeruginosa could acquire iron when in direct contact with mineral particles in a siderophore-independent manner.