Optimization of a bioremediation system of soluble uranium based on the biostimulation of an indigenous bacterial community

Emerging paradigms into bioremediation approaches for nuclear contaminant removal: From challenge to solution

The release of radionuclides, including Cesium-137 (137Cs), Strontium-90 (90Sr), Uranium-238 (238U), Plutonium-239 (239Pu), Iodine-131 (131I), etc., from nuclear contamination presents profound threats to both the environment and human health. Traditional remediation methods, reliant on physical and chemical interventions, often prove economically burdensome and logistically unfeasible for large-scale restoration efforts. In response to these challenges, bioremediation has emerged as a remarkably efficient, environmentally sustainable, and cost-effective solution. This innovative approach harnesses the power of microorganisms, plants, and biological agents to transmute radioactive materials into less hazardous forms. For instance, consider the remarkable capability demonstrated by Fontinalis antipyretica, a water moss, which can accumulate uranium at levels as high as 4979 mg/kg, significantly exceeding concentrations found in the surrounding water. This review takes an extensive dive into the world of bioremediation for nuclear contaminant removal, exploring sources of radionuclides, the ingenious resistance mechanisms employed by plants against these harmful elements, and the fascinating dynamics of biological adsorption efficiency. It also addresses limitations and challenges, emphasizing the need for further research and implementation to expedite restoration and mitigate nuclear pollution's adverse effects.

A strategy for bioremediation of nuclear contaminants in the environment

Radionuclides released from nuclear contamination harm the environment and human health. Nuclear pollution spread over large areas and the costs associated with decontamination is high. Traditional remediation methods include both chemical and physical, however, these are expensive and unsuitable for large-scale restoration. Bioremediation is the use of plants or microorganisms to remove pollutants from the environment having a lower cost and can be upscaled to eliminate contamination from soil, water and air. It is a cheap, efficient, ecologically, and friendly restoration technology. Here we review the sources of radionuclides, bioremediation methods, mechanisms of plant resistance to radionuclides and the effects on the efficiency of biological adsorption. Uptake of radionuclides by plants can be facilitated by the addition of appropriate chemical accelerators and agronomic management, such as citric acid and intercropping. Future research should accelerate the use of genetic engineering and breeding techniques to screen high-enrichment plants. In addition, field experiments should be carried out to ensure that this technology can be applied to the remediation of nuclear contaminated sites as soon as possible.

Uranium bioremediation with U(VI)-reducing bacteria

Uranium (U) pollution is an environmental hazard caused by the development of the nuclear industry. Microbial reduction of hexavalent uranium (U(VI)) to tetravalent uranium (U(IV)) reduces U solubility and mobility and has been proposed as an effective method to remediate uranium contamination. In this review, U(VI) remediation with respect to U(VI)-reducing bacteria, mechanisms, influencing factors, products, and reoxidation are systematically summarized. Reportedly, some metal- and sulfate-reducing bacteria possess excellent U(VI) reduction capability through mechanisms involving c-type cytochromes, extracellular pili, electron shuttle, or thioredoxin reduction. In situ remediation has been demonstrated as an ideal strategy for large-scale degradation of uranium contaminants than ex situ. However, U(VI) reduction efficiency can be affected by various factors, including pH, temperature, bicarbonate, electron donors, and coexisting metal ions. Furthermore, it is noteworthy that the reduction products could be reoxidized when exposed to oxygen and nitrate, inevitably compromising the remediation effects, especially for non-crystalline U(IV) with weak stability.

Application Progress of Deinococcus radiodurans in Biological Treatment of Radioactive Uranium-Containing Wastewater

Radioactive uranium wastewater contains a large amount of radionuclide uranium and other heavy metal ions. The radioactive uranium wastewater discharged into the environment will not only pollute the natural environment, but also threat human health. Therefore, the treatment of radioactive uranium wastewater is a current research focus for many researchers. The treatment in radioactive uranium wastewater mainly includes physical, chemical and biological methods. At present, the using of biological treatment to treat uranium in radioactive uranium wastewater has been gradually shown its superiority and advantages. Deinococcus radiodurans is a famous microorganism with the most radiation resistant to ionizing radiation in the world, and can also resist various other extreme pressures. D. radiodurans can be directly used for the adsorption of uranium in radioactive waste water, and it can also transform other functional genes into D. radiodurans to construct genetically engineered bacteria, and then applied to the treatment of radioactive uranium containing wastewater. Radionuclides uranium in radioactive uranium-containing wastewater treated by D. radiodurans involves a lot of mechanisms. This article reviews currently the application of D. radiodurans that directly or construct genetically engineered bacteria in the treatment of radioactive uranium wastewater and discusses the mechanism of D. radiodurans in bioremediation of uranium. The application of constructing an engineered bacteria of D. radiodurans with powerful functions in uranium-containing wastewater is prospected.

Uranium (U) source, speciation, uptake, toxicity and bioremediation strategies in soil-plant system: A review

Uranium(U), a highly toxic radionuclide, is becoming a great threat to soil health development, as returning nuclear waste containing U into the soil systems is increased. Numerous studies have focused on: i) tracing the source in U contaminated soils; ii) exploring U geochemistry; and iii) assessing U phyto-uptake and its toxicity to plants. Yet, there are few literature reviews that systematically summarized the U in soil-plant system in past decade. Thus, we present its source, geochemical behavior, uptake, toxicity, detoxification, and bioremediation strategies based on available data, especially published from 2018 to 2021. In this review, we examine processes that can lead to the soil U contamination, indicating that mining activities are currently the main sources. We discuss the relationship between U bioavailability in the soil-plant system and soil conditions including redox potential, soil pH, organic matter, and microorganisms. We then review the soil-plant transfer of U, finding that U mainly accumulates in roots with a quite limited translocation. However, plants such as willow, water lily, and sesban are reported to translocate high U levels from roots to aerial parts. Indeed, U does not possess any identified biological role, but provokes numerous deleterious effects such as reducing seed germination, inhibiting plant growth, depressing photosynthesis, interfering with nutrient uptake, as well as oxidative damage and genotoxicity. Yet, plants tolerate U toxicity via various defense strategies including antioxidant enzymes, compartmentalization, and phytochelatin. Moreover, we review two biological remediation strategies for U-contaminated soil: (i) phytoremediation and (ii) microbial remediation. They are quite low-cost and eco-friendly compared with traditional physical or chemical remediation technologies. Finally, we conclude some promising research challenges regarding U biogeochemical behavior in soil-plant systems. This review, thus, further indicates that the combined application of U low accumulators and microbial inoculants may be an effective strategy for the bioremediation of U-contaminated soils.

Biogeochemical Modelling of Uranium Immobilization and Aquifer Remediation Strategies Near NCCP Sludge Storage Facilities

Nitrate is a substance which influences the prevailing redox conditions in groundwater, and in turn the behaviour of U. The study of groundwater in an area with low-level radioactive sludge storage facilities has shown their contamination with sulphate and nitrate anions, uranium, and some associated metals. The uranyl ion content in the most contaminated NO3–Cl–SO4–Na borehole is 2000 times higher (1.58 mg/L) than that in the background water. At the same time, assessment of the main physiological groups of microorganisms showed a maximum number of denitrifying and sulphate-reducing bacteria (e.g., Sulfurimonas) in the water from the same borehole. Biogenic factors of radionuclide immobilization on sandy rocks of upper aquifers have been experimentally investigated. Different reduction rates of NO3−, SO42−, Fe(III) and U(VI) with stimulated microbial activity were dependent on the pollution degree. Moreover, 16S rRNA gene analysis of the microbial community after whey addition revealed a significant decrease in microbial diversity and the activation of nonspecific nitrate-reducing bacteria (genera Rhodococcus and Rhodobacter). The second influential factor can be identified as the formation of microbial biofilms on the sandy loam samples, which has a positive effect on U sorption (an increase in Kd value is up to 35%). As PHREEQC physicochemical modelling numerically confirmed, the third most influential factor that drives U mobility is the biogenic-mediated formation of a sulphide redox buffer. This study brings important information, which helps to assess the long-term stability of U in the environment of radioactive sludge storage facilities.

Abiotic reduction of uranium(VI) with humic acid at mineral surfaces: Competing mechanisms, ligand and substituent effects, and electronic structure and vibrational properties

Abiotic reduction represents an attractive technology to control U(VI) contamination. In this work, an abiotic route of U(VI) reduction with humic acid at mineral surfaces is proposed and reaction mechanisms are addressed by periodic density functional theory calculations. Different influencing factors such as ligand effect, content of CO₃^2- ligands and substituent effect are inspected. The coordination chemistry of uranyl(VI) surface complexes relies strongly on substrates and ligands, and the calculated results are in good agreements with experimental observations available. For the OH^- ligand, two competitive mechanisms co-exist that respectively produce the U(IV) and U(V) species, and the former is significantly preferred because of lower energy barriers. Instead, the NO₃^- ligand leads to the formation of U(V) while for the Cl^- ligand, the U(VI) surface complex remains very stable and is not likely to be reduced because of very high energy barriers. The U(V) and U(IV) complexes are the predominant products for low and high CO₃^2- contents, respectively. Accordingly, the abiotic reduction processes with humic acid are efficient to manage U(VI) contamination and become preferred under basic conditions or at higher CO₃^2- contents. The U(VI) reduction is further promoted by introduction of electron-donating rather than electron-withdrawing substituents to humic acid. Electronic structure analyses and vibrational frequency assignments are calculated for the various uranium surface complexes of the reduction processes, serving as a guide for future experimental and engineered studies. The molecular-level understanding given in this work offers an abiotic route for efficient reduction of U(VI) and remediation of U(VI)-contaminated sites at ambient conditions.

Engineering and kinetic aspects of bacterial uranium reduction for the remediation of uranium contaminated environments

Biological reduction of soluble uranium from U(VI) to insoluble U(IV) coupled to the oxidation of an electron donor (hydrogen or organic compounds) is a potentially cost-efficient way to reduce the U concentrations in contaminated waters to below regulatory limits. A variety of microorganisms originating from both U contaminated and non-contaminated environments have demonstrated U(VI) reduction capacity under anaerobic conditions. Bioreduction of U(VI) is considered especially promising for in situ remediation, where the activity of indigenous microorganisms is stimulated by supplying a suitable electron donor to the subsurface to contain U contamination to a specific location in a sparingly soluble form. Less studied microbial biofilm-based bioreactors and bioelectrochemical systems have also shown potential for efficient U(VI) reduction to remove U from contaminated water streams. This review compares the advantages and challenges of U(VI)-reducing in situ remediation processes, bioreactors and bioelectrochemical systems. In addition, the current knowledge of U(VI) bioreduction mechanisms and factors affecting U(VI) reduction kinetics (e.g. pH, temperature, and the chemical composition of the contaminated water) are discussed, as both of these aspects are important in designing efficient remediation processes.

pH-dependent microbial reduction of uranium(VI) in carbonate-free solutions: UV-vis, XPS, TEM, and thermodynamic studies

U(VI)_aq bioreduction has an important effect on the fate and transport of uranium isotopes in groundwater at nuclear test sites. In this study, we focus on the pH-dependent bioreduction of U(VI)_aq in carbonate-free solutions and give mechanistic insight into the removal kinetics of U(VI)_aq. An enhancement in the removal of U(VI)_aq with increasing pH was observed within 5 h, e.g., from 19.4% at pH 4.52 to 99.7% at pH 8.30. The removal of U(VI)_aq at pH 4.52 was due to the biosorption of U(VI)_aq onto the living cells of Shewanella putrefaciens, as evidenced by the almost constant UV-vis absorption intensity of U(VI)_aq immediately after contact with S. putrefaciens. Instead, the removal observed at pH 5.97 to 8.30 resulted from the bioreduction of U(VI)_aq. The end product of U(VI)_aq bioreduction was analyzed using XPS and HRTEM and identified as nanosized UO₂. An increasing trend in the biosorption of U(VI)_aq onto heat-killed cells was also observed, e.g., ~ 80% at pH 8.38. Evidently, the U(VI)_aq that sorbed onto the living cells at pH > 4.52 was further reduced to UO₂, although biosorption made a large contribution to the initial removal of U(VI)_aq. These results may reveal the removal mechanism, in which the U(VI)_aq that was sorbed onto cells rather than the U(VI)_aq complexed in solution was reduced. The decreases in the redox potentials of the main complex species of U(VI)_aq (e.g., [Formula: see text] and [Formula: see text]) with increasing pH support the proposed removal mechanism.

Utilization of phosphate rock as a sole source of phosphorus for uranium biomineralization mediated by Penicillium funiculosum

In this work, uranium(vi) biomineralization by soluble ortho-phosphate from decomposition of the phosphate rock powder, a cheap and readily available material, was studied in detail. Penicillium funiculosum was effective in solubilizing P from the phosphate rock powder, and the highest concentration of the dissolved phosphate reached 220 mg L⁻¹ (pH = 6). A yellow precipitate was immediately formed when solutions with different concentrations of uranium were treated with PO₄³⁻-containing fermentation broth, and the precipitate was identified as chernikovite by Fourier transform infrared spectroscopy, scanning electron microscope, and X-ray powder diffraction. Our study showed that the concentrations of uranium in solutions can be decreased to the level lower than maximum contaminant limit for water (50 μg L⁻¹) by the Environmental Protection Agency of China when Penicillium funiculosum was incubated for 22 days in the broth containing 5 g L⁻¹ phosphate rock powder.

In this work, uranium(vi) biomineralization by soluble ortho-phosphate from decomposition of the phosphate rock powder, a cheap and readily available material, was studied in detail.

Impact of different environmental conditions on the aggregation of biogenic U(IV) nanoparticles synthesized by Desulfovibrio alaskensis G20

This study investigates the impact of specific environmental conditions on the formation of colloidal U(IV) nanoparticles by the sulfate reducing bacteria (SRB, Desulfovibrio alaskensis G20). The reduction of soluble U(VI) to less soluble U(IV) was quantitatively investigated under growth and non-growth conditions in bicarbonate or 1,4-piperazinediethanesulfonic acid (PIPES) buffered environments. The results showed that under non-growth conditions, the majority of the reduced U nanoparticles aggregated and precipitated out of solution. High resolution transmission electron microscopy revealed that only a very small fraction of cells had reduced U precipitates in the periplasmic spaces in the presence of PIPES buffer, whereas in the presence of bicarbonate buffer, reduced U was also observed in the cytoplasm with greater aggregation of biogenic U(IV) particles at higher initial U(VI) concentrations. The same experiments were repeated under growth conditions using two different electron donors (lactate and pyruvate) and three electron acceptors (sulfate, fumarate, and thiosulfate). In contrast to the results of the non-growth experiments, even after 0.2 μm filtration, the majority of biogenic U(IV) remained in the aqueous phase resulting in potentially mobile biogenic U(IV) nanoparticles. Size fractionation results showed that U(IV) aggregates were between 18 and 200 nm in diameter, and thus could be very mobile. The findings of this study are helpful to assess the size and potential mobility of reduced U nanoparticles under different environmental conditions, and would provide insights on their potential impact affecting U(VI) bioremediation efforts at subsurface contaminated sites.

Comparative genomics analysis of the companion mechanisms of Bacillus thuringiensis Bc601 and Bacillus endophyticus Hbe603 in bacterial consortium

Bacillus thuringiensis and Bacillus endophyticus both act as the companion bacteria, which cooperate with Ketogulonigenium vulgare in vitamin C two-step fermentation. Two Bacillus species have different morphologies, swarming motility and 2-keto-L-gulonic acid productivities when they co-culture with K. vulgare. Here, we report the complete genome sequencing of B. thuringiensis Bc601 and eight plasmids of B. endophyticus Hbe603, and carry out the comparative genomics analysis. Consequently, B. thuringiensis Bc601, with greater ability of response to the external environment, has been found more two-component system, sporulation coat and peptidoglycan biosynthesis related proteins than B. endophyticus Hbe603, and B. endophyticus Hbe603, with greater ability of nutrients biosynthesis, has been found more alpha-galactosidase, propanoate, glutathione and inositol phosphate metabolism, and amino acid degradation related proteins than B. thuringiensis Bc601. Different ability of swarming motility, response to the external environment and nutrients biosynthesis may reflect different companion mechanisms of two Bacillus species. Comparative genomic analysis of B. endophyticus and B. thuringiensis enables us to further understand the cooperative mechanism with K. vulgare, and facilitate the optimization of bacterial consortium.

Mechanism of Uranium Reduction and Immobilization in Desulfovibrio vulgaris Biofilms

The prevalent formation of noncrystalline U(IV) species in the subsurface and their enhanced susceptibility to reoxidation and remobilization, as compared to crystalline uraninite, raise concerns about the long-term sustainability of the bioremediation of U-contaminated sites. The main goal of this study was to resolve the remaining uncertainty concerning the formation mechanism of noncrystalline U(IV) in the environment. Controlled laboratory biofilm systems (biotic, abiotic, and mixed biotic-abiotic) were probed using a combination of U isotope fractionation and X-ray absorption spectroscopy (XAS). Regardless of the mechanism of U reduction, the presence of a biofilm resulted in the formation of noncrystalline U(IV). Our results also show that biotic U reduction is the most effective way to immobilize and reduce U. However, the mixed biotic-abiotic system resembled more closely an abiotic system: (i) the U(IV) solid phase lacked a typically biotic isotope signature and (ii) elemental sulfur was detected, which indicates the oxidation of sulfide coupled to U(VI) reduction. The predominance of abiotic U reduction in our systems is due to the lack of available aqueous U(VI) species for direct enzymatic reduction. In contrast, in cases where bicarbonate is present at a higher concentration, aqueous U(VI) species dominate, allowing biotic U reduction to outcompete the abiotic processes.

Unraveling interactions in microbial communities - from co-cultures to microbiomes

Microorganisms do not exist in isolation in the environment. Instead, they form complex communities among themselves as well as with their hosts. Different forms of interactions not only shape the composition of these communities but also define how these communities are established and maintained. The kinds of interaction a bacterium can employ are largely encoded in its genome. This allows us to deploy a genomescale modeling approach to understand, and ultimately predict, the complex and intertwined relationships in which microorganisms engage. So far, most studies on microbial communities have been focused on synthetic co-cultures and simple communities. However, recent advances in molecular and computational biology now enable bottom up methods to be deployed for complex microbial communities from the environment to provide insight into the intricate and dynamic interactions in which microorganisms are engaged. These methods will be applicable for a wide range of microbial communities involved in industrial processes, as well as understanding, preserving and reconditioning natural microbial communities present in soil, water, and the human microbiome.