Characterization of Aspergillus niger siderophore that mediates bioleaching of rare earth elements from phosphorites

Exploring endophytic bacteria for biocontrol and growth promotion in rice against brown spot and sheath blight diseases

Rice is one of the world's most critical crops, serving as a staple food for more than half of the global population and playing a vital role in global food security. However, rice production is frequently threatened by diseases such as brown spot and sheath blight, which can significantly reduce yields and impact food availability. Currently, these diseases are often managed using synthetic fertilizers and fungicides, which, while effective, pose serious environmental risks due to their indiscriminate use. The reliance on these chemicals not only harms ecosystems but also contributes to soil degradation and water pollution, exacerbating environmental challenges. In response, there is a growing need for sustainable and eco-friendly alternatives. Endophytic bacteria, which reside within plant tissues, offer a promising solution as they can provide effective disease control while promoting plant growth without the environmental drawbacks associated with synthetic chemicals4. Given their potential, this study aimed to evaluate bacterial endophytes from the rice cultivar SR4 for their ability to manage brown spot and sheath blight diseases, exploring their role as biocontrol and growth-promoting agents in rice. A total of 100 bacterial endophytes were isolated and evaluated for inhibition against Bipolaris oryzae and Rhizoctonia solani using dual culture assay. A few endophytes significantly inhibited the colony growth for both pathogens significantly (p ≤ 0.05). The highest inhibition was shown by Ureibacillus massiliensis (75.47 %) and Brucella rhizosphaerae (75.25 %) in Bipolaris oryzae and Rhizoctonia solani, respectively. Identification of the antagonistic endophytes was performed through morphological and molecular assay including 16S rRNA gene sequencing. The endophytes were further evaluated for their production of volatile compounds, chitinase, siderophores, and hydrogen cyanide (HCN), as well as their ability to promote rice growth through phosphorus solubilization, nitrogen fixation, ammonia production, and auxin and gibberellic acid production. Under greenhouse conditions, the highest disease control (≥70 %) was demonstrated by Brucella rhizosphaerae, Stenotrophomonas rhizophila, Ureibacillus massiliensis. Notably, these three species, which were identified as novel biocontrol agents in rice, showed promising results in both growth promotion and disease suppression. Their novelty lies in their previously unreported efficacy as biocontrol agents against brown spot and sheath blight in rice, highlighting their potential for future applications. With continued research and development, these endophytes could play a significant role in reducing the reliance on synthetic chemicals in rice cultivation, contributing to more sustainable and environmentally friendly agricultural practices.

Bioleaching of uranium from ores and rocks using filamentous fungi

The purpose of this article is to review the role of filamentous fungi in the leaching of uranium from ores and rocks. Fungi produce short-chain fatty acids through the fermentation and partial oxidation of organic compounds. Biomass can be separated from the culture, while organic acids in spent media dissolve and sequester uranium from minerals in ores and rocks. Oxide, carbonate, and silicate ores containing hexavalent uranium are suitable for this treatment. Fungi can maximize the production of short-chain fatty acids. Uranium dissolution and sequestration are attributed mostly to the formation of soluble U(VI)-carboxylate complexes with citric and oxalic acids, although other carboxylic acids can also sequester uranium. The leach solutions maintain a pH level between 1.5 and 3.5, as the low pH facilitates proton attack on the minerals and minimizes the precipitation of metals in the leach solution. Two types of uranium leaching processes using fungi have been tested: one-step leaching, where biomass is not separated before contact with the uranium mineral, and two-step leaching, which employs spent medium after the removal of fungal biomass. Process optimization to the pilot stage has not yet been reported in the literature. To date, this article is the first to review the role of filamentous fungi in uranium bioleaching from ores and rocks.

Elucidating the interaction and toxicity of cadmium and cerium on the growth of maize seedlings: Insights from morpho-physiological and biochemical analysis

The exploitation of rare earth elements (REEs) is often accompanied by heavy metal contamination. However, our understanding regarding the growth responses of plants to the co-existence of REEs and heavy metals (HMs), remains limited. In this study, cerium (Ce) and cadmium (Cd) were selected as representatives of REEs and HMs to investigate their interactive effects on maize growth through multiple model analyses. The results revealed that both Cd and Ce induce oxidative injuries by increasing reactive oxygen species (ROS) content in a dose-dependent manner. Ce can enhance chlorophyll content while reducing leaf yellowing induced by Cd. The addition of 10 and 100 mg· L-1 Ce significantly increased the Chla content in 50 μM Cd sets by 52.2 % and 50.2 % compared to Cd50Ce0 treatment, respectively. Evaluation of the physiological and biochemical effect level index (PBELI) showed that the primary interaction mode of Cd and Ce was antagonism. The co-existence of Cd (50 μM) and Ce (100 mg· L-1) poses a higher ecological risk than Ce alone. These results demonstrated that combined exposure to Cd and Ce exhibited diverse effects in mitigating the inhibition of maize growth, thereby improving our understanding of phytotoxicity resulting from metal mixtures in the environment.

New insights into iron uptake in Streptococcus mutans: evidence for a role of siderophore-like molecules

Streptococcus mutans, a gram-positive coccus commonly found in the human oral cavity, is the primary causative agent of dental caries as well as infective endocarditis. Bacteria produce potent iron chelators called siderophores to absorb iron. Because, there are few studies on siderophore-mediated iron transport in S. mutans, the current study investigates the presence of such a mechanism in S. mutans GS-5. Deferration of culture medium and different concentrations of 2, 2'-Bipyridyl has been used to simulate iron-restricted conditions. Iron restriction alters the colony morphology and slows bacterial growth. Cross-feeding conditioned medium into an iron-restricted medium promotes bacterial growth, indicating the presence of siderophore-like molecules. This was further confirmed by Chrome Azurol S (CAS) assay and Modified CAS-agar assay. Cśaky's and Arnow's assays detected the presence of hydroxamate and catecholate-type molecules in optimal and iron-restricted conditions, respectively. Further, the siderophore-like molecules were extracted and purified with thin layer chromatography (TLC). TLC elutes were also found to be positive for iron-chelation in CAS-agar assay and aided growth of S. mutans under iron-restricted conditions. LC-MS analysis of culture supernatants under iron-restricted conditions identified iron-binding small molecules, including a catechol structural motif. Computational analysis utilizing KEGG and BLASTp suggested homologues of siderophore biosynthesis and transport proteins, including genes associated with mutanobactin production. These findings indicate a possible siderophore-mediated iron uptake mechanism in S. mutans GS-5, warranting further molecular studies and advanced spectroscopic characterization of this unidentified siderophore. Once confirmed, this mechanism can be used as a potential drug target to control streptococcal infection.

Bioleaching of lanthanum from nickel metal hydride dry battery using siderophores produced by Pseudomonas sp

There is still much to be learned about the properties of siderophores and their applications. This study was designed to characterize and optimize the production of the siderophore produced by a marine bacterium Pseudomonas sp. strain ASA235 and then evaluate their use in bioleaching of rare earth elements (REEs) from spent Nickel-metal hydride (NiMH) batteries. The results of both Tetrazolium and Arnow's tests indicated that the test organism produces a mixed-type siderophore of pyoverdine family, a result that was confirmed by FT-IR and MALDI-TOFF analyses. Optimization of pH, temperature, incubation period, and iron concentration for siderophore production led to a noticeable shift from 44.5% up to 91% siderophore unit when the test bacterium was incubated at 28 °C and pH 7 after 72 h in the absence of iron. The purified siderophore showed the ability to bleach about 14.8% of lanthanum from the anode of the NiMH battery along with other elements, although in lower amounts. This data put siderophores in distinct focus for further prospective studies intending the bioleaching of such precious elements. The scaling up of this process and optimization would make a big difference in such a green bioleaching strategy, allowing us to recover such precious elements in an environmentally friendly way.

Diversity and plant growth promotion potential of endophytic fungi isolated from hairy vetch in Japan

Hairy vetch (Vicia villosa Roth), a leguminous plant with nitrogen-fixing ability, is used as a cover crop and has the potential to suppress weeds and plant diseases. The microbial composition, particularly fungal endophytes, which may be related to the beneficial functions of this crop, has not been previously studied. In this study, we analyzed the diversity and function of culturable fungal endophytes associated with hairy vetch from eight locations across Japan. Using the fungal culture method, a total of 2,186 isolates were recovered and assigned to 80 distinct internal transcribed spacer (ITS) genotypes, spanning 28 genera. The results demonstrated that geographic location and soil physicochemical properties significantly influence the community composition of the hairy vetch fungal endophytes. Soil pH showed a significant positive correlation with the abundance of Penicillium, which was the most dominant genus in all the sampling locations and tissues. The majority of the isolates promoted plant growth and colonized hairy vetch and soybean roots, significantly promoting the growth of hairy vetch and/or soybean plants. Among the isolates, Penicillium griseofulvum AKL25 and Trichoderma koningii AKR15 significantly enhanced both hairy vetch and soybean growth, respectively. Meanwhile, Alternaria alternata OGL80 significantly increased soybean growth, but it did not affect hairy vetch growth, indicating host specificity of the fungal endophytes. In conclusion, this study showed that soil properties and geographic location play a critical role in shaping the community composition and structure of endophytic fungi associated with hairy vetch. Additionally, the isolated fungi promoted hairy vetch and soybean growth, with a host preference. Furthermore, this study revealed that a novel endophytic fungus, P. griseofulvum AKL25, which has high growth-promoting activity, can be utilized as a microbial inoculant to promote hairy vetch and soybean growth in sustainable agriculture.

Pathway to industrial application of heterotrophic organisms in critical metals recycling from e-waste

The transition to renewable energies and electric vehicles has triggered an unprecedented demand for metals. Sustainable development of these technologies relies on effectively managing the lifecycle of critical raw materials, including their responsible sourcing, efficient use, and recycling. Metal recycling from electronic waste (e-waste) is of paramount importance owing to ore-exceeding amounts of critical elements and high toxicity of heavy metals and organic pollutants in e-waste to the natural ecosystem and human body. Heterotrophic microbes secrete numerous metal-binding biomolecules such as organic acids, amino acids, cyanide, siderophores, peptides, and biosurfactants which can be utilized for eco-friendly and profitable metal recycling. In this review paper, we presented a critical review of heterotrophic organisms in biomining, and current barriers hampering the industrial application of organic acid bioleaching and biocyanide leaching. We also discussed how these challenges can be surmounted with simple methods (e.g., culture media optimization, separation of microbial growth and metal extraction process) and state-of-the-art biological approaches (e.g., artificial microbial community, synthetic biology, metabolic engineering, advanced fermentation strategies, and biofilm engineering). Lastly, we showcased emerging technologies (e.g., artificially synthesized peptides, siderophores, and biosurfactants) derived from heterotrophs with the potential for inexpensive, low-impact, selective and advanced metal recovery from bioleaching solutions.

Siderophores and metallophores: Metal complexation weapons to fight environmental pollution

Siderophores are small molecules of organic nature, released by bacteria to chelate iron from the surrounding environment and subsequently incorporate it into the cytoplasm. In addition to iron, these secondary metabolites can complex with a wide variety of metals, which is why they are commonly studied in the environment. Heavy metals can be very toxic when present in large amounts on the planet, affecting public health and all living organisms. The pollution caused by these toxic metals is increasing, and therefore it is urgent to find practical, sustainable, and economical solutions for remediation. One of the strategies is siderophore-assisted bioremediation, an innovative and advantageous alternative for various environmental applications. This research highlights the various uses of siderophores and metallophores in the environment, underscoring their significance to ecosystems. The study delves into the utilization of siderophores and metallophores in both marine and terrestrial settings (e.g. bioremediation, biocontrol of pathogens, and plant growth promotion), such as bioremediation, biocontrol of pathogens, and plant growth promotion, providing context for the different instances outlined in the existing literature and highlighting their relevance in each field. The study delves into the structures and types of siderophores focusing on their singular characteristics for each application and methodologies used. Focusing on recent developments over the last two decades, the opportunities and challenges associated with siderophores and metallophores applications in the environment were mapped to arm researchers in the fight against environmental pollution.

A Practical Toolkit for the Detection, Isolation, Quantification, and Characterization of Siderophores and Metallophores in Microorganisms

Siderophores are well-recognized low-molecular-weight compounds produced by numerous microorganisms to acquire iron from the surrounding environments. These secondary metabolites can form complexes with other metals besides iron, forming soluble metallophores; because of that, they are widely investigated in either the medicinal or environmental field. One of the bottlenecks of siderophore research is related to the identification of new siderophores from microbial sources. Herein we have compiled a comprehensive range of standard and updated methodologies that have been developed over the past few years to provide a comprehensive toolbox in this area to current researchers.

Role of indigenous microbial communities in the mobilization of potentially toxic elements and rare-earth elements from alkaline mine waste

This study aims to evaluate the role of indigenous microorganisms in the mobilization of potentially toxic elements (PTE) and rare-earth elements (REE), the influence of the bioavailability of carbon sources that might boost microbial leaching, and the generation of neutral/alkaline mine drainage from alkaline tailings. These tailings, with significant concentrations of total organic carbon (TOC), were mainly colonized by bacteria belonging to the genera Sphingomonas, Novosphingobium and Solirubrobacter, and fungi of the genera Alternaria, Sarocladium and Aspergillus. Functionality analysis suggests the capability of these microorganisms to leach PTE and REE. Bio-/leaching tests confirmed the generation of neutral mine drainage, the influence of organic substrate, and the leaching of higher concentrations of PTE and REE due to the production of organic acids and siderophores by indigenous microorganisms. In addition, this study offers some insights into a sustainable alternative for reprocessing PMC alkaline tailings to recover REE.

Chelating Effect of Siderophore Desferrioxamine-B on Uranyl Biomineralization Mediated by Shewanella putrefaciens

In contaminated water and soil, little is known about the role and mechanism of the biometabolic molecule siderophore desferrioxamine-B (DFO) in the biogeochemical cycle of uranium due to complicated coordination and reaction networks. Here, a joint experimental and quantum chemical investigation is carried out to probe the biomineralization of uranyl (UO22+, referred to as U(VI) hereafter) induced by Shewanella putrefaciens (abbreviated as S. putrefaciens) in the presence of DFO and Fe3+ ion. The results show that the production of mineralized solids {hydrogen-uranium mica [H2(UO2)2(PO4)2·8H2O]} via S. putrefaciens binding with UO22+ is inhibited by DFO, which can both chelate preferentially UO22+ to form a U(VI)-DFO complex in solution and seize it from U(VI)-biominerals upon solvation. However, with Fe3+ ion introduced, the strong specificity of DFO binding with Fe3+ causes re-emergence of biomineralization of UO22+ {bassetite [Fe(UO2)2(PO4)2·8(H2O)]} by S. putrefaciens, owing to competitive complexation between Fe3+ and UO22+ for DFO. As DFO possesses three hydroxamic functional groups, it forms hexadentate coordination with Fe3+ and UO22+ ions via these functional groups. The stability of the Fe3+-DFO complex is much higher than that of U(VI)-DFO, resulting in some DFO-released UO22+ to be remobilized by S. putrefaciens. Our finding not only adds to the understanding of the fate of toxic U(VI)-containing substances in the environment and biogeochemical cycles in the future but also suggests the promising potential of utilizing functionalized DFO ligands for uranium processing.

Microbial interaction-induced siderophore dynamics lead to phenotypic differentiation of Staphylococcus aureus

This study investigated the impact of microbial interactions on siderophore dynamics and phenotypic differentiation of Staphylococcus aureus under iron-deficient conditions. Optimization of media demonstrated that the glycerol alanine salts medium was best suited for analyzing the dynamics of siderophore production because of its stable production of diverse siderophore types. The effects of pH and iron concentration on siderophore yield revealed a maximum yield at neutral pH and low iron concentration (10 µg). Microbial interaction studies have highlighted variations in siderophore production when different strains (Staphylococcus epidermidis, Pseudomonas aeruginosa, and Escherichia coli) are co-cultured with S. aureus. Co-culture of S. aureus with P. aeruginosa eliminated siderophore production in S. aureus, while co-culture of S. aureus with E. coli and S. epidermidis produced one or two siderophores, respectively. Raman spectroscopy revealed that microbial interactions and siderophore dynamics play a crucial role in directing the phenotypic differentiation of S. aureus, especially under iron-deficient conditions. Our results suggest that microbial interactions profoundly influence siderophore dynamics and phenotypic differentiation and that the study of these interactions could provide valuable insights for understanding microbial survival strategies in iron-limited environments.

Opportunities and challenges of microbial siderophores in the medical field

Siderophores are low-molecular-weight secondary metabolites that function as iron chelators. Under iron-deficiency conditions, they are produced by a wide variety of microbes, allowing them to increase their iron uptake. The primary function of these compounds is the environmental iron scavenging and its transport into the cytosol. Iron is then reduced to its ferrous form to operate as an enzymatic cofactor for various functions, including respiration, nitrogen fixation, photosynthesis, methanogenesis, and amino acid synthesis. Depending on their functional group, siderophores are classified into hydroxamate, catecholate, phenolate, carboxylate, and mixed types. They have achieved great importance in recent years due to their medical applications as antimicrobial, antimalarial, or anticancer drugs, vaccines, and drug-delivery agents. This review integrates current advances in specific healthcare applications of microbial siderophores, delineating new opportunities and challenges as viable therapies to fight against diseases that represent crucial public health problems in the medical field.Key points• Siderophores are low-molecular-weight secondary metabolites functioning as iron chelators.• The siderophore's properties offer viable options to face diverse clinical problems.• Siderophores are alternatives for the enhancement of antibiotic activities.

A comprehensive review of bioleaching optimization by statistical approaches: recycling mechanisms, factors affecting, challenges, and sustainability

A serious environmental problem is associated with the accumulation of solid waste on the Earth. Researchers are encouraged to find an efficient and sustainable method to recover highly profitable heavy metals and precious and base metals. Bioleaching is a green method of recovering valuable metals from solid waste. Optimizing the variables and conditions of the bioleaching process is crucial to achieving maximum metal recovery most cost-effectively. The conventional optimization method (one factor at a time) is well-studied. However, it has some drawbacks, such as the necessity of more experiments, the need to spend more time, and the inability to illuminate the synergistic effect of the variables. Optimization studies are increasingly utilizing response surface methodology (RSM) because it provides details about the interaction effects of variables with fewer experiments. This review discusses the application of RSM for bioleaching experiments from other solid wastes. It discusses the Central Composite and Box-Behnken designs as the most commonly used designs for optimizing bioleaching methods. The most influential factors for increasing the heavy metal recovery rate in applying RSM using the bioleaching process are recognized, and some suggestions are made for future research.

Engineering Siderophore Biosynthesis and Regulation Pathways to Increase Diversity and Availability

Siderophores are small metal chelators synthesized by numerous organisms to access iron. These secondary metabolites are ubiquitously present on Earth, and because their production represents the main strategy to assimilate iron, they play an important role in both positive and negative interactions between organisms. In addition, siderophores are used in biotechnology for diverse applications in medicine, agriculture and the environment. The generation of non-natural siderophore analogs provides a new opportunity to create new-to-nature chelating biomolecules that can offer new properties to expand applications. This review summarizes the main strategies of combinatorial biosynthesis that have been used to generate siderophore analogs. We first provide a brief overview of siderophore biosynthesis, followed by a description of the strategies, namely, precursor-directed biosynthesis, the design of synthetic or heterologous pathways and enzyme engineering, used in siderophore biosynthetic pathways to create diversity. In addition, this review highlights the engineering strategies that have been used to improve the production of siderophores by cells to facilitate their downstream utilization.

Environmentally sustainable and cost-effective recycling of Mn-rich Li-ion cells waste: Effect of carbon sources on the leaching efficiency of metals using fungal metabolites

Metals recovery from spent lithium coin cells (SCCs) is enjoying great attention due to environmental problems and metal-rich contents such as Mn and Li. Fungi can generate many organic acids, and metals can be dissolved, but sucrose is not an economical medium. The main objective of this study is to find a suitable carbon substrate in place of sucrose for fungal bioleaching. We have developed an environmentally friendly, cost-effective, and green method for recycling and detoxifying Mn and Li from SCCs using the spent culture medium fromPenicillium citrinumcultivation. Sugar cane molasses and sucrose were selected as carbon sources. Based on the extracted fungal metabolites, the effects of pulp density, temperature, and leaching time were assessed on metal dissolution. The most suitable conditions were 30 g/L of pulp density, a temperature of 40 °C, and 4 days of leaching time in spent molasses medium, which led to a high extraction of 87% Mn and 100% Li. Based on EDX-mapping analyses, it was found that the initial concentration of ∑ (Mn + C) in the SCCs powder was almost 100% while reaching nearly 6.4% after bioleaching. After bioleaching, an analysis of residual powder confirmed that metal dissolution from SCCs was effective owing to fungal metabolites. The economic study showed that the bioleaching method is more valuable for the dissolution of metals than the chemical method; In addition to improving bioleaching efficiency, molasses carbon sources can be used for industrial purposes.

Mycobiota and diet-derived fungal xenosiderophores promote Salmonella gastrointestinal colonization

The fungal gut microbiota (mycobiota) has been implicated in diseases that disturb gut homeostasis, such as inflammatory bowel disease. However, little is known about functional relationships between bacteria and fungi in the gut during infectious colitis. Here we investigated the role of fungal metabolites during infection with the intestinal pathogen Salmonella enterica serovar Typhimurium, a major cause of gastroenteritis worldwide. We found that, in the gut lumen, both the mycobiota and fungi present in the diet can be a source of siderophores, small molecules that scavenge iron from the host. The ability to use fungal siderophores, such as ferrichrome and coprogen, conferred a competitive growth advantage to Salmonella strains expressing the fungal siderophore receptors FhuA or FhuE in vitro and in a mouse model. Our study highlights the role of inter-kingdom cross-feeding between fungi and Salmonella and elucidates an additional function of the gut mycobiota, revealing the importance of these understudied members of the gut ecosystem during bacterial infection.

Induction of Iron Stress in Hepatocellular Carcinoma Cell Lines by Siderophore of Aspergillus nidulans Towards Promising Anticancer Effect

Hepatocellular carcinoma is among the leading causes of cancer-related deaths worldwide and needs efficient and feasible approach of treatment. Present study focuses on exploring the anticancer activity of a secondary metabolite called siderophore of Aspergillus nidulans against hepatocellular carcinoma cell line HepG2. These small peptides are produced by microorganisms including fungi for scavenging iron from its surroundings. Fungi including Aspergillus spp. are known to produce siderophores under iron-limited conditions. Siderophores have high affinity towards iron and are classified into various types. In the present study, siderophore isolated and purified from fungal cultures was confirmed to be of hydroxamate type by chrome azurol sulfonate and Atkin's assay. HPLC analysis confirmed purity while LC-ESI-MS revealed that the siderophore is triacetyl fusigen. Cancerous cells, HepG2, grown under siderophore treatment showed inhibition in growth and proliferation in a dose- and time-dependent manner. Reduction in viability and metabolic activity was evident upon treatment as seen in trypan blue, MTT and WST assay. Fluorescent staining using PI and DAPI confirmed the same while DCFDA staining revealed increased reactive oxygen species production which might have led to cell death and deterioration. Such increase in ROS has been correlated with iron accumulation by assessing intracellular iron level through ICP-MS. To assess the effect of siderophore treatment on normal cells, WRL-68, same assays were carried out but the effect was mostly non-significant up to 48 h. Thus, present work suggests that an optimum dose of siderophore purified from A. nidulans culture might prove a useful anticancer agent.

Sustainable and efficient technologies for removal and recovery of toxic and valuable metals from wastewater: Recent progress, challenges, and future perspectives

Due to their numerous effects on human health and the natural environment, water contamination with heavy metals and metalloids, caused by their extensive use in various technologies and industrial applications, continues to be a huge ecological issue that needs to be urgently tackled. Additionally, within the circular economy management framework, the recovery and recycling of metals-based waste as high value-added products (VAPs) is of great interest, owing to their high cost and the continuous depletion of their reserves and natural sources. This paper reviews the state-of-the-art technologies developed for the removal and recovery of metal pollutants from wastewater by providing an in-depth understanding of their remediation mechanisms, while analyzing and critically discussing the recent key advances regarding these treatment methods, their practical implementation and integration, as well as evaluating their advantages and remaining limitations. Herein, various treatment techniques are covered, including adsorption, reduction/oxidation, ion exchange, membrane separation technologies, solvents extraction, chemical precipitation/co-precipitation, coagulation-flocculation, flotation, and bioremediation. A particular emphasis is placed on full recovery of the captured metal pollutants in various reusable forms as metal-based VAPs, mainly as solid precipitates, which is a powerful tool that offers substantial enhancement of the remediation processes' sustainability and cost-effectiveness. At the end, we have identified some prospective research directions for future work on this topic, while presenting some recommendations that can promote sustainability and economic feasibility of the existing treatment technologies.

Vertical distribution of the toxic metal(loid)s chemical fraction and microbial community in waste heap at a nonferrous metal mining site

Over the past few decades, nonferrous mining has produced numerous waste rock and part of the waste that has not been properly treated was generally dumped at roadsides and hill slopes. However, the vertical distributions of toxic metal(loid)s and composition of microbial communities in waste heap and the under-laid pristine soil are rarely studied. In this work, the fraction-related distributions of toxic metal(loid)s were investigated at a waste heap profile and the indigenous microbial assemblages were also analyzed by Illumina sequencing of 16 s rRNA genes. Results showed that compared to the under-laid pristine soil, content of toxic metal(loid)s, especially Cd, As and Pb, in waste rock layer were higher. Most of As in subsoil existed as non-specifically sorbed and specifically-sorbed fractions, which could be ascribed to the migration from the upper layer. The mobility was significantly correlated with Eh, EC, clay content, CEC and the total content of metal(loid)s. Phyla Proteobacteria, Acidobacteria and Firmicutes dominated the microbial communities. The microbial community compositions at the genus level were similar, but their relative abundances were mainly influenced by pH, CEC, Eh, SOM, and bioavailability content of toxic metal(loid)s. Besides, microbial functions of elements (S, Fe, Mn and As) oxidation/reduction and metabolites (siderophore, biosurfactant, organic acid, phosphatase and urease) potentially were used for pollutants bioremediation.

Fungal Mobilization of Selenium in the Presence of Hausmannite and Ferric Oxyhydroxides

Bioleaching of mineral phases plays a crucial role in the mobility and availability of various elements, including selenium. Therefore, the leachability of selenium associated with the surfaces of ferric and manganese oxides and oxyhydroxides, the prevailing components of natural geochemical barriers, has been studied in the presence of filamentous fungus. Both geoactive phases were exposed to selenate and subsequently to growing fungus Aspergillus niger for three weeks. This common soil fungus has shown exceptional ability to alter the distribution and mobility of selenium in the presence of both solid phases. The fungus initiated the extensive bioextraction of selenium from the surfaces of amorphous ferric oxyhydroxides, while the hausmannite (Mn₃O₄) was highly susceptible to biodeterioration in the presence of selenium. This resulted in specific outcomes regarding the selenium, iron, and manganese uptake by fungus and residual selenium concentrations in mineral phases as well. The adverse effects of bioleaching on fungal growth are also discussed.

Bioleaching Studies of Uranium in a Rock Sample from Sinai Using Some Native Streptomyces and Aspergillus Species

Sinai's important geographical and strategic position is attracting researchers to explore opportunities to maximize exploitation of its treasures, especially in the area of sustainable development. One of the fields of exploitation is extracting valuable metals from low-grade ores using green technologies. In this study, we examined the possibility of microbial leaching of uranium (U) from a rock sample collected from Wadi Naseib, Sinai, Egypt. Twenty previously isolated and tentatively identified native microorganisms, 10 Streptomyces and 10 Aspergillus, were used to make U-bioleaching using cells (direct) and cell metabolites (indirect). The tested isolates showed variable U-bioleaching efficiencies and the highest results was attained via the indirect method (57.2 ± 9.2% and 83.6 ± 2.3%) using two isolates that were identified genotypically as Streptomyces sp. EGY1 and Aspergillus niveus EGY2 respectively. TEM images showed that cells of A. niveus EGY2 made biomineralization, biosorption and bioaccumulation of U. The present study revealed that neither high acid production nor high phosphatase activities guarantees a high U-bioleaching efficiency. Many factors affecting the process were also studied using A. niveus EGY2. The highest U-bioleaching efficiency (87.8 ± 8.7%) was attained using pH 9, 160 rpm of both culturing and bioleaching steps, rock particle size of above 700 µm and 1% pulp density. U was recovered from leach liquor after optimization experiments using NaOH and its concentration was 64.35%. Our study revealed that Aspergillus niveus EGY2 could be promising in future scaling-up studies and pilot trials using the tested rock sample.

Aspergillus niger Decreases Bioavailability of Arsenic(V) via Biotransformation of Manganese Oxide into Biogenic Oxalate Minerals

The aim of this work was to evaluate the transformation of manganese oxide (hausmannite) by microscopic filamentous fungus Aspergillus niger and the effects of the transformation on mobility and bioavailability of arsenic. Our results showed that the A. niger strain CBS 140837 greatly affected the stability of hausmannite and induced its transformation into biogenic crystals of manganese oxalates—falottaite and lindbergite. The transformation was enabled by fungal acidolysis of hausmannite and subsequent release of manganese ions into the culture medium. While almost 45% of manganese was bioextracted, the arsenic content in manganese precipitates increased throughout the 25-day static cultivation of fungus. This significantly decreased the bioavailability of arsenic for the fungus. These results highlight the unique A. niger strain’s ability to act as an active geochemical factor via its ability to acidify its environment and to induce formation of biogenic minerals. This affects not only the manganese speciation, but also bioaccumulation of potentially toxic metals and metalloids associated with manganese oxides, including arsenic.

Biological leaching of rare earth elements

The distinctive physico-chemical features of rare earth elements (REEs) have led to an increase in demand by the global market due to their multiple uses in industrial, medical and agricultural implementations. However, the scarcity of REEs and the harsh eco-unfriendly leaching processes from primary sources beside obliviousness to their recycling from secondary sources, together with the geopolitical situation, have created the need to develop a more sustainable mining strategy. Therefore, there is a growing interest in bio-hydrometallurgy, which may contribute to the scavenging of these strategic elements from low-grade resources in an environmentally friendly and economically feasible way as with copper and gold. Several prokaryotes and eukaryotes show the ability to leach REEs, however, the success in employing these microorganisms or their products in this process relays on several biotic and abiotic factors. This review focuses on the differences made by microorganisms in REEs leaching and fundamentally explains microbes-REEs interaction.

Recent advances in the recovery of metals from waste through biological processes

Wastes containing critical metals are generated in various fields, such as energy and computer manufacturing. Metal-bearing wastes are considered as secondary sources of critical metals. The conventional physicochemical methods of metals recovery are energy-intensive and cause further pollution. Low-cost and eco-friendly technologies including biosorbents, bioelectrochemical systems (BESs), bioleaching, and biomineralization, have become alternatives in the recovery of critical metals. However, a relatively low recovery rate and selectivity severely hinder their large-scale applications. Researchers have expanded their focus to exploit novel strain resources and strategies to improve the biorecovery efficiency. The mechanisms and potential applicability of modified biological techniques for improving the recovery of critical metals need more attention. Hence, this review summarize and compare the strategies that have been developed for critical metals recovery, and provides useful insights for energy-efficient recovery of critical metals in future industrial applications.

Metabolomic Analysis Reveals Contributions of Citric and Citramalic Acids to Rare Earth Bioleaching by a Paecilomyces Fungus

Conventional methods for extracting rare earth elements from monazite ore require high energy inputs and produce environmentally damaging waste streams. Bioleaching offers a potentially more environmentally friendly alternative extraction process. In order to better understand bioleaching mechanisms, we conducted an exo-metabolomic analysis of a previously isolated rare earth bioleaching fungus from the genus Paecilomyces (GenBank accession numbers KM874779 and KM 874781) to identify contributions of compounds exuded by this fungus to bioleaching activity. Exuded compounds were compared under two growth conditions: growth with monazite ore as the only phosphate source, and growth with a soluble phosphate source (K₂HPO₄) added. Overall metabolite profiling, in combination with glucose consumption and biomass accumulation data, reflected a lag in growth when this organism was grown with only monazite. We analyzed the relationships between metabolite concentrations, rare earth solubilization, and growth conditions, and identified several metabolites potentially associated with bioleaching. Further investigation using laboratory prepared solutions of 17 of these metabolites indicated statistically significant leaching contributions from both citric and citramalic acids. These contributions (16.4 and 15.0 mg/L total rare earths solubilized) accounted for a portion, but not all, of the leaching achieved with direct bioleaching (42 ± 15 mg/L final rare earth concentration). Additionally, citramalic acid released significantly less of the radioactive element thorium than did citric acid (0.25 ± 0.01 mg/L compared to 1.18 ± 0.01 mg/L), suggesting that citramalic acid may have preferable leaching properties for a monazite bioleaching process.