Microbially induced calcite precipitation in calcareous soils by endogenous Bacillus cereus, at high pH and harsh weather

Effects of biochar and magnesium oxide on cadmium immobilized by microbially induced carbonate: Mobilization or immobilization in alkaline agricultural soils?

Microbially induced carbonate precipitation (MICP) is a promising technique for remediating heavy metal-contaminated soils. However, the effectiveness of MICP in immobilizing Cd in alkaline calcareous soils, especially when applied in agricultural soils, remains unclear. Biochar and magnesium oxide are two environmentally friendly passivating materials, and there are few reports on the combined application of MICP with passivating materials for remediating heavy metal-contaminated soils. Additionally, the number of treatments with MICP cement and the concentration of calcium chloride during the MICP process can both affect the effectiveness of heavy metal immobilization by MICP. Therefore, we conducted MICP and MICP-biochar-magnesium oxide treatments on agricultural soils collected from Baiyin, Gansu Province (pH = 8.62), and analyzed the effects of the number of treatments with cement and the concentration of calcium chloride on the immobilization of Cd by MICP and combined treatments. The results showed that early-stage MICP could immobilize exchangeable cadmium and increase the residual cadmium content, especially with high-concentration calcium chloride MICP treatment. However, in the later stage, soil nitrification and exchange processes led to the dissolution of carbonate-bound cadmium and cadmium activation. The fixing effect of MICP influence whether the MICP-MgO-biochar is superior to the MgO-biochar. Four treatments with cement were more effective than single treatment in MICP-biochar-magnesium oxide treatment, and the MICP-biochar-magnesium oxide treatment with four treatments was the most effective, with passivation rates of 40.7% and 46.6% for exchangeable cadmium and bioavailable cadmium, respectively. However, attention should be paid to the increase in soil salinity. The main mechanism of MICP-magnesium oxide-biochar treatment in immobilizing cadmium was the formation of Cd(OH)2, followed by the formation of cadmium carbonate.

Synergistic biocementation: harnessing Comamonas and Bacillus ureolytic bacteria for enhanced sand stabilization

Biocementation, driven by ureolytic bacteria and their biochemical activities, has evolved as a powerful technology for soil stabilization, crack repair, and bioremediation. Ureolytic bacteria play a crucial role in calcium carbonate precipitation through their enzymatic activity, hydrolyzing urea to produce carbonate ions and elevate pH, thus creating favorable conditions for the precipitation of calcium carbonate. While extensive research has explored the ability of ureolytic bacteria isolated from natural environments or culture conditions, bacterial synergy is often unexplored or under-reported. In this study, we isolated bacterial strains from the local eutrophic river canal and evaluated their suitability for precipitating calcium carbonate polymorphs. We identified two distinct bacterial isolates with superior urea degradation ability (conductivity method) using partial 16 S rRNA gene sequencing. Molecular identification revealed that they belong to the Comamonas and Bacillus genera. Urea degradation analysis was performed under diverse pH (6,7 and 8) and temperature (15 °C,20 °C,25 °C and 30 °C) ranges, indicating that their ideal pH is 7 and temperature is 30 °C since 95% of the urea was degraded within 96 h. In addition, we investigated these strains individually and in combination, assessing their microbially induced carbonate precipitation (MICP) in silicate fine sand under low (14 ± 0.6 °C) and ideal temperature 30 °C conditions, aiming to optimize bio-mediated soil enhancement. Results indicated that 30 °C was the ideal temperature, and combining bacteria resulted in significant (p ≤ 0.001) superior carbonate precipitation (14-16%) and permeability (> 10- 6 m/s) in comparison to the average range of individual strains. These findings provide valuable insights into the potential of combining ureolytic bacteria for future MICP research on field applications including soil erosion mitigation, soil stabilization, ground improvement, and heavy metal remediation.

Insights in MICP dynamics in urease-positive Staphylococcus sp. H6 and Sporosarcina pasteurii bacterium

Microbially induced calcite precipitation (MICP) is an efficient and eco-friendly technique that has attracted significant interest for resolving various problems in the soil (erosion, improving structural integrity and water retention, etc.), remediation of heavy metals, production of self-healing concrete or restoration of different concrete structures. The success of most common MICP methods depends on microorganisms degrading urea which leads to the formation of CaCO3 crystals. While Sporosarcina pasteurii is a well-known microorganism for MICP, other soil abundant microorganisms, such as Staphylococcus bacteria have not been thoroughly studied for its efficiency in bioconsolidation though MICP is a very important proccess which can ensure soil quality and health. This study aimed to analyze MICP process at the surface level in Sporosarcina pasteurii and a newly screened Staphylococcus sp. H6 bacterium as well as show the possibility of this new microorganism to perform MICP. It was observed that Staphylococcus sp. H6 culture precipitated 157.35 ± 3.3 mM of Ca2+ ions from 200 mM, compared to 176 ± 4.8 mM precipitated by S. pasteurii. The bioconsolidation of sand particles was confirmed by Raman spectroscopy and XRD analysis, which indicated the formation of CaCO3 crystals for both Staphylococcus sp. H6 and S. pasteurii cells. The water-flow test suggested a significant reduction in water permeability in bioconsolidated sand samples for both Staphylococcus sp. H6 and S. pasteurii. Notably, this study provides the first evidence that CaCO3 precipitation occurs on the surface of Staphylococcus and S. pasteurii cells within the initial 15-30 min after exposure to the biocementation solution. Furthermore, Atomic force microscopy (AFM) indicated rapid changes in cell roughness, with bacterial cells becoming completely coated with CaCO3 crystals after 90 min incubation with a biocementation solution. To our knowledge, this is the first time where atomic force microscopy was used to visualize the dynamic of MICP on cell surface.

Microbial-induced calcium carbonate precipitation: Influencing factors, nucleation pathways, and application in waste water remediation

Microbial-induced calcium carbonate precipitation (MICP) is a technique that uses the metabolic action of microorganisms to produce CO₃^2- which combines with free Ca²⁺ to form CaCO₃ precipitation. It has gained widespread attention in water treatment, aimed with the advantages of simultaneous removal of multiple pollutants, environmental protection, and ecological sustainability. This article reviewed the mechanism of MICP at both intra- and extra-cellular levels. It summarized the parameters affecting the MICP process in terms of bacterial concentration, ambient temperature, etc. The current status of MICP application in practical engineering is discussed. Based on this, the current technical difficulties faced in the use of MICP technology were outlined, and future research directions for MICP technology were highlighted. This review helps to improve the design of existing water treatment facilities for the simultaneous removal of multiple pollutants using the MICP and provides theoretical reference and innovative thinking for related research.

Influencing factors on ureolytic microbiologically induced calcium carbonate precipitation for biocementation

Microbiologically induced calcium carbonate precipitation (MICP) is a technique that has received a lot of attention in the field of geotechnology in the last decade. It has the potential to provide a sustainable and ecological alternative to conventional consolidation of minerals, for example by the use of cement. From a variety of microbiological metabolic pathways that can induce calcium carbonate (CaCO₃) precipitation, ureolysis has been established as the most commonly used method. To better understand the mechanisms of MICP and to develop new processes and optimize existing ones based on this understanding, ureolytic MICP is the subject of intensive research. The interplay of biological and civil engineering aspects shows how interdisciplinary research needs to be to advance the potential of this technology. This paper describes and critically discusses, based on current literature, the key influencing factors involved in the cementation of sand by ureolytic MICP. Due to the complexity of MICP, these factors often influence each other, making it essential for researchers from all disciplines to be aware of these factors and its interactions. Furthermore, this paper discusses the opportunities and challenges for future research in this area to provide impetus for studies that can further advance the understanding of MICP.

Pilot-scale feasibility study for the stabilization of coal tailings via microbially induced calcite precipitation

Sustainable long-term solutions to managing tailings storage facilities (TSFs) are integral for mines to operate in a safe and environmentally responsible manner. The long-term storage of subaqueous tailings can pose significant safety, environmental, and economic risks; therefore, alternative containment strategies for maintaining geochemical stability of reactive materials must be explored. In this study, the physical and geochemical stabilization of coal tailings using microbially induced calcite precipitation (MICP) was evaluated at a laboratory pilot scale. Three application techniques simulated commonly used agricultural approaches and equipment that could be deployed for field-scale treatment: spraying on treatment solutions with irrigation sprinklers, mixing tailings and treatment solutions with a rototiller, and distributing treatment solutions via shallow trenches using an excavator ripper. Test cells containing 1.0 × 1.0 × 0.5 m of tailings were treated with ureolytic bacteria (Sporosarcina pasteurii) and cementation solutions composed of urea and calcium chloride for 28 days. Penetrometer tests were performed following incubation to evaluate the extent of cementation. The spray-on application method showed the greatest strength improvement, with in an increase in surface strength of more than 50% for the 28-day testing period. The distribution of treatment solution using trenches was found to be less effective and resulted in greater variability in particle size distribution of treated tailings and would not be recommended for use in the field. The use of rototilling equipment provided a homogenous distribution of treatment solution; however, the disruption to the tailings material was less effective for facilitating effective cementation. Bacterial plate counts of soil samples indicated that S. pasteurii cultures remained viable in a tailings environment for 28 days at 18 °C and near-neutral pH. The treatment was also found to stabilize the pH of tailings porewater sampled over the 28-day incubation period, suggesting the potential for the treatment to provide short-term geochemical stability under unsaturated conditions.

Multiple heavy metal immobilization and strength improvement of contaminated soil using bio-mediated calcite precipitation technique

Bio-mediated calcite precipitation potential for multiple heavy metal immobilization in contaminated soils at industrial, waste dump, abandoned mine, and landfill sites is not explored yet. This study includes investigation of bio-mediated calcite precipitation for strength improvement and immobilization of heavy metals, specifically lead (Pb), zinc (Zn), and hexavalent chromium (Cr(VI)), in contaminated soils. Firstly, the toxicity resistance of bacteria against different concentrations (1000, 2000, 3000, 4000, and 5000 mg/l) of each heavy metals was investigated and observed that Pb and Cr were less toxic to Sporosarcina pasteurii than Zn. The poorly graded sand was spiked with 333-2000 mg/kg concentrations of a selected individual or mixed metal solutions, i.e., 1000 mg/kg and 2000 mg/kg individual concentrations of Pb, Zn, and Cr(VI); 500 mg/kg and 1000 mg/kg concentration of each metal in "Pb and Zn," "Pb and Cr(VI)," and "Zn and Cr(VI)" mixture of heavy metals; and 333 mg/kg and 666 mg/kg concentration of each metal in "Pb, Zn, and Cr(VI)" mixed metal concentration. Contaminated soil was biotreated with Sporosarcina pasteurii and cementation (a solution of urea and calcium chloride dihydrate) solutions for 18 days. Biocemented sand specimens were subjected to testing of hydraulic conductivity, ultrasonic pulse velocity (UPV), unconfined compressive strength (UCS), calcite content, pH, toxicity characteristic leaching procedure (TCLP), X-ray diffraction (XRD), and scanning electron microscopy (SEM). The heavy metal contaminated samples showed decrease in hydraulic conductivity and increase in UPV and UCS after biotreatment; however, the changes in engineering properties were found more moderate than clean biocemented sand. The conversion of Cr(VI) to Cr(III) followed by Cr₂O₃ precipitation in calcite lattice was observed. Zn was precipitated as smithsonite (ZnCO₃), while no Pb precipitate was identified in XRD results. TCLP leaching showed Pb and Cr immobilized proportional to calcite precipitated amount, and higher calcite amounts yielded levels within regulatory limits. Pb and Cr(VI) immobilization up to 92 % and 94 % was achieved, respectively, in contaminated biocemented sand. Zn was found completely leachable as smithsonite is only stable down to pH~5, and strongly acidic TCLP solution reversed all immobilization at natural soil pH~8-9.

Screening of antibacterial activities of Bacillus spp. isolated from the Parangkusumo coastal sand dunes, Indonesia

Background: The emergence of multidrug-resistant bacteria because of poor understanding of the issue and the misuse of antibiotics has become global health concern. Therefore, the discovery of novel antibacterial drugs is urgently needed. New antibacterial compounds may be found in the Bacillus species, which are abundant in sand dune ecosystems. Herein, we examined samples from the Parangkusumo coastal sand dunes in Indonesia.Methods: Samples were collected from three areas in the sand dunes (the area closest to the sea, the core area of sand dunes, and the area farthest from the sea). The samples were inoculated on Luria Bertani agar. Morphological and molecular identification was performed on the basis of 16S rRNA. The samples’ antimicrobial activity was evaluated with the disc diffusion method and compared with that of opportunistic pathogenic bacteria.Results: Five species of Bacillus were successfully isolated from the Parangkusumo coastal sand dunes. To our knowledge, this is the first report of the isolation of Bacillus aryabhattai in Indonesia. All samples showed antimicrobial activity against pathogenic bacteria. B. velezensis and B. subtilis showed antibacterial activity against Gram-positive bacteria, whereas B. aryabhattai and B. megaterium showed antibacterial activity against Gram-negative bacteria, and B. spizizenii showed antibacterial activity toward Gram-positive and Gram-negative bacteria.Conclusion: Five Bacillus species were successfully isolated from the Parangkusumo coastal sand dunes, Indonesia, and all samples showed antimicrobial activity toward opportunistic pathogenic bacteria. The crude antimicrobial compounds from B. megaterium, B. aryabhattai, B. subtilis, and B. spizizenii showed the highest growth-inhibition activity against E. coli, P. aeruginosa, B. cereus, and S. aureus, respectively.

Inhibition of cadmium releasing from sulfide tailings into the environment by carbonate-mineralized bacteria

Microbially induced carbonate precipitation (MICP) could be a potential green solution to resolve the issue of heavy metal releasing from the sulfide tailings. However, detailed mechanism of heavy metal-biomineralization in sulfide tailings and impact of procedure parameters on in-situ applications remain unexplored. We systematically investigated the biomineralization process in the column tests for a better understanding of the mechanism and effects on the inhibition of cadmium (Cd) releasing from sulfide tailings. Results revealed that uniform and efficient mineralization in the tailings column occurred under bacterial concentration of 1 × 10⁸ cfu mL^-1, bacterial retention time of 3 h, concentration of mineralization solution of 0.25 mol L^-1, and flow rate of 1.5 mL min^-1. The leachable Cd concentration decreased 80.7% after 7 mineralization cycles. From a suit of characterizations, bacteria can adhere on the tailings and acted as the nucleation sites to induce the mineralization of Ca and Cd (to (Ca0.67, Cd0.33)CO₃ and calcite phase); eventually, tailings particles were coated with the growth of mineralized carbonates, resulting in a reduction of exposure for tailings (especially sulfur). And thus, Cd release was inhibited. Results from this study will provide a fundamental basis for future in-situ applications of MICP to mitigate heavy metal pollutions.

Microbially induced calcite precipitation performance of multiple landfill indigenous bacteria compared to a commercially available bacteria in porous media

Microbially Induced Carbonate Precipitation (MICP) is currently viewed as one of the potential prominent processes for field applications towards the prevention of soil erosion, healing cracks in bricks, and groundwater contamination. Typically, the bacteria involved in MICP manipulate their environment leading to calcite precipitation with an enzyme such as urease, causing calcite crystals to form on the surface of grains forming cementation bonds between particles that help in reducing soil permeability and increase overall compressive strength. In this paper, the main focus is to study the MICP performance of three indigenous landfill bacteria against a well-known commercially bought MICP bacteria (Bacillus megaterium) using sand columns. In order to check the viability of the method for potential field conditions, the tests were carried out at slightly less favourable environmental conditions, i.e., at temperatures between 15-17°C and without the addition of urease enzymes. Furthermore, the sand was loose without any compaction to imitate real ground conditions. The results showed that the indigenous bacteria yielded similar permeability reduction (4.79 E-05 to 5.65 E-05) and calcium carbonate formation (14.4–14.7%) to the control bacteria (Bacillus megaterium), which had permeability reduction of 4.56 E-5 and CaCO₃ of 13.6%. Also, reasonably good unconfined compressive strengths (160–258 kPa) were noted for the indigenous bacteria samples (160 kPa). SEM and XRD showed the variation of biocrystals formation mainly detected as Calcite and Vaterite. Overall, all of the indigenous bacteria performed slightly better than the control bacteria in strength, permeability, and CaCO₃ precipitation. In retrospect, this study provides clear evidence that the indigenous bacteria in such environments can provide similar calcite precipitation potential as well-documented bacteria from cell culture banks. Hence, the idea of MICP field application through biostimulation of indigenous bacteria rather than bioaugmentation can become a reality in the near future.

Heterotrophic nitrification and biomineralization potential of Pseudomonas sp. HXF1 for the simultaneous removal of ammonia nitrogen and fluoride from groundwater

Pseudomonas sp. HXF1, a strain capable of heterotrophic nitrification, aerobic denitrification (HNAD), and biomineralization was identified and employed for the simultaneous removal of ammonia nitrogen (NH₄⁺-N) and fluoride (F^-). It removed 99.2% of NH₄⁺-N without accumulation of nitrous nitrogen (NO₂^--N) and nitrate nitrogen (NO₃^--N), while removed 87.3% of F^-. Response surface methodology (RSM) was used to study the best removal conditions for NH₄⁺-N and F^-. The results of nitrogen balance experiments with NH₄Cl, NaNO₂, and NaNO₃ as single nitrogen sources and amplification experiments of denitrification genes proved that the bacterial strains may remove NH₄⁺-N through HNAD. The experimental results of Scanning electron microscope (SEM), X-ray photoelectron spectroscopy (XPS), and X-ray diffractometer (XRD) indicated that the way of F^- removal may be adsorption and co-precipitation. The results demonstrated that the strain HXF1 has great potential in the biological denitrification and F^- removal of groundwater.

A novel constructed carbonate-mineralized functional bacterial consortium for high-efficiency cadmium biomineralization

A stable, urease-producing consortium (UPC) was constructed for high-efficiency cadmium (Cd) ion mineralization via a short-term and efficient acclimation process (five acclimation transfers). 16S rRNA gene high-throughput sequencing and quantitative polymerase chain reaction (qPCR) analyses of the urease subunit C (ureC) gene suggested that the three functional genera, all belonging to the phylum Firmicutes, rapidly increased during the process and finally composed the UPC (70.22-75.41 % of Sporosarcina, 13.83-20.66 % of norank_f_Bacillaceae, and 5.91-13.69 % of unclassified_f_Bacillaceae). The UPC exhibited good adaptability to a wide range of environmental conditions (a pH range of 4.0-11.0, temperature range of 10-45 °C, and Cd concentration range of 0-200 mg L^-1). After 8 h of incubation, 92.87 % of Cd at an initial concentration of 100 mg L^-1 was mineralized by UPC, exhibiting a great improvement as compared to the first acclimated consortium (C-1). Furthermore, although the acclimated consortium had been successively transferred 21 times, the Cd biomineralization efficiency remained stable, and this was consistent with the observed stable microbial community structure. X-ray diffraction (XRD) spectra revealed that Cd was mineralized in a (Ca0.67, Cd0.33)CO₃ phase. This research obtained a promising microbial resource for the biomineralization of Cd or other hazardous heavy metal contaminants.