Biotic and abiotic effects on CO2 sequestration during microbially-induced calcium carbonate precipitation

Synergistic enhancement of cadmium immobilization and soil fertility through biochar and artificial humic acid-assisted microbial-induced calcium carbonate precipitation

Microbially induced carbonate precipitation (MICP) is emerging as a favorable alternative to traditional soil remediation techniques for heavy metals, primarily due to its environmental friendliness. However, a significant challenge in using MICP for farmland is not only to immobilize heavy metals but also to concurrently enhance soil fertility. This study explores the innovative combination of artificial humic acid (A-HA), biochar (BC), and Sporosarcina pasteurii (S. pasteurii) to mitigate the bioavailability of cadmium (Cd) in contaminated agricultural soils through MICP. X-ray diffraction (XRD) and scanning electron microscope (SEM) analyses revealed that the integration of BC and A-HA significantly enhances Cd immobilization efficiency by co-precipitating with CaCO3. Moreover, this treatment also improved soil fertility and ecological functions, as evidenced by increases in total nitrogen (TN, 9.0-78.2 %), alkaline hydrolysis nitrogen (AN, 259.7-635.5 %), soil organic matter (SOM, 18.1-27.9 %), total organic carbon (TOC, 43.8-48.8 %), dissolved organic carbon (DOC, 36.0-88.4 %) and available potassium (AK, 176.2-193.3 %). Additionally, the relative abundance of dominant phyla such as Proteobacteria and Firmicutes significantly increased with the introduction of BC and A-HA in MICP. Consequently, the integration of BC and A-HA with MICP offers a promising solution for remediating Cd-contaminated agricultural soil and synergistically enhancing soil fertility.

Microbially induced calcium carbonate precipitation through CO2 sequestration via an engineered Bacillus subtilis

BACKGROUND

Microbially induced calcium carbonate precipitation has been extensively researched for geoengineering applications as well as diverse uses within the built environment. Bacteria play a crucial role in producing calcium carbonate minerals, via enzymes including carbonic anhydrase-an enzyme with the capability to hydrolyse CO2, commonly employed in carbon capture systems. This study describes previously uncharacterised carbonic anhydrase enzyme sequences capable of sequestering CO2 and subsequentially generating CaCO3 biominerals and suggests a route to produce carbon negative cementitious materials for the construction industry.

RESULTS

Here, Bacillus subtilis was engineered to recombinantly express previously uncharacterised carbonic anhydrase enzymes from Bacillus megaterium and used as a whole cell catalyst allowing this novel bacterium to sequester CO2 and convert it to calcium carbonate. A significant decrease in CO2 was observed from 3800 PPM to 820 PPM upon induction of carbonic anhydrase and minerals recovered from these experiments were identified as calcite and vaterite using X-ray diffraction. Further experiments mixed the use of this enzyme (as a cell free extract) with Sporosarcina pasteurii to increase mineral production whilst maintaining a comparable level of CO2 sequestration.

CONCLUSION

Recombinantly produced carbonic anhydrase successfully sequestered CO2 and converted it into calcium carbonate minerals using an engineered microbial system. Through this approach, a process to manufacture cementitious materials with carbon sequestration ability could be developed.

Application of microbially induced calcium carbonate precipitation (MICP) process in concrete self-healing and environmental restoration to facilitate carbon neutrality: a critical review

Soil contamination, land desertification and concrete cracking can have significant adverse impacts on sustainable human economic and societal development. Cost-effective and environmentally friendly approaches are recommended to resolve these issues. Microbially induced carbonate precipitation (MICP) is an innovative, attractive and cost-effective in situ biotechnology with high potential for remediation of polluted or desertified soils/lands and cracked concrete and has attracted widespread attention in recent years. Accordingly, the principles of MICP technology and its applications in the remediation of heavy metal-contaminated and desertified soils and self-healing of concrete were reviewed in this study. The production of carbonate mineral precipitates during the MICP process can effectively reduce the mobility of heavy metals in soils, improve the cohesion of dispersed sands and realize self-healing of cracks in concrete. Moreover, CO2 can be fixed during MICP, which can facilitate carbon neutrality and contribute to global warming mitigation. Overall, MICP technology exhibits great promise in environmental restoration and construction engineering applications, despite some challenges remaining in its large-scale implementation, such as the substantial impacts of fluctuating environmental factors on microbial activity and MICP efficacy. Several methods, such as the use of natural materials or wastes as nutrient and calcium sources and isolation of bacterial strains with strong resistance to harsh environmental conditions, are employed to improve the remediation performance of MICP. However, more studies on the efficiency enhancement, mechanism exploration and field-scale applications of MICP are needed.

Carbonate precipitation and phosphate trapping by microbialite isolates from an alkaline insular lake (Bagno dell'Acqua, Pantelleria Island, Italy)

The Bagno dell'Acqua lake is characterized by CO2 emissions, alkaline waters (pH = 9) and Eh values which indicate strongly oxidizing conditions. A typical feature of the lake is the presence of actively growing microbialites rich in calcium carbonates and silica precipitates. Mineralogy, petrography and morphology analyses of the microbialites were coupled with the analysis of the microbial community, combining molecular and cultivation approaches. The DNA sequencing revealed distinct patterns of microbial diversity, showing pronounced differences between emerged and submerged microbialite, with the upper layer of emerged samples exhibiting the most distinctive composition, both in terms of prokaryotes and eukaryotes. In particular, the most representative phyla in the microbial community were Proteobacteria, Actinobacteriota, and Bacteroidota, while Cyanobacteria were present only with an average of 5%, with the highest concentration in the submerged intermediate layer (12%). The role of microorganisms in carbonate mineral formation was clearly demonstrated as most of the isolates were able to precipitate calcium carbonate and five of them were characterized at molecular level. Interestingly, when microbial isolates were cultivated only in filtered water, the precipitation of hazenite was observed (up to 85%), opening new prospective in P (phosphate) recovery from P depleted environments.

Microbial Biomineralization of Alkaline Earth Metal Carbonates on 3D-Printed Surfaces

The biomineralizing bacterium Sporosarcina pasteurii has attracted considerable interest in the area of geotechnical engineering due to its ability to induce extracellular mineralization. The presented study investigated S. pasteurii's potential to induce the mineralization of alkali-earth metal carbonate coatings on different polymeric 3D-printed flat surfaces fabricated by different additive manufacturing methods. The use of calcium, barium, strontium, or magnesium ions as the source resulted in the formation of vaterite (CaCO3), witherite (BaCO3), strontianite (SrCO3), and nesquehonite MgCO3·3H2O, respectively. These mineral coatings generally exhibit a compact, yet variable, thickness and are composed of agglomerated microparticles similar to those formed in solution. However, the mechanism behind this clustering remains unclear. The thermal properties of these biologically induced mineral coatings differ from their inorganic counterpart, highlighting the unique characteristics imparted by the biomineralization process. This work seeks to capitalize on the bacterium S. pasteurii's ability to form an alkali-earth metal carbonate coating to expand beyond its traditional use in geoengineering applications. It lays the ground for a novel integration of biologically induced mineralization of single or multilayered and multifunctional coating materials, for example, aerospace applications.

Microbially Induced Calcium Carbonate Precipitation as a Bioremediation Technique for Mining Waste

Mining waste represents a global issue due to its potential of generating acidic or alkaline leachate with high concentrations of metals and metalloids (metal(loid)s). Microbial-induced calcium carbonate precipitation (MICP) is an engineering tool used for remediation. MICP, induced via biological activity, aims to precipitate calcium carbonate (CaCO3) or co-precipitate other metal carbonates (MCO3). MICP is a bio-geochemical remediation method that aims to immobilize or remove metal(loid)s via enzyme, redox, or photosynthetic metabolic pathways. Contaminants are removed directly through immobilization as mineral precipitates (CaCO3 or MCO3), or indirectly (via sorption, complexes, or inclusion into the crystal structure). Further, CaCO3 precipitates deposited on the surface or within the pore spaces of a solid matrix create a clogging effect to reduce contaminant leachate. Experimental research on MICP has shown its promise as a bioremediation technique for mining waste. Additional research is required to evaluate the long-term feasibility and potential by-products of MICP-treated/stabilized waste.

Uncovering the Dynamics of Urease and Carbonic Anhydrase Genes in Ureolysis, Carbon Dioxide Hydration, and Calcium Carbonate Precipitation

The hydration of CO2 suffers from kinetic inefficiencies that make its natural trapping impractically sluggish. However, CO2-fixing carbonic anhydrases (CAs) remarkably accelerate its equilibration by 6 orders of magnitude and are, therefore, "ideal" catalysts. Notably, CA has been detected in ureolytic bacteria, suggesting its potential involvement in microbially induced carbonate precipitation (MICP), yet the dynamics of the urease (Ur) and CA genes remain poorly understood. Here, through the use of the ureolytic bacteriumSporosarcina pasteurii, we investigate the differing role of Ur and CA in ureolysis, CO2 hydration, and CaCO3 precipitation with increasing CO2(g) concentrations. We show that Ur gene up-regulation coincides with an increase in [HCO3-] following the hydration of CO2 to HCO3- by CA. Hence, CA physiologically promotes buffering, which enhances solubility trapping and affects the phase of the CaCO3 mineral formed. Understanding the role of CO2 hydration on the performance of ureolysis and CaCO3 precipitation provides essential new insights, required for the development of next-generation biocatalyzed CO2 trapping technologies.

Bacterial templated carbonate mineralization: insights from concave-type crystals induced by Curvibacter lanceolatus strain HJ-1

The elucidation of carbonate crystal growth mechanisms contributes to a deeper comprehension of microbial-induced carbonate precipitation processes. In this research, the Curvibacter lanceolatus HJ-1 strain, well-known for its proficiency in inducing carbonate mineralization, was employed to trigger the formation of concave-type carbonate minerals. The study meticulously tracked the temporal alterations in the culture solution and conducted comprehensive analyses of the precipitated minerals' mineralogy and morphology using advanced techniques such as X-ray diffraction, scanning electron microscopy, focused ion beam, and transmission electron microscopy. The findings unequivocally demonstrate that concave-type carbonate minerals are meticulously templated by bacterial biofilms and employ calcified bacteria as their fundamental structural components. The precise morphological evolution pathway can be delineated as follows: initiation with the formation of bacterial biofilms, followed by the aggregation of calcified bacterial clusters, ultimately leading to the emergence of concave-type minerals characterized by disc-shaped, sunflower-shaped, and spherical morphologies.

Toward Self-Healing Concrete Infrastructure: Review of Experiments and Simulations across Scales

Cement and concrete are vital materials used to construct durable habitats and infrastructure that withstand natural and human-caused disasters. Still, concrete cracking imposes enormous repair costs on societies, and excessive cement consumption for repairs contributes to climate change. Therefore, the need for more durable cementitious materials, such as those with self-healing capabilities, has become more urgent. In this review, we present the functioning mechanisms of five different strategies for implementing self-healing capability into cement based materials: (1) autogenous self-healing from ordinary portland cement and supplementary cementitious materials and geopolymers in which defects and cracks are repaired through intrinsic carbonation and crystallization; (2) autonomous self-healing by (a) biomineralization wherein bacteria within the cement produce carbonates, silicates, or phosphates to heal damage, (b) polymer-cement composites in which autonomous self-healing occurs both within the polymer and at the polymer-cement interface, and (c) fibers that inhibit crack propagation, thus allowing autogenous healing mechanisms to be more effective. In all cases, we discuss the self-healing agent and synthesize the state of knowledge on the self-healing mechanism(s). In this review article, the state of computational modeling across nano- to macroscales developed based on experimental data is presented for each self-healing approach. We conclude the review by noting that, although autogenous reactions help repair small cracks, the most fruitful opportunities lay within design strategies for additional components that can migrate into cracks and initiate chemistries that retard crack propagation and generate repair of the cement matrix.

Use of bacterial binder in repair mortar for micro-crack remediation

Micro-cracks are one of the types of stone deterioration which can propagate and lead to surface detachments and larger cracks in the long run. The present study developed a sustainable and environmentally friendly infill material-biological mortar (BM), as an alternative to conventional approaches. Using a biomineralization approach, this BM was explicitly designed for healing micro-cracks (less than 2 mm) in historic travertines. To this end, the mortar was prepared using a calcifying Bacillus sp. isolated from thermal spring water resources in Pamukkale Travertines (Denizli), stone powder gathered from travertine quarries in the vicinity, and a triggering solution specifically designed to set off calcium carbonate precipitation reaction. After setup, BM was applied to micro-cracks of artificially aged test stones for testing. Scanning electron microscopy revealed calcium carbonate-coated Bacillus sp. bodies in the BM matrix, optical microscopy showed secondary calcite minerals throughout the BM applied micro-cracks, and stereomicroscopy and nanoindentation analyses demonstrated bonding of BM with stone due to microbial calcification activities. Furthermore, BM and original material contact showed a continuous and coherent structure in all samples. Within this context, BM could be considered a promising and alternative approach for the remediation of micro-cracks of historic stones. KEY POINTS: A binder was produced by the MICP of Bacillus sp. Pamukkale. Physical, mineralogical, and nanomechanical characterization demonstrated microbial calcite precipitates in BM. A significant bond was determined between the grains and matrix of BM due to Bacillus sp. calcite production activities.

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.

Microbial‑induced carbonate precipitation (MICP) technology: a review on the fundamentals and engineering applications

The microbial‑induced carbonate precipitation (MICP), as an emerging biomineralization technology mediated by specific bacteria, has been a popular research focus for scientists and engineers through the previous two decades as an interdisciplinary approach. It provides cutting-edge solutions for various engineering problems emerging in the context of frequent and intense human activities. This paper is aimed at reviewing the fundaments and engineering applications of the MICP technology through existing studies, covering realistic need in geotechnical engineering, construction materials, hydraulic engineering, geological engineering, and environmental engineering. It adds a new perspective on the feasibility and difficulty for field practice. Analysis and discussion within different parts are generally carried out based on specific considerations in each field. MICP may bring comprehensive improvement of static and dynamic characteristics of geomaterials, thus enhancing their bearing capacity and resisting liquefication. It helps produce eco-friendly and durable building materials. MICP is a promising and cost-efficient technology in preserving water resources and subsurface fluid leakage. Piping, internal erosion and surface erosion could also be addressed by this technology. MICP has been proved suitable for stabilizing soils and shows promise in dealing with problematic soils like bentonite and expansive soils. It is also envisaged that this technology may be used to mitigate against impacts of geological hazards such as liquefaction associated with earthquakes. Moreover, global environment issues including fugitive dust, contaminated soil and climate change problems are assumed to be palliated or even removed via the positive effects of this technology. Bioaugmentation, biostimulation, and enzymatic approach are three feasible paths for MICP. Decision makers should choose a compatible, efficient and economical way among them and develop an on-site solution based on engineering conditions. To further decrease the cost and energy consumption of the MICP technology, it is reasonable to make full use of industrial by-products or wastes and non-sterilized media. The prospective direction of this technology is to make construction more intelligent without human intervention, such as autogenous healing. To reach this destination, MICP could be coupled with other techniques like encapsulation and ductile fibers. MICP is undoubtfully a mainstream engineering technology for the future, while ecological balance, environmental impact and industrial applicability should still be cautiously treated in its real practice.

Microfluidic study in a meter-long reactive path reveals how the medium's structural heterogeneity shapes MICP-induced biocementation

Microbially induced calcium carbonate (CaCO₃) precipitation (MICP) is one of the major sustainable alternatives to the artificial cementation of granular media. MICP consists of injecting the soil with bacterial- and calcium-rich solutions sequentially to form calcite bonds among the soil particles that improve the strength and stiffness of soils. The performance of MICP is governed by the underlying microscale processes of bacterial growth, reactive transport of solutes, reaction rates, crystal nucleation and growth. However, the impact of pore-scale heterogeneity on these processes during MICP is not well understood. This paper sheds light on the effect of pore-scale heterogeneity on the spatiotemporal evolution of MICP, overall chemical reaction efficiency and permeability evolution by combining two meter-long microfluidic devices of identical dimensions and porosity with homogeneous and heterogeneous porous networks and real-time monitoring. The two chips received, in triplicate, MICP treatment with an imposed flow and the same initial conditions, while the inlet and outlet pressures were periodically monitored. This paper proposes a comprehensive workflow destined to detect bacteria and crystals from time-lapse microscopy data at multiple positions along a microfluidic replica of porous media treated with MICP. CaCO₃ crystals were formed 1 h after the introduction of the cementation solution (CS), and crystal growth was completed 12 h later. The average crystal growth rate was overall higher in the heterogeneous porous medium, while it became slower after the first 3 h of cementation injection. It was found that the average chemical reaction efficiency presented a peak of 34% at the middle of the chip and remained above 20% before the last 90 mm of the reactive path for the heterogeneous porous network. The homogeneous porous medium presented an overall lower average reaction efficiency, which peaked at 27% 420 mm downstream of the inlet and remained lower than 12% for the rest of the microfluidic channel. These different trends of chemical efficiency in the two networks are due to a higher number of crystals of higher average diameter in the heterogeneous medium than in the homogeneous porous medium. In the interval between 480 and 900 mm, the number of crystals in the heterogeneous porous medium is more than double the number of crystals in the homogeneous porous medium. The average diameters of the crystals were 23-46 μm in the heterogeneous porous medium, compared to 17-40 μm in the homogeneous porous medium across the whole chip. The permeability of the heterogeneous porous medium was more affected than that of the homogeneous system, while the pressure sensors effectively captured a higher decrease in the permeability during the first two hours when crystals were formed and a less prominent decrease during the subsequent seeded growth of the existing crystals, as well as the nucleation and growth of new crystals.

Microdroplet-Based In Situ Characterization Of The Dynamic Evolution Of Amorphous Calcium Carbonate during Microbially Induced Calcium Carbonate Precipitation

Amorphous calcium carbonate (ACC) plays an important role in microbially induced calcium carbonate precipitation (MICP), which has great potential in broad applications such as building restoration, CO₂ sequestration, and bioremediation of heavy metals, etc. However, our understanding of ACC is still limited. By combining microscopy of cell-laden microdroplets with confocal Raman microspectroscopy, we investigated the ACC dynamics during MICP. The results show that MICP inside droplets can be divided into three stages: liquid, gel-like ACC, and precipitated CaCO₃ stages. In the liquid stage, the droplets are transparent. As the MICP process continues into the gel-like stage, the ACC structure appears and the droplets become opaque. Subsequently, dissolution of the gel-like structure is accompanied by growth of precipitated CaCO₃ crystals. The size, morphology, and lifetime of the gel-like structures depend on the Ca²⁺ concentration. Using polystyrene colloids as tracers, we find that the colloids exhibit diffusive behavior in both the liquid and precipitated CaCO₃ stages, while their motion becomes arrested in the gel-like ACC stage. These results provide direct evidence for the formation-dissolution process of the ACC-formed structure and its gel-like mechanical properties. Our work provides a detailed view of the time evolution of ACC and its mechanical properties at the microscale level, which has been lacking in previous studies.

Research status and development of microbial induced calcium carbonate mineralization technology

In nature, biomineralization is a common phenomenon, which can be further divided into authigenic and artificially induced mineralization. In recent years, artificially induced mineralization technology has been gradually extended to major engineering fields. Therefore, by elaborating the reaction mechanism and bacteria of mineralization process, and summarized various molecular dynamics equations involved in the mineralization process, including microbial and nutrient transport equations, microbial adsorption equations, growth equations, urea hydrolysis equations, and precipitation equations. Because of the environmental adaptation stage of microorganisms in sandy soil, their reaction rate in sandy soil environment is slower than that in solution environment, the influencing factors are more different, in general, including substrate concentration, temperature, pH, particle size and grouting method. Based on the characteristics of microbial mineralization such as strong cementation ability, fast, efficient, and easy to control, there are good prospects for application in sandy soil curing, building improvement, heavy metal fixation, oil reservoir dissection, and CO₂ capture. Finally, it is discussed and summarized the problems and future development directions on the road of commercialization of microbial induced calcium carbonate precipitation technology from laboratory to field application.

Role of subterranean microbiota in the carbon cycle and greenhouse gas dynamics

Subterranean ecosystems play an active role in the global carbon cycle, yet only a few studies using indirect methods have focused on the role of the cave microbiota in this critical cycle. Here we present pioneering research based on in situ real-time monitoring of CO₂ and CH₄ diffusive fluxes and concurrent δ¹³C geochemical tracing in caves, combined with 16S microbiome analysis. Our findings show that cave sediments are promoting continuous CH₄ consumption from cave atmosphere, resulting in a significant removal of 65% to 90%. This research reveals the most effective taxa and metabolic pathways in consumption and uptake of greenhouse gases. Methanotrophic bacteria were the most effective group involved in CH₄ consumption, namely within the families Methylomonaceae, Methylomirabilaceae and Methylacidiphilaceae. In addition, Crossiella and Nitrosococcaceae wb1-P19 could be one of the main responsible of CO₂ uptake, which occurs via the Calvin-Benson-Bassham cycle and reversible hydration of CO₂. Thus, syntrophic relationships exist between Crossiella and nitrifying bacteria that capture CO₂, consume inorganic N produced by heterotrophic ammonification in the surface of sediments, and induce moonmilk formation. Moonmilk is found as the most evolved phase of the microbial processes in cave sediments that fixes CO₂ as calcite and intensifies CH₄ oxidation. From an ecological perspective, cave sediments act qualitatively as soils, providing fundamental ecosystem services (e.g. nutrient cycling and carbon sequestration) with direct influence on greenhouse gas emissions.

High level of calcium carbonate precipitation achieved by mixed culture containing ureolytic and non-ureolytic bacterial strains

This study demonstrates a remarkably high level of microbial-induced calcium carbonate precipitation (MICP) using a mixed culture containing TBRC 1396 (Priestia megaterium), TBRC 8147 (Neobacillus drentensis), and ATCC 11859 (Sporosarcina pasteurii) bacterial strains. The mixed culture produced CaCO₃ weights 1.4 times higher than those obtained from S. pasteurii, the gold standard for efficient MICP processes. The three strains were selected after characterization of various Bacillus spp. and related species for their ability to induce the MICP process, especially in an alkaline and high temperature environment. Results showed that TBRC 1396 and TBRC 8147 strains, as well as TBRC 5949 (Bacillus subtilis) and TBRC 8986 (Priestia aryabhattai) strains, could generate calcium carbonate at pH 9-12 and temperature 30-40 °C, which is suitable for construction and consolidation purposes. The TBRC 8147 strain also exhibited CaCO₃ precipitation at 45 °C. The TBRC 8986 and TBRC 8147 strains are non-ureolytic bacteria capable of MICP in the absence of urea, which can be used to avoid the generation of undesirable ammonia associated with the ureolytic MICP process. These findings facilitate the successful use of MICP as a sustainable and environmentally friendly technology for the development of various materials, including self-healing concrete and soil consolidation.

Microbial communities in carbonate precipitates from drip waters in Nerja Cave, Spain

Research on cave microorganisms has mainly focused on the microbial communities thriving on speleothems, rocks and sediments; however, drip water bacteria and calcite precipitation has received less attention. In this study, microbial communities of carbonate precipitates from drip waters in Nerja, a show cave close to the sea in southeastern Spain, were investigated. We observed a pronounced difference in the bacterial composition of the precipitates, depending on the galleries and halls. The most abundant phylum in the precipitates of the halls close to the cave entrance was Proteobacteria, due to the low depth of this sector, the direct influence of a garden on the top soil and the infiltration of waters into the cave, as well as the abundance of members of the order Hyphomicrobiales, dispersing from plant roots, and other Betaproteobacteria and Gammaproteobacteria, common soil inhabitants. The influence of marine aerosols explained the presence of Marinobacter, Idiomarina, Thalassobaculum, Altererythrobacter and other bacteria due to the short distance from the cave to the sea. Nineteen out of forty six genera identified in the cave have been reported to precipitate carbonate and likely have a role in mineral deposition.

Influence of Pyroligneous Acid on Fermentation Parameters, CO2 Production and Bacterial Communities of Rice Straw and Stylo Silage

Carbon dioxide (CO₂) is a primary greenhouse gas and the main cause of global warming. Respiration from plant cells and microorganisms enables CO₂ to be produced during ensiling, a method of moist forage preservation applied worldwide. However, limited information is available regarding CO₂ emissions and mitigation during ensiling. Pyroligneous acid, a by-product of plant biomass pyrolysis, has a strong antibacterial capacity. To investigate CO₂ production and the influence of pyroligneous acid, fresh stylo, and rice straw were ensiled with or without 1% or 2% pyroligneous acid. Dynamics of the fermentation characteristics, CO₂ production, and bacterial communities during ensiling were analyzed. Pyroligneous acid increased the lactic acid content and decreased the weight losses, pH, ammonia-N content, butyric acid content, and coliform bacterial numbers (all P < 0.05). It also increased the relative abundance of Lactobacillus and decreased the relative abundances of harmful bacteria such as Enterobacter and Lachnoclostridium. Adding pyrolytic acids reduced the gas production, especially of CO₂. It also increased the relative abundances of CO₂-producing bacterial genera and of genera with the potential for CO₂ fixation. In conclusion, adding pyroligneous acid improved the fermentation quality of the two silages. During ensiling, CO₂ production was correlated with bacterial community alterations. Using pyroligneous acid altered the bacterial community to reduce CO₂ production during ensiling. Given the large production and demand for silage worldwide, application of pyroligneous acid may be an effective method of mitigating global warming via CO₂ emissions.

Dolerite Fines Used as a Calcium Source for Microbially Induced Calcite Precipitation Reduce the Environmental Carbon Cost in Sandy Soil

Microbial-Induced Calcite Precipitation (MICP) stimulates soil microbiota to induce a cementation of the soil matrix. Urea, calcium and simple carbon nutrients are supplied to produce carbonates via urea hydrolysis and induce the precipitation of the mineral calcite. Calcium chloride (CaCl₂) is typically used as a source for calcium, but basic silicate rocks and other materials have been investigated as alternatives. Weathering of calcium-rich silicate rocks (e.g., basalt and dolerite) releases calcium, magnesium and iron; this process is associated with sequestration of atmospheric CO₂ and formation of pedogenic carbonates. We investigated atmospheric carbon fluxes of a MICP treated sandy soil using CaCl₂ and dolerite fines applied on the soil surface as sources for calcium. Soil-atmosphere carbon fluxes were monitored over 2 months and determined with an infrared gas analyser connected to a soil chamber. Soil inorganic carbon content and isotopic composition were determined with isotope-ratio mass spectrometry. In addition, soil-atmosphere CO₂ fluxes during chemical weathering of dolerite fines were investigated in incubation experiments with gas chromatography. Larger CO₂ emissions resulted from the application of dolerite fines (116 g CO₂-C m^–2) compared to CaCl₂ (79 g CO₂-C m^–2) but larger inorganic carbon precipitation also occurred (172.8 and 76.9 g C m^–2, respectively). Normalising to the emitted carbon to precipitated carbon, the environmental carbon cost was reduced with dolerite fines (0.67) compared to the traditional MICP treatment (1.01). The carbon isotopic signature indicated pedogenic carbonates (δ¹³C_av = −8.2 ± 5.0‰) formed when dolerite was applied and carbon originating from urea (δ¹³C_av = −46.4 ± 1.0‰) precipitated when CaCl₂ was used. Dolerite fines had a large but short-lived (<2 d) carbon sequestration potential, and results indicated peak CO₂ emissions during MICP could be balanced optimising the application of dolerite fines.

Bioimmobilization of toxic metals by precipitation of carbonates using Sporosarcina luteola: An in vitro study and application to sulfide-bearing tailings

Metal release from mining wastes is a major environmental problem affecting ecosystems that requires effective, low-cost strategies for prevention and reclamation. The capacity of two strains (UB3 and UB5) of Sporosarcina luteola was investigated to induce the sequestration of metals by precipitation of carbonates in vitro and under microcosm conditions. These strains carry the ureC gene and have high urease activity. Also, they are highly resistant to metals and have the capacity for producing metallophores and arsenophores. SEM, EDX and XRD reveal that the two strains induced precipitation of calcite, vaterite and magnesian calcite as well as several (M²⁺)CO₃ such as hydromagnesite (Mg²⁺), rhodochrosite (Mn²⁺), cerussite (Pb²⁺), otavite (Cd²⁺), strontianite (Sr²⁺), witherite (Ba²⁺) and hydrozincite (Zn²⁺) in vitro. Inoculation of the mixed culture of UB3+UB5 in tailings increased the pH and induced the precipitation of vaterite, calcite and smithsonite enhancing biocementation and reducing pore size and permeability slowing down the oxidation of residual sulfides. Results further demonstrated that the strains of S. luteola immobilize bioavailable toxic elements through the precipitation and coprecipitation of thermodynamically stable (M²⁺)CO₃, Fe-Mn oxyhydroxides and organic chelates.

Bacterially Produced, Nacre-Inspired Composite Materials

The impressive mechanical properties of natural composites, such as nacre, arise from their multiscale hierarchical structures, which span from nano- to macroscale and lead to effective energy dissipation. While some synthetic bioinspired materials have achieved the toughness of natural nacre, current production methods are complex and typically involve toxic chemicals, extreme temperatures, and/or high pressures. Here, the exclusive use of bacteria to produce nacre-inspired layered calcium carbonate-polyglutamate composite materials that reach and exceed the toughness of natural nacre, while additionally exhibiting high extensibility and maintaining high stiffness, is introduced. The extensive diversity of bacterial metabolic abilities and the possibility of genetic engineering allows for the creation of a library of bacterially produced, cost-effective, and eco-friendly composite materials.

Biomineralisation performance of bacteria isolated from a landfill in China

We report an investigation of microbially induced carbonate precipitation by seven indigenous bacteria isolated from a landfill in China. Bacterial strains were cultured in a medium supplemented with 25 mmol/L calcium chloride and 333 mmol/L urea. The experiments were carried out at 30 °C for 7 days with agitation by a shaking table at 130 r/min. Scanning electron microscopic and X-ray diffraction analyses showed variations in calcium carbonate polymorphs and mineral composition induced by all bacterial strains. The amount of carbonate precipitation was quantified by titration. The amount of carbonate precipitated in the medium varied among isolates, with the lowest being Bacillus aerius rawirorabr15 (LC092833) precipitating around 1.5 times more carbonate per unit volume than the abiotic (blank) solution. Pseudomonas nitroreducens szh_asesj15 (LC090854) was found to be the most efficient, precipitating 3.2 times more carbonate than the abiotic solution. Our results indicate that bacterial carbonate precipitation occurred through ureolysis and suggest that variations in carbonate crystal polymorphs and rates of precipitation were driven by strain-specific differences in urease expression and response to the alkaline environment. These results and the method applied provide benchmarking and screening data for assessing the bioremediation potential of indigenous bacteria for containment of contaminants in landfills.

In Situ Real-Time Study on Dynamics of Microbially Induced Calcium Carbonate Precipitation at a Single-Cell Level

Ureolytic microbially induced calcium carbonate precipitation (MICP) is a promising green technique for addressing a variety of environmental and architectural concerns. However, the dynamics of MICP especially at the microscopic level remains relatively unexplored. In this work, by applying a bacterial tracking technique, the growth dynamics of micrometer-sized calcium carbonate precipitates induced by Sporosarcina pasteurii were studied at a single-cell resolution. The growth of micrometer-scale precipitates and the occurrence and dissolution of many unstable submicrometer calcium carbonate particles were observed in the precipitation process. More interestingly, we observed that micrometer-sized precipitated crystals did not grow on negatively charged cell surfaces nor on other tested polystyrene microspheres with different negatively charged surface modifications, indicating that a negatively charged surface was not a sufficient property for nucleating the growth of precipitates in the MICP process under the conditions used in this study. Our observations imply that the frequently cited model of bacterial cell surfaces as nucleation sites for precipitates during MICP is oversimplified. In addition, additional growth of calcium carbonates was observed on old precipitates collected from previous runs. The presence of bacterial cells was also shown to affect both morphologies and crystalline structures of precipitates, and both calcite and vaterite precipitates were found when cells physically coexisted with precipitates. This study provides new insights into the regulation of MICP through dynamic control of precipitation.

Microbial Diversity and Mineralogical-Mechanical Properties of Calcitic Cave Speleothems in Natural and in Vitro Biomineralization Conditions

Natural mineral formations are a window into important processes leading to carbon storage and mineralized carbonate structures formed through abiotic and biotic processes. In the current study, we made an attempt to undertake a comprehensive approach to characterize the mineralogical, mechanical, and microbial properties of different kinds of speleothems from karstic caves; with an aim to understand the bio-geo-chemical processes in speleothem structures and their impact on nanomechanical properties. We also investigated the biomineralization abilities of speleothem surface associated microbial communities in vitro. Mineralogical profiling using techniques such as X-ray powder Diffraction (XRD) and Tescan Integrated Mineral Analyzer (TIMA) demonstrated that calcite was the dominant mineral in the majority of speleothems with Energy Dispersive X-ray Analysis (EDS) indicating a few variations in the elemental components. Differing proportions of polymorphs of calcium carbonate such as aragonite and vaterite were also recorded. Significant variations in trace metal content were recorded through Inductively Coupled Plasma Mass Spectrometer (ICP-MS). Scanning Electron Microscopy (SEM) analysis revealed differences in morphological features of the crystals which varied from triangular prismatic shapes to etched spiky forms. Microbial imprints and associations were seen in a few sections. Analysis of the associated microbial diversity showed significant differences between various speleothems at Phylum level; although Proteobacteria and Actinobacteria were found to be the predominant groups. Genus level microbial associations showed a relationship with the geochemistry, mineralogical composition, and metal content of the speleothems. The assessment of nanomechanical properties measured by Nanoindentation revealed that the speleothems with a dominance of calcite were stronger than the speleothems with mixed calcium carbonate polymorphs and silica content. The in vitro metabolic activity of the microbial communities associated with the surfaces of the speleothems resulted in calcium carbonate crystal precipitation. Firmicutes and Proteobacteria dominated these populations, in contrast to the populations seen in natural systems. The precipitation of calcium carbonate crystals in vitro indicated that microbial metabolic activity may also play an important role in the synthesis and dissociation of biominerals in the natural environment. Our study provides novel evidence of the close relationship between mineralogy, microbial ecology, geochemistry, and nanomechanical properties of natural formations.

Trends, application and future prospectives of microbial carbonic anhydrase mediated carbonation process for CCUS

Growing industrialization and the desire for a better economy in countries has accelerated the emission of greenhouse gases (GHGs), by more than the buffering capacity of the earth's atmosphere. Among the various GHGs, carbon dioxide occupies the first position in the anthroposphere and has detrimental effects on the ecosystem. For decarbonization, several non-biological methods of carbon capture, utilization and storage (CCUS) have been in use for the past few decades, but they are suffering from narrow applicability. Recently, CO₂ emission and its disposal related problems have encouraged the implementation of bioprocessing to achieve a zero waste economy for a sustainable environment. Microbial carbonic anhydrase (CA) catalyses reversible CO₂ hydration and forms metal carbonates that mimic the natural phenomenon of weathering/carbonation and is gaining merit for CCUS. Thus, the diversity and specificity of CAs from different micro-organisms could be explored for CCUS. In the literature, more than 50 different microbial CAs have been explored for mineral carbonation. Further, microbial CAs can be engineered for the mineral carbonation process to develop new technology. CA driven carbonation is encouraging due to its large storage capacity and favourable chemistry, allowing site-specific sequestration and reusable product formation for other industries. Moreover, carbonation based CCUS holds five-fold more sequestration capacity over the next 100 years. Thus, it is an eco-friendly, feasible, viable option and believed to be the impending technology for CCUS. Here, we attempt to examine the distribution of various types of microbial CAs with their potential applications and future direction for carbon capture. Although there are few key challenges in bio-based technology, they need to be addressed in order to commercialize the technology.

CO2 sequestration by ureolytic microbial consortia through microbially-induced calcite precipitation

Urea is an abundant nitrogen-containing compound found in urine of mammals and widely used in fertilizers. This compound is part of the nitrogen biogeochemical cycle and is easily biodegraded by ureolytic microorganisms that have the urease enzyme. Previous studies, with ureolytic isolates, have shown that some ureolytic microorganisms are able to sequester CO₂ through a process called microbially-induced calcium carbonate precipitation. The present study investigates 15 ureolytic consortia obtained from the "Pamukkale travertines" and the "Cave Without A Name" using different growth media to identify the possible bacterial genera responsible for CO₂ sequestration through the microbially-induced calcite precipitation (MICP). The community structure and diversity were determined by deep-sequencing. The results showed that all consortia presented varying CO₂ sequestration capabilities and MICP rates. The CO₂ sequestration varied between 0 and 86.4%, and it depended largely on the community structure, as well as on pH. Consortia with predominance of Comamonas, Plesiomonas and Oxalobacter presented reduced CO₂ sequestration. On the other hand, consortia dominated by Sporosarcina, Sphingobacterium, Stenotrophomonas, Acinetobacter, and Elizabethkingia showed higher rates of CO₂ uptake in the serum bottle headspace.

Carbonate Precipitation through Microbial Activities in Natural Environment, and Their Potential in Biotechnology: A Review

Calcium carbonate represents a large portion of carbon reservoir and is used commercially for a variety of applications. Microbial carbonate precipitation, a by-product of microbial activities, plays an important metal coprecipitation and cementation role in natural systems. This natural process occurring in various geological settings can be mimicked and used for a number of biotechnologies, such as metal remediation, carbon sequestration, enhanced oil recovery, and construction restoration. In this study, different metabolic activities leading to calcium carbonate precipitation, their native environment, and potential applications and challenges are reviewed.

Characterization of bacterial diversity associated with calcareous deposits and drip-waters, and isolation of calcifying bacteria from two Colombian mines

Bacterial carbonate precipitation has implications in geological processes and important biotechnological applications. Bacteria capable of precipitating carbonates have been isolated from different calcium carbonate deposits (speleothems) in caves, soil, freshwater and seawater around the world. However, the diversity of bacteria from calcareous deposits in Colombia, and their ability to precipitate carbonates, remains unknown. In this study, conventional microbiological methods and molecular tools, such as temporal temperature gradient electrophoresis (TTGE), were used to assess the composition of bacterial communities associated with carbonate deposits and drip-waters from two Colombian mines. A genetic analysis of these bacterial communities revealed a similar level of diversity, based on the number of bands detected using TTGE. The dominant phylogenetic affiliations of the bacteria, determined using 16S rRNA gene sequencing, were grouped into two phyla: Proteobacteria and Firmicutes. Within these phyla, seven genera were capable of precipitating calcium carbonates: Lysinibacillus, Bacillus, Strenotophomonas, Brevibacillus, Methylobacterium, Aeromicrobium and Acinetobacter. FTIR and SEM/EDX were used to analyze calcium carbonate crystals produced by isolated Acinetobacter gyllenbergii. The results showed that rhombohedral and angular calcite crystals with sizes of 90μm were precipitated. This research provides information regarding the presence of complex bacterial communities in secondary carbonate deposits from mines and their ability to precipitate calcium carbonate from calcareous deposits of Colombian mines.