Microbially induced CaCO3 precipitation through denitrification: An optimization study in minimal nutrient environment

Advances in microbial self-healing concrete: A critical review of mechanisms, developments, and future directions

The self-healing bioconcrete, or bioconcrete as concrete containing microorganisms with self-healing capacities, presents a transformative strategy to extend the service life of concrete structures. This technology harnesses the biological capabilities of specific microorganisms, such as bacteria and fungi, which are integral to the material's capacity to autonomously mend cracks, thereby maintaining structural integrity. This review highlights the complex biochemical pathways these organisms utilize to produce healing compounds like calcium carbonate, and how environmental parameters, such as pH, temperature, oxygen, and moisture critically affect the repair efficacy. A comprehensive analysis of recently published peer-reviewed literature, and contemporary experimental research forms the backbone of this review with a focus on microbiological aspects of the self-healing process. The review assesses the challenges facing self-healing bioconcrete, including the longevity of microbial spores and the cost implications for large-scale implementation. Further, attention is given to potential research directions, such as investigating alternative biological agents and optimizing the concrete environment to support microbial activity. The culmination of this investigation is a call to action for integrating self-healing bioconcrete in construction on a broader scale, thereby realizing its potential to fortify infrastructure resilience and sustainability.

Effect of sand minerals on microbially induced carbonate precipitation by denitrification

Soil improvement techniques utilizing the metabolic functions of microorganisms, including microbially induced carbonate precipitation (MICP), have been extensively researched over the past few decades as part of bio-inspired geotechnical engineering research. Given that metabolic reactions in microorganisms produce carbonate minerals, an enhanced understanding of microbial interaction with soils could improve the effectiveness of MICP as a soil improvement technique. Therefore, this study investigated the effects of sands on MICP by denitrification to employ MICP for geotechnical soil improvement. Under the coexistence of natural sand and artificial silica sand, nitrate-reducing bacteria were cultured in a mixed liquid medium with nitrate, acetate, and calcium ions at 37 °C. Nitrate reduction occurred only in the presence of natural sand. However, the lack of chemical weathering of the composed minerals likely prevented the progress of bacterial growth and nitrate reduction in artificial silica sands. For natural sand, artificial chemical weathering by acid wash and ferrihydrite coating of the sand improved bacterial growth and accelerated nitrate reduction. The calcium carbonate formation induced by denitrification was also influenced by the state of the minerals in the soil and the nitrate reduction rate. The observed MICP enhancement is due to the involvement of coexisting secondary minerals like ferrihydrite with large specific surface areas and surface charges, which may improve the reaction efficiency by serving as adsorbents for bacteria and electron donors and acceptors in the solid phases, thereby promoting the precipitation and crystallization of calcium carbonate on the surfaces. This crystal formation in the minerals provides valuable insights for improving sand solidification via MICP. Considering the interactions between the target soil and microorganisms is essential to improving MICP processes for ground improvement.

Biomineralization Process of CaCO3 Precipitation Induced by Bacillus mucilaginous and Its Potential Application in Microbial Self-healing Concrete

Microbial induced calcium carbonate precipitation (MICP) is widely common in nature, which belongs to biomineralization and has been explored carefully in recent decades. The paper studied the effect of temperature, initial pH value and Ca2+ concentration on bacterial growth and carbonic anhydrase activity, and then revealed the biomineralization process through the changes of Ca2+ concentration and calcification rate in alkali environment. Meanwhile, microbial healing agent containing spores and calcium nitrate was prepared and used for the early age concrete cracks repair. The self-healing efficiency was assessed by crack closure rate and water permeability repair rate. The experimental results showed that when the optimal temperature was 30 °C, the pH was 8.0-11.0, and the optimal Ca2+ concentration was 0-90 mM, the bacteria could grow better and the carbonic anhydrase activity was higher. Compared with reference, the crack closure rate with the crack width up to 0.339 mm could reach 95.62% and the water permeability repair rate was 87.54% after 28 d healing time of dry-wet cycles. XRD analysis showed that the precipitates at the crack mouth were calcite CaCO3. Meanwhile, the self-healing mechanism of mortar cracks was discussed in detail. In particular, there is no other pollution in the whole mineralization process, and the self-healing system is environmentally friendly, which provides a novel idea and method for the application of microbial self-healing concrete.

A review of biomineralization in healing concrete: Mechanism, biodiversity, and application

Concrete is the main ingredient in construction, but it inevitably fractures during its service life, requiring a large amount of cement and aggregate for maintenance. Concrete healing through biomineralization can repair cracks and improve the durability of concrete, which is conducive to saving raw materials and reducing carbon emissions. This paper reviews the biodiversity of microorganisms capable of precipitating mineralization to repair the concrete and their mineralization ability under different conditions. To better understand the mass transfer process of precipitates, two biomineralization mechanisms, microbially-controlled mineralization and microbially-induced mineralization, have been briefly described. The application of microorganisms in the field of healing concrete, comprising passive healing and intrinsic healing, is discussed. The key insight on the interaction between cementitious materials and microorganisms is the main approach for developing novel self-healing concrete in the future to improve the corrosion resistance of concrete. At the same time, the limitations and challenges are also pointed out.

Composite biomediated engineering approaches for improving problematic soils: Potentials and opportunities

Several conventional chemical stabilizers are used for soil stabilization, among which cement is widely adopted. However, the high energy consumption and environmental challenges associated with these stabilizers have necessitated the transition toward the adoption/deployment of eco-friendly approaches for soil stabilization. Biomediated techniques are sustainable soil improvement methods adopting less toxic microorganisms, enzymes, or polymers for cementing soil. However, these processes also have several drawbacks, such as slow hardening, environmental impact, high cost, and lack of compatibility with different types of soils. It is hypothesized that these limitations may be overcome by exploring the prospects and opportunities offered by hybrid technological approaches involving the integration of nontraditional stabilizers and microbial-induced biomineralization processes for improving problematic soils. This paper discusses selected previous studies integrating different technologies and their benefits and challenges. The emerging fungi-based bio-mediation techniques and the possibility of forming sustainable fungal-based biocomposites to improve problematic soils are also highlighted.

Biomineral deposits and coatings on stone monuments as biodeterioration fingerprints

Biominerals deposition processes, also called biomineralisation, are intimately related to biodeterioration on stone surfaces. They include complex processes not always completely well understood. The study of biominerals implies the identification of organisms, their molecular mechanisms, and organism/rock/atmosphere interactions. Sampling restrictions of monument stones difficult the biominerals study and the in situ demonstrating of biodeterioration processes. Multidisciplinary works are required to understand the whole process. Thus, studies in heritage buildings have taken advantage of previous knowledge acquired thanks to laboratory experiments, investigations carried out on rock outcrops and within caves from some years ago. With the extrapolation of such knowledge to heritage buildings and the advances in laboratory techniques, there has been a huge increase of knowledge regarding biomineralisation and biodeterioration processes in stone monuments during the last 20 years. These advances have opened new debates about the implications on conservation interventions, and the organism's role in stone conservation and decay. This is a review of the existing studies of biominerals formation, biodeterioration on laboratory experiments, rocks, caves, and their application to building stones of monuments.

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.

Bacterial Viability in Self-Healing Concrete: A Case Study of Non-Ureolytic Bacillus Species

Cracking is an inevitable feature of concrete, typically leading to corrosion of the embedded steel reinforcement and massive deterioration because of the freezing-thawing cycles. Different means have been proposed to increase the serviceability performance of cracked concrete structures. This case study deals with bacteria encapsulated in cementitious materials to "heal" cracks. Such a biological self-healing system requires preserving the bacteria's viability in the cement matrix. Many embedded bacterial spores are damaged during concrete curing, drastically reducing efficiency. This study investigates the viability of commonly used non-ureolytic bacterial spores when immobilized in calcium alginate microcapsules within self-healing cementitious composites. Three Bacillus species were used in this study, i.e., B. pseudofirmus, B. cohnii, and B. halodurans. B. pseudofirmus demonstrated the best mineralization activity; a sufficient number of bacterial spores remained viable after the encapsulation. B. pseudofirmus and B. halodurans spores retained the highest viability after incorporating the microcapsules into the cement paste, while B. halodurans spores retained the highest viability in the mortar. Cracks with a width of about 0.13 mm were filled with bacterial calcium carbonate within 14 to 28 days, depending on the type of bacteria. Larger cracks were not healed entirely. B. pseudofirmus had the highest efficiency, with a healing coefficient of 0.497 after 56 days. This study also revealed the essential role of the cement hydration temperature on bacterial viability. Thus, further studies should optimize the content of bacteria and nutrients in the microcapsule structure.

Fresh and hardened properties of waste rubber tires based concrete: a state art of review

Owing to great environmental benefits, end-of-life waste tires are often used in concrete as a partial replacement for aggregates. However, the use of waste tires in concrete deteriorates fundamental properties. For a better knowledge of the various characteristics of concrete with waste tires and to highlight ways to improve them, this study was conducted. For this purpose, the effect of waste tires on fresh properties such as workability, air content, and unit weight was reviewed. Moreover, the influence of waste tires on mechanical properties such as compressive strength, flexural strength, splitting tensile strength, and modulus of elasticity was discussed in detail. The durability characteristics such as water absorption and porosity, freeze–thaw, corrosion, chloride ion penetration, and carbonation resistance were critically evaluated. The application of waste tires for concrete used in roadside barriers was also reviewed and impact resistance, energy absorption, toughness, and ductility were summarized. Results indicate the slump of concrete increased with the substitution of rubber but decreased strength properties. Although the strength properties of rubber concrete are less but can be used for low-strength concrete. Furthermore, rubber particles are more elastic, flexible, less stiff, and deformable as compared to natural aggregates. Therefore, rubberized concrete is more suitable for roadside barriers. This review is expected to advance the fundamental knowledge of concrete with end-of-life tires and promote the recycling of end-of-life tires in the concrete industry.

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.

Application of urease-producing microbial community in seawater to dust suppression in desert

In order to solve the dust problem caused by sandstorms, this paper aims to propose a new method of enriching urease-producing microbial communities in seawater in a non-sterile environment. Besides, the difference of dust suppression performance of enriched microorganisms under different pH conditions was also explored to adapt the dust. The Fourier-transform infrared spectrometry (FTIR) and Scanning electron microscopy (SEM) confirmed the formation of CaCO₃. The X-ray diffraction (XRD) further showed that the crystal forms of CaCO₃ were calcite and vaterite. When urease activity was equivalent, the alkaline environment was conducive to the transformation of CaCO₃ to more stable calcite. The mineralization rate at pH = 10 reached the maximum value on the 7^th day, which was 97.49 ± 1.73%. Moreover, microbial community analysis results showed that the relative abundance of microbial community structure was different under different pH enrichment. Besides, the relative abundance of Sporosarcina, a representative genus of urease-producing microbial community, increased with the increase of pH under culture conditions, which consistent with the mineralization performance results. In addition, the genus level species network diagram also showed that in the microbial community, Sporosarcina was negatively correlated with another urease-producing genus Bacillus, and had a reciprocal relationship with Atopostipes, which means that the urease-producing microbial community was structurally stable. The enrichment of urease-producing microbial communities in seawater will provide empirical support for the large-scale engineering application of MICP technology in preventing and controlling sandstorms in deserts.

Microbial repairing of concrete & its role in CO2 sequestration: a critical review

Background

Being the most widely used construction material, concrete health is considered a very important aspect from the structural point of view. Microcracks in concrete cause water and chlorine ions to enter the structure, causing the concrete to degrade and the reinforcement to corrode, posing an unacceptable level of structural risk. Hence repair of these cracks in an eco-friendly and cost-effective way is in the interest of various researchers. Microbially induced calcite precipitation (MICP) is an effective way considered by various researchers to heal those concrete cracks along with an important environmental contribution of CO2 (carbon dioxide) sequestration in the process.

Main content

As the current concentration of CO2 in the earth’s atmosphere is about 412 ppm, it possesses a deadly threat to the environmental issue of global warming. The use of bacteria for MICP can not only be a viable solution to repairing concrete cracks but also can play an important role of CO2 arrestation in carbonate form. This will help in carbon level management to lessen the adverse effects of this greenhouse gas on the atmospheric environment, particularly on the climate. To overcome the insufficiency of studies concentrating on this aspect, this review article focuses on the metabolic pathways and mechanisms of MICP and highlights the value of MICP for CO2 arrestation/sequestration from the atmosphere during the process of self-healing of concrete cracks, which is also the novelty of this work. An overview of recent studies on the implementation of MICP in concrete crack repair is used to discuss and analyse the factors influencing the effectiveness of MICP in the process, including various approaches used for CO2 sequestration. Furthermore, this investigation concentrates on finding the scope of work in the same field for the most effective ways of CO2 sequestration in the process of self-healing cracks of concrete.

Conclusion

In a prospective study, MICP can be an effective technology for CO2 sequestration in concrete crack repair, as it can reduce adverse environmental impacts and provide greener environment. This critical study concludes that MICP can bear a significant role in arrestation/sequestration of CO2, under proper atmospheric conditions with a cautious selection of microorganisms and its nutrient for the MICP procedure.

Graphical Abstract

Simultaneous removal of nitrate and heavy metals in a biofilm reactor filled with modified biochar

A biofilm reactor filled with chia seeds gum modified biochar was set up for the simultaneous removal of nitrate, cadmium and zinc from calcium-containing wastewater via denitrification and microbially-induced (calcium) carbonate precipitation. The reactor performance was studied under different conditions of pH, Cd concentration, and hydraulic retention time. The optimal removal efficiency of the reactor for NO₃^--N, Ca²⁺, Cd²⁺, and Zn²⁺ were 99.98, 79.89, 100, and 99.84 %, respectively. 3D-EEM indicated the aromatic compounds confirming the stability of the reactor. FTIR illustrated the presence of -OH, CaCO₃, C-O-C, and C-O-H indicating the precipitation and role of gum in MICP. SEM confirmed that the seed crystal induced the repeated crystallization of free metal ions. XRD showed that heavy metals were removed in the form of CaCO₃, CdCO₃, ZnCO₃, Ca₃(PO₃)₂, Cd₃(PO₃)₂, and Zn₃(PO₃)₂ co-crystallization. SEM-EDS showed the composition and distribution of elements. High-throughput sequencing showed that Curpriavidus sp. GMF1 and Ochrobactrum sp. GMC12 were the dominant bacterial species, with powerful denitrification and MICP mineralization capabilities.

Relationship between Bacterial Contribution and Self-Healing Effect of Cement-Based Materials

The civil research community has been attracted to self-healing bacterial-based concrete as a potential solution in the economy 4.0 era. This concept provides more sustainable material with a longer lifetime due to the reduction of crack appearance and the need for anthropogenic impact. Regardless of the achievements in this field, the gap in the understanding of the importance of the bacterial role in self-healing concrete remains. Therefore, understanding the bacterial life cycle in the self-healing effect of cement-based materials and selecting the most important relationship between bacterial contribution, self-healing effect, and material characteristics through the process of microbiologically (bacterially) induced carbonate precipitation is just the initial phase for potential applications in real environmental conditions. The concept of this study offers the possibility to recognize the importance of the bacterial life cycle in terms of application in extreme conditions of cement-based materials and maintaining bacterial roles during the self-healing effect.

Potential of a novel facultative anaerobic denitrifying Cupriavidus sp. W12 to remove fluoride and calcium through calcium bioprecipitation

This study focused on a novel denitrifying Cupriavidus sp. W12, which can perform microbial induced calcium precipitation (MICP) to remove fluoride (F^-) under aerobic and anaerobic conditions. Under anaerobic condition, the removal ratios of F^-, calcium (Ca²⁺), and nitrate (NO₃^--N) reached 87.52%, 65.03%, and 96.06%, respectively, which were higher than that under aerobic condition (50.17%, 88.21%, and 67.33%, respectively). Higher pH of 8.26 was obtained after 120 h of the strain W12 growth under anaerobic condition than that under aerobic condition (7.77). The F^- removal ratio of 98.20% was predicted by the response surface methodology (RSM). Scanning electron microscopy (SEM) images of anaerobic precipitation were dense and porous. CaCO₃, Ca₅(PO₄)₃OH, Ca₅(PO₄)₃F, and CaF₂ were determined by X-ray diffraction (XRD) and energy dispersive spectrometer (EDS). Self-aggregation of bacteria and adsorption of biological crystal seeds were the determinant of the precipitates formation. The results of infrared spectrometer (FTIR) and excitation-emission matrix (EEM) showed that anaerobic extracellular polymeric substances (EPS) expression led the proportion of hydroxylapatite in the precipitates increased. As the first report on the anaerobic MICP to remove F^-, it provides a theoretical basis for the remediation of F^-, Ca²⁺, and NO₃^--N in groundwater.

Controlling pore-scale processes to tame subsurface biomineralization

Microorganisms capable of biomineralization can catalyze mineral precipitation by modifying local physical and chemical conditions. In porous media, such as soil and rock, these microorganisms live and function in highly heterogeneous physical, chemical and ecological microenvironments, with strong local gradients created by both microbial activity and the pore-scale structure of the subsurface. Here, we focus on extracellular bacterial biomineralization, which is sensitive to external heterogeneity, and review the pore-scale processes controlling microbial biomineralization in natural and engineered porous media. We discuss how individual physical, chemical and ecological factors integrate to affect the spatial and temporal control of biomineralization, and how each of these factors contributes to a quantitative understanding of biomineralization in porous media. We find that an improved understanding of microbial behavior in heterogeneous microenvironments would promote understanding of natural systems and output in diverse technological applications, including improved representation and control of fluid mixing from pore to field scales. We suggest a range of directions by which future work can build from existing tools to advance each of these areas to improve understanding and predictability of biomineralization science and technology.

Microbially Induced Desaturation and Carbonate Precipitation through Denitrification: A Review

Microbially induced carbonate precipitation (MICP) has been proposed as a sustainable approach to solve various environmental, structural, geotechnical and architectural issues. In the last decade, a ubiquitous microbial metabolism, nitrate reduction (also known as denitrification) got attention in MICP research due to its unique added benefits such as simultaneous corrosion inhibition in concrete and desaturation of porous media. The latter even upgraded MICP into a more advanced concept called microbially induced desaturation and precipitation (MIDP) which is being investigated for liquefaction mitigation. In this paper, we present the findings on MICP through denitrification by covering applications under two main titles: (i) applications solely based on MICP, such as soil reinforcement, development of microbial self-healing concrete, restoration of artwork and historical monuments, and industrial wastewater treatment, (ii) an application based on MIDP: liquefaction mitigation. After explaining the denitrification process in detail and describing the MICP and MIDP reaction system occurring through denitrification metabolism, the most recent advances in each potential field of application are collected, addressing the novel findings and limitations, to provide insights toward the practical applications in situ. Finally, the research needs required to deal with the defined challenges in application-oriented upscaling and optimization of MICP through denitrification are suggested. Overall, collected research findings revealed that MICP through denitrification possesses a great potential to replace conventionally used petrochemical-based, labour intensive, destructive and economically unfeasible techniques used in construction industry with a bio-based, labourless, low-carbon technology. This worldwide applicable bio-based technology will facilitate the sustainable development and contribute to the carbon-emission-reduction.

Effect of Jute Fibres on the Process of MICP and Properties of Biocemented Sand

There has been increasing interest, in the past decade, in bio-mediated approaches to soil improvement for geotechnical applications. Microbially induced calcium carbonate precipitation (MICP) has been investigated as a potentially sustainable method for the strengthening and stabilisation of soil structures. This paper presents the results of a study on the effect of jute fibres on both the MICP process and properties of biocemented sand. Ureolytic Sporosarcina pasteurii has been used to produce biocemented soil columns via MICP in the laboratory. Results showed that columns containing 0.75% (by weight of sand) untreated jute fibres had unconfined compressive strengths approximately six times greater on average compared to biocemented sand columns without jute fibres. Furthermore, efficiency of chemical conversion was found to be higher in columns containing jute fibres, as measured using ion chromatography. Columns containing jute had calcimeter measured CaCO₃ contents at least three times those containing sand only. The results showed that incorporation of jute fibres into the biocemented sand material had a beneficial effect, resulting in stimulation of bacterial activity, thus sustaining the MICP process during the twelve-day treatment process. This study also explores the potential of jute fibres in self-healing MICP systems.

Effect and Mechanism of Encapsulation-Based Spores on Self-Healing Concrete at Different Curing Ages

It has become an intelligent and environmental protection method to repair concrete cracks based on microbial-induced calcium carbonate precipitation (MICP). However, due to the high-alkali environment in concrete, even the microbial spores with strong alkali resistance find it difficult to survive for a long time, which affects the long-term self-healing effect of concrete cracks. In this paper, low-alkali sulfo-aluminate cement (SC) was used as a carrier to encapsulate spores, and the effects of the spore group and microbial group on the basic performances of concrete were studied. Then, the area repair ratio, water permeability, the repair ratio of anti-chloride ion penetration, and ultrasonic velocity were used to evaluate the self-healing efficiency of cracks, and the self-healing effects of two kinds of microbial self-healing agents on concrete cracks with different curing ages were further studied. Moreover, the growth, enzyme activity, and microbial morphologies of spores with and without encapsulation immersed in the simulated pore solution of cement-based materials at different times were studied to discuss the protective effect of the carrier on spores. Compared with the reference group, the results showed that the addition of two microbial self-healing agents would slightly affect the basic performances of concrete, but both were within the control range of concrete materials. For the early-age cracks, the two kinds of microbial self-healing agents could achieve a good self-healing effect, but for the later-age cracks, the concrete cracks of the microbial group could still be repaired well, while the self-healing effect of the spore group was greatly reduced. Moreover, the white precipitates generated at the crack mouth were all calcite CaCO₃. In addition, the self-healing mechanism of different microbial self-healing agents on concrete cracks was discussed carefully. This study provides a new idea and method for the engineering application of microbial self-healing concrete.

Insights into the Current Trends in the Utilization of Bacteria for Microbially Induced Calcium Carbonate Precipitation

Nowadays, microbially induced calcium carbonate precipitation (MICP) has received great attention for its potential in construction and geotechnical applications. This technique has been used in biocementation of sand, consolidation of soil, production of self-healing concrete or mortar, and removal of heavy metal ions from water. The products of MICP often have enhanced strength, durability, and self-healing ability. Utilization of the MICP technique can also increase sustainability, especially in the construction industry where a huge portion of the materials used is not sustainable. The presence of bacteria is essential for MICP to occur. Bacteria promote the conversion of suitable compounds into carbonate ions, change the microenvironment to favor precipitation of calcium carbonate, and act as precipitation sites for calcium carbonate crystals. Many bacteria have been discovered and tested for MICP potential. This paper reviews the bacteria used for MICP in some of the most recent studies. Bacteria that can cause MICP include ureolytic bacteria, non-ureolytic bacteria, cyanobacteria, nitrate reducing bacteria, and sulfate reducing bacteria. The most studied bacterium for MICP over the years is Sporosarcina pasteurii. Other bacteria from Bacillus species are also frequently investigated. Several factors that affect MICP performance are bacterial strain, bacterial concentration, nutrient concentration, calcium source concentration, addition of other substances, and methods to distribute bacteria. Several suggestions for future studies such as CO₂ sequestration through MICP, cost reduction by using plant or animal wastes as media, and genetic modification of bacteria to enhance MICP have been put forward.

Microbe-Mediated Extracellular and Intracellular Mineralization: Environmental, Industrial, and Biotechnological Applications

Microbe-mediated mineralization is ubiquitous in nature, involving bacteria, fungi, viruses, and algae. These mineralization processes comprise calcification, silicification, and iron mineralization. The mechanisms for mineral formation include extracellular and intracellular biomineralization. The mineral precipitating capability of microbes is often harnessed for green synthesis of metal nanoparticles, which are relatively less toxic compared with those synthesized through physical or chemical methods. Microbe-mediated mineralization has important applications ranging from pollutant removal and nonreactive carriers, to other industrial and biomedical applications. Herein, the different types of microbe-mediated biomineralization that occur in nature, their mechanisms, as well as their applications are elucidated to create a backdrop for future research.

Complementing urea hydrolysis and nitrate reduction for improved microbially induced calcium carbonate precipitation

Microbial-induced CaCO₃ precipitation has been widely applied in bacterial-based self-healing concrete. However, the limited biogenetic CaCO₃ production by bacteria after they were introduced into the incompatible concrete matrix is a major challenge of this technology. In the present study, the potential of combining two metabolic pathways, urea hydrolysis and nitrate reduction, simultaneously in one bacteria strain for improving the bacterial CaCO₃ yield has been investigated. One bacterial strain, Ralstonia eutropha H16, which has the highest Ca²⁺ tolerance and is capable of performing both urea hydrolysis and nitrate reduction in combined media was selected among three bacterial candidates based on the enzymatic examinations. Results showed that H16 does not need oxygen for urea hydrolysis and urease activity was determined primarily by cell concentration. However, the additional urea in the combined medium slowed down the nitrate reduction rate to 7 days until full NO₃^- decomposition. Moreover, the nitrate reduction of H16 was significantly restricted by an increased Ca²⁺ ion concentration in the media. Nevertheless, the overall CaCO₃ precipitation yield can be improved by 20 to 30% after optimization through the combination of two metabolic pathways. The highest total CaCO₃ precipitation yield achieved in an orthogonal experiment was 14 g/L. It can be concluded that Ralstonia eutropha H16 is a suitable bacterium for simultaneous activation of urea hydrolysis and nitrate reduction for improving the CaCO₃ precipitation and it can be studied later, on activation of multiple metabolic pathways in bacteria-based self-healing concrete.

Microbially induced calcium carbonate precipitation: a widespread phenomenon in the biological world

Biodeposition of minerals is a widespread phenomenon in the biological world and is mediated by bacteria, fungi, protists, and plants. Calcium carbonate is one of those minerals that naturally precipitate as a by-product of microbial metabolic activities. Over recent years, microbially induced calcium carbonate precipitation (MICP) has been proposed as a potent solution to address many environmental and engineering issues. However, for being a viable alternative to conventional techniques as well as being financially and industrially competitive, various challenges need to be overcome. In this review, the detailed metabolic pathways, including ammonification of amino acids, dissimilatory reduction of nitrate, and urea degradation (ureolysis), along with the potent bacteria and the favorable conditions for precipitation of calcium carbonate, are explained. Moreover, this review highlights the potential environmental and engineering applications of MICP, including restoration of stones and concrete, improvement of soil properties, sand consolidation, bioremediation of contaminants, and carbon dioxide sequestration. The key research and development questions necessary for near future large-scale applications of this innovative technology are also discussed.

Screening of Fungi for Potential Application of Self-Healing Concrete

Concrete is susceptible to cracking owing to drying shrinkage, freeze-thaw cycles, delayed ettringite formation, reinforcement corrosion, creep and fatigue, etc. Continuous inspection and maintenance of concrete infrastructure require onerous labor and high costs. If the damaging cracks can heal by themselves without any human interference or intervention, that could be of great attraction. In this study, a novel self-healing approach is investigated, in which fungi are applied to heal cracks in concrete by promoting calcium carbonate precipitation. The goal of this investigation is to discover the most appropriate species of fungi for the application of biogenic crack repair. Our results showed that, despite the significant pH increase owing to the leaching of calcium hydroxide from concrete, Aspergillus nidulans (MAD1445), a pH regulatory mutant, could grow on concrete plates and promote calcium carbonate precipitation.

Alkaliphiles: The Emerging Biological Tools Enhancing Concrete Durability

Concrete is one of the most commonly used building materials ever used. Despite it is a very important and common construction material, concrete is very sensitive to crack formation and requires repair. A variety of chemical-based techniques and materials have been developed to repair concrete cracks. Although the use of these chemical-based repair systems are the best commercially available choices, there have also been concerns related to their use. These repair agents suffer from inefficiency and unsustainability. Most of the products are expensive and susceptible to degradation, exhibit poor bonding to the cracked concrete surfaces, and are characterized by different physical properties such as thermal expansion coefficients which are different to that of concrete. Moreover, many of these repair agents contain chemicals that pose environmental and health hazards. Thus, there has been interest in developing concrete crack repair agents that are efficient, long lasting, safe, and benign to the environment and exhibit physical properties which resemble that of the concrete. The search initiated by these desires brought the use of biomineralization processes as tools in mending concrete cracks. Among biomineralization processes, microbially initiated calcite precipitation has emerged as an interesting alternative to the existing chemical-based concrete crack repairing system. Indeed, results of several studies on the use of microbial-based concrete repair agents revealed the remarkable potential of this approach in the fight against concrete deterioration. In addition to repairing existing concrete cracks, microorganisms have also been considered to make protective surface coating (biodeposition) on concrete structures and in making self-healing concrete.Even though a wide variety of microorganisms can precipitate calcite, the nature of concrete determines their applicability. One of the important factors that determine the applicability of microbes in concrete is pH. Concrete is highly alkaline in nature, and hence the microbes envisioned for this application are alkaliphilic or alkali-tolerant. This work reviews the available information on applications of microbes in concrete: repairing existing cracks, biodeposition, and self-healing. Moreover, an effort is made to discuss biomineralization processes that are relevant to extend the durability of concrete structures. Graphical Abstract.

Characterization of Pustular Mats and Related Rivularia-Rich Laminations in Oncoids From the Laguna Negra Lake (Argentina)

Stromatolites are organo-sedimentary structures that represent some of the oldest records of the early biosphere on Earth. Cyanobacteria are considered as a main component of the microbial mats that are supposed to produce stromatolite-like structures. Understanding the role of cyanobacteria and associated microorganisms on the mineralization processes is critical to better understand what can be preserved in the laminated structure of stromatolites. Laguna Negra (Catamarca, Argentina), a high-altitude hypersaline lake where stromatolites are currently formed, is considered as an analog environment of early Earth. This study aimed at characterizing carbonate precipitation within microbial mats and associated oncoids in Laguna Negra. In particular, we focused on carbonated black pustular mats. By combining Confocal Laser Scanning Microscopy, Scanning Electron Microscopy, Laser Microdissection and Whole Genome Amplification, Cloning and Sanger sequencing, and Focused Ion Beam milling for Transmission Electron Microscopy, we showed that carbonate precipitation did not directly initiate on the sheaths of cyanobacterial Rivularia, which dominate in the mat. It occurred via organo-mineralization processes within a large EPS matrix excreted by the diverse microbial consortium associated with Rivularia where diatoms and anoxygenic phototrophic bacteria were particularly abundant. By structuring a large microbial consortium, Rivularia should then favor the formation of organic-rich laminations of carbonates that can be preserved in stromatolites. By using Fourier Transform Infrared spectroscopy and Synchrotron-based deep UV fluorescence imaging, we compared laminations rich in structures resembling Rivularia to putatively chemically-precipitated laminations in oncoids associated with the mats. We showed that they presented a different mineralogy jointly with a higher content in organic remnants, hence providing some criteria of biogenicity to be searched for in the fossil record.

Optimization of a Binary Concrete Crack Self-Healing System Containing Bacteria and Oxygen

An optimized strategy for the enhancement of microbially induced calcium precipitation including spore viability ensurance, nutrient selection and O₂ supply was developed. Firstly, an optimal yeast extract concentration of 5 g/L in sporulation medium was determined based on viable spore yield and spore viability. Furthermore, the effects of certain influential factors on microbial calcium precipitation process of H4 in the presence of oxygen releasing tablet (ORT) were evaluated. The results showed that CaO₂ is preferable to other peroxides in improving the calcium precipitation by H4. H4 strain is able to precipitate a highly insoluble calcium at the CaO₂ dosage range of 7.5–12.5 g/L, and the most suitable spore concentration is 6 × 10⁸ spores/ml when the spore viability (viable spore ratio) is approximately 50%. Lactate is the best carbon source and nitrate is the best nitrogen source for aerobic incubation. This work has laid a foundation of ternary self-healing system containing bacteria, ORT, and nutrients, which will be promising for the self-healing of cracks deep inside the concrete structure.

Bioconcrete: next generation of self-healing concrete

Concrete is one of the most widely used construction materials and has a high tendency to form cracks. These cracks lead to significant reduction in concrete service life and high replacement costs. Although it is not possible to prevent crack formation, various types of techniques are in place to heal the cracks. It has been shown that some of the current concrete treatment methods such as the application of chemicals and polymers are a source of health and environmental risks, and more importantly, they are effective only in the short term. Thus, treatment methods that are environmentally friendly and long-lasting are in high demand. A microbial self-healing approach is distinguished by its potential for long-lasting, rapid and active crack repair, while also being environmentally friendly. Furthermore, the microbial self-healing approach prevails the other treatment techniques due to the efficient bonding capacity and compatibility with concrete compositions. This study provides an overview of the microbial approaches to produce calcium carbonate (CaCO3). Prospective challenges in microbial crack treatment are discussed, and recommendations are also given for areas of future research.

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.

Self-protected nitrate reducing culture for intrinsic repair of concrete cracks

Attentive monitoring and regular repair of concrete cracks are necessary to avoid further durability problems. As an alternative to current maintenance methods, intrinsic repair systems which enable self-healing of cracks have been investigated. Exploiting microbial induced CaCO₃ precipitation (MICP) using (protected) axenic cultures is one of the proposed methods. Yet, only a few of the suggested healing agents were economically feasible for in situ application. This study presents a NO3− reducing self-protected enrichment culture as a self-healing additive for concrete. Concrete admixtures Ca(NO₃)₂ and Ca(HCOO)₂ were used as nutrients. The enrichment culture, grown as granules (0.5–2 mm) consisting of 70% biomass and 30% inorganic salts were added into mortar without any additional protection. Upon 28 days curing, mortar specimens were subjected to direct tensile load and multiple cracks (0.1–0.6 mm) were achieved. Cracked specimens were immersed in water for 28 days and effective crack closure up to 0.5 mm crack width was achieved through calcite precipitation. Microbial activity during crack healing was monitored through weekly NOx analysis which revealed that 92 ± 2% of the available NO3− was consumed. Another set of specimens were cracked after 6 months curing, thus the effect of curing time on healing efficiency was investigated, and mineral formation at the inner crack surfaces was observed, resulting in 70% less capillary water absorption compared to healed control specimens. In conclusion, enriched mixed denitrifying cultures structured in self-protecting granules are very promising strategies to enhance microbial self-healing.