Microbial Carbonic Anhydrases in Biomimetic Carbon Sequestration for Mitigating Global Warming: Prospects and Perspectives.

All the leading cities in the world are slowly becoming inhospitable for human life with global warming playing havoc with the living conditions. Biomineralization of carbon dioxide using carbonic anhydrase (CA) is one of the most economical methods for mitigating global warming. The burning of fossil fuels results in the emission of large quantities of flue gas. The temperature of flue gas is quite high. Alkaline conditions are necessary for CaCO3 precipitation in the mineralization process. In order to use CAs for biomimetic carbon sequestration, thermo-alkali-stable CAs are, therefore, essential. CAs must be stable in the presence of various flue gas contaminants too. The extreme environments on earth harbor a variety of polyextremophilic microbes that are rich sources of thermo-alkali-stable CAs. CAs are the fastest among the known enzymes, which are of six basic types with no apparent sequence homology, thus represent an elegant example of convergent evolution. The current review focuses on the utility of thermo-alkali-stable CAs in biomineralization based strategies. A variety of roles that CAs play in various living organisms, the use of CA inhibitors as drug targets and strategies for overproduction of CAs to meet the demand are also briefly discussed.

Introduction

In the early Eighteenth century, industrial revolution took the world by storm. This led to large scale manufacture, which at that time proved to be a major economic boost world over. In the last 300 years, there has been a marked transformation in human life. Due to improved farming practices, food production increased. This along with technological advances in health, communication and transport sectors paved the way toward modern age for human civilization. This modernization led to a heavy toll on “mother nature” (Shakun et al., 2012).

The concentrations of greenhouse gases are increasing day by day mainly due to anthropogenic activities, of them about two-thirds is contributed by fossil fuels. The burning of fossil fuels results in the emission of large quantities of flue gas that contains ~ 71% N2, 14% CO2, 1–2% hydrocarbons, carbon monoxide, NOx, and minor amounts of SOx (Perry and Gee, 1995). According to IPCC, among all the greenhouse gases, CO2 is emitted most (65% from fossil fuels and 11% from forestry). Other gases such as methane (16%), nitrous oxide (6%), and fluorinated gases (2%) are emitted in smaller amounts by anthropogenic activities (IPCC, 2014). Cumulative carbon emissions from different sectors have increased by about 40% since 1970s. The concentrations of hazardous gases such as NOx, SOx and methane are well beyond their threshold in many cities all over the world, thus, the Air Quality Index (AQI) is declining (IPCC, 2000). CO2 levels in the atmosphere have surged past the threshold of 400 ppm and it may not climb down for generations. This 400 ppm benchmark was broken first time in the recorded history last year. According to World Meteorological Organization (WMO), 2016 would be the first full year to exceed the mark (NOAA, 2016). As per the latest measurement by NOAA in April 2017, the concentration of CO2 at present is 406.17 ppm (NOAA, 2017). Some of the isolated places (Arctic regions) have already breached this mark in the past few years as recorded in Mouna Loa Observatory in 2013 (IPCC, 2013). Emission Database for Global Atmospheric Research stated that global emission of CO2 has increased by 48% in the last two decades (http://edgar.jrc.ec.europa.eu/overview.php?v). The increase in GHG emissions has led to increase in earth's surface temperature by about 2°C from pre-industrial times (IPCC, 2000). These conditions have also led to widespread natural calamities and affected the environment adversely. An increase in warm temperature extremes and decrease in cold temperature extremes have been noted in the past few years. This has also led to an impact on the precipitation patterns around the world and disturbed the water cycle. Agricultural production has been affected due to adverse climatic changes. There has been a reduction in crop yields leading to increase in food prices, food shortage and insecurity (Adams et al., 1998). These climatic hazards are affecting the lives of people round the world particularly those who are living below the poverty line. Many freshwater, marine and terrestrial species are already on the verge of extinction. A change in the distribution and interaction pattern has been observed in many freshwater and marine phytoplanktons. According to IPCC, the period from 1983 to 2012 were the warmest years (IPCC, 2014).

Air pollution causes various respiratory and cardiac diseases. Tiny particles produced by vehicular engines and industry worsen heart and brain related disorders and increase the risk of stroke. Global warming is taking the earth toward peril and it is essential to tackle this catastrophe for our survival. It is next to impossible for developing and under developed nations to control large scale CO2 emissions. Nevertheless, global warming has to be mitigated. Scientific and global consensus on global warming and climate change has brought the world powers together in order to hunt for new technologies for mitigating the global warming (Kheshgi et al., 2012).

The year 2015 ushered in an era of optimism and action with Paris climate change agreement. It also marks a new era of climate change reality with record levels of high greenhouse gases. In order to tackle increasing carbon emissions, carbon trading and taxation have been implemented by various countries (Princiotta, 2007). The progress made in developing carbon capture technologies has been reviewed from time to time (Boone et al., 2013; Frost and McKenna, 2013). IPCC has also published a wholesome review on different CCS technologies providing a precious input for policy makers and researchers in developing schemes for reducing GHG emissions (IPCC, 2000, 2013, 2014). Some reviews have also outlined various holistic approaches for carbon capture and also described methods for mitigating global warming. This review discusses biomimetic approach for mitigation of global warming with a special focus on utilizing nature's own catalyst, carbonic anhydrase (CA), as the biomimetic carbon sequestering agent.

Approaches for mitigating global warming

Countries round the world have initiated a number of measures to counter the alarming rise of CO2 in the environment which includes use of low carbon fuels (nuclear power, natural gas etc.), increasing the use of renewal energy and applying geo-engineering approaches [afforestation and reforestation, and CO2 capture, storage and utilization (CCSU)]. All these approaches have their own set of merits and demerits. It is impossible to curtail the carbon emissions by using only one of the measures. The major drawback of these measures is very high capital investments as non-conventional energy sources are associated with high cost and at times they are not user friendly as well (Faridi and Satyanarayana, 2015). Among them, CCSU can reduce the carbon emissions by 80–85% by capturing CO2 directly from power plants and energy intensive processes such as cement industries, which are described in detail (Boot-Handford et al., 2014; Leung et al., 2014) in the following sections.

Carbon capture and storage (CCS)

CO2 capture

CO2 emissions are captured and separated from flue gas, transported via huge pipelines and stored permanently deep underground or reutilized for various applications. Various approaches have been designed for efficient CO2 capture. These approaches are basically divided into three phases:

Pre-combustion CO2 capture

Post-combustion CO2 capture

Oxyfuel combustion

In pre-combustion CO2 capture, the fuel is treated initially before combustion as in the case of coal or natural gas. Coal undergoes gasification process resulting in the formation of syngas (CO + H2). The reaction takes place in low O2 environment. Further, this syngas (which is free from pollutants) undergoes water gas shift reaction to form CO2 and H2O. This technique can be applied in power plants using coal as a fuel source, but it incurs an efficiency loss of 7–8%. Natural gas containing mainly methane (CH4) can be converted to syngas and rest of the procedure is same like that of coal (Olajire, 2010). In post-combustion CO2 capture, carbon is captured from flue gas generated after combustion. This technique has been considered useful for the existing power plants and approved in small scale with a CO2 recovery rate of 800 t/day (Wall, 2007). Oxyfuel combustion uses oxygen in place of air for combustion. This substantially reduces the NOx load in the exhaust gas. Hence the remaining gas only contains SO2, water and CO2. SO2 can be easily removed by precipitation or desulphurization leading to about 80–98% recovery of CO2. This process requires large quantities of pure O2 that increases overall cost of the process. The presence of a large amount of SO2 in flue gas would cause corrosion problems (Buhre et al., 2005; Pfaff and Kather, 2009).

CO2 separation from flue gas is carried out by various ways such as absorption [liquid sorbents such as monoethanolamine (MEA), diethanolamine (DEA) used to separate CO2], adsorption (solid adsorbent such as zeolite, activated carbon are used to bind CO2 on its surface), chemical looping combustion (metal oxide is used as oxygen carrier for combustion), membrane separation (allows only CO2 to pass through while trapping other components), hydrate based separation (flue gas exposed to high pressure of water, leading to formation of hydrates and CO2 gets trapped within them) and cryogenic distillation (distillation at low temperature and high pressure), thereby separating the solidified CO2 (Aaron and Tsouris, 2005; Knudsen et al., 2009; Bhown and Freeman, 2011).

CO2 transport

Large pipelines are used in transport of CO2 to storage sites or to facilities where it can be reutilized. Pipelines are the most efficient and viable method of CO2 transport to long distances. Various factors have to be considered for the proper transport of CO2. Mass/volume ratio is optimized by transporting the CO2 in supercritical conditions (i.e., pressure is maintained at 72.1 atm and temperature around 32°C; Svensson et al., 2004). Impurities in the CO2 stream leads to alteration in pressure and temperature, thus, impurities must be taken care of. The formation of carbonic acid due to the presence of water leads to corrosion of the pipelines, which are mostly made of carbon steel. Large integrated network of pipelines are needed for a commercial CCS project (Aspelund et al., 2006). These large networks will help in decreasing overall length of the pipeline by 25%, thereby reducing the associated cost. The cost of transport also depends on the regional and economic conditions of a country. A cost analysis in China showed that for a mass flow of 4,000 t CO2/day, the use of ship tankers will cost 7.48 USD/tonne CO2 as compared to 12.64 USD/tonne CO2 for railway tankers and 7.05 USD/tonne CO2 for 300 km pipelines. Periodical monitoring and assessment of the pipelines is needed for efficient and regular transport (Gao et al., 2014).

CO2 storage: geological storage

Carbon dioxide can be stored into rock pores 800 m below the surface in abandoned deep saline aquifers and oil or gas reservoirs. This is called geological carbon sequestration (Orr, 2009). The choice of a good sequestering site is always useful for long term carbon storage. Porous and permeable surfaces having non-potable ground water or the sites having sedimentary rock formations made of such chemicals (e.g., calcium) can react with CO2 leading to more stable formations, which are preferable sites for storage (Benson et al., 2005). The first large scale CO2 sequestration project which started in 1996 was called Sleipner, located in the North Sea where Norway's Statoil Hydro strips carbon dioxide from natural gas with amine solvents and disposed of carbon dioxide in a deep saline aquifer. CO2 can be transported in high pressures into nearly depleted oil/gas wells in order to extract the residual oil and gases, while the injected CO2 remains stored (enhanced oil recovery). CO2 can be injected into deep coal beds to release methane which is trapped in porous structure of coal seams (CO2–enhanced coal bed mehane). Deep aquifers at a depth of 700–1,000 m below ground level contain high salinity brines, which can be used to store injected CO2 captured from CCS process (Hart and Gnanendran, 2009).

Deep ocean storage

Oceans are the natural sinks for CO2 and it can be injected into the ocean by direct injection and ocean fertilization. Oceans can take up about 2 billion metric tons of CO2 per annum, the amount of carbon that would double the load in the atmosphere and would increase the concentration in the deep ocean by only 2%. At depths of more than 3 km, CO2 gets liquefied and can easily sink to the sea floor due to its higher density than the adjoining seawater and can be stored there for a long time. Beside these, three other mechanisms have also been proposed for CO2 storage. Physical trapping of CO2 using immobilization in a gaseous or supercritical phase in geological formations causes its immobilization that leads to either static trapping in structural traps or residual gas trapping in porous structure. Chemical trapping in formation fluids (water/hydrocarbon) either by ionic trapping or by dissolution, where CO2 can react chemically with minerals after dissolution to form mineral trappings or it can get adsorbed on mineral surface (adsorption trapping). Hydrodynamic trapping through the upward migration of CO2 at very slow speed results in its trapping into the intermediate layers. In this manner, large quantities of CO2 can be stored (Benson et al., 2005). Polymer microcapsules composed of liquid carbonate cores, which have high surface area for controlled uptake of CO2, have been utilized for large scale carbon capture process. Higher adsorption of carbon dioxide was achieved and these microcapsules were found to be stable under typical industrial operating conditions (Vericella et al., 2015).

Demerits of CCS technology

Although, CCS approaches are quite efficient, they still have certain implications. First of all the cost of the overall process is quite high. It has been estimated that CCS will lead to a rise in power tariff by about 10% in US alone. It also requires a large amount of energy as it consumes 25 percent of the power plant's output capacity. The use of MEA in capture methods may lead to corrosion, evaporative losses, generation of toxic degradation products, and may require significant energy to remove CO2 during sorbent regeneration (Nielsen et al., 2012; Reynolds et al., 2012; Da Silva and Booth, 2013). There are some other disadvantages associated with the post-combustion amine capture method. The equipment will be very large as compared to the small size of a coal-fired power plant. Large volumes of solvents are needed. Regeneration of solvent by heating produces toxic byproducts, which should be scrubbed and eliminated. This process also utilizes large volumes of water (Herzog, 1998). In this approach, the energy utilization increases by about 15–25%. During transport and storage of CO2, there is a risk of leakage. Direct injection of CO2 will lead to the acidification of deep ocean (Dutreuil et al., 2009) which may cause disastrous effects on marine ecosystem. That's why only geological storage of CO2 into deep saline aquifers and unused mines is somewhat acceptable (Shahbazi and Nasab, 2016). The CCS technology is still in pilot scale and a large scale commercialization is yet to be undertaken. Way back in 2010, Tsouris et al. (2010) pointed high costs associated with CCS technology and urged the world to direct its energies on alternative energy technology. It is also true that in near future it will be very difficult to move away from fossil fuels as energy source. Biomineralization of CO2 using metal oxides (MgO and CaO) with the help of ubiquitous biocatalyst carbonic anhydrase (CA) provides a cost effective and environmentally benign solution for mitigation of global warming, which will be discussed in detail in the ensuing sections.

Mineralization of atmospheric carbon

This process mimics the mineralization process occurring in nature which is responsible for the presence of huge amounts of limestone on the surface of Earth. This is called silicate weathering. It traps the atmospheric carbon by reacting with large limestone rocks such as wollastonite (CaSiO3), serpentine (Mg3Si2O5(OH)4) and olivine (Mg2SiO4) (Huijgen et al., 2007; Santos et al., 2007). This process occurs in both salt and fresh waters as CO2 gets dissolved in water easily and there exists equilibrium between CO2, , and . The set of reactions involved in CO2 mineralization is outlined below (Farrell, 2011):

Gaseous CO2 dissolves quickly in water and produces a loosely hydrated aqueous form (1).

Then carbonic acid is formed when aqueous CO2 reacts with water (2).

In the 2nd step, carbonic acid breaks down into carbonate and bicarbonate ions [(3), (4)]

The presence of metal ions such as Ca2+, Mg2+, and F drives the precipitation of carbonate into mineral carbonates as depicted below (5):

This process is pH dependent. At pH below 8.0, reaction 2 becomes insignificant as OH− ions are absent. Between pH 8.0 and 10.0, both the reactions (2 and 3) occur, and above pH 10, reaction 2 occurs mainly. Due to abundant supply of OH− at alkaline pH, mainly (bicarbonate) and form leading to CaCO3 precipitation. Also at acidic pH, the solubility of carbonate increases. In order to increase carbonate precipitation, it is necessary to make the environment alkaline. Mineral carbonation is being studied at length for its utility in biomineralization of CO2 from flue gas. Some pilot scale studies have already been undertaken to demonstrate the viability of the process (Reddy et al., 2010).

This technique has several advantages over other sequestration based approaches:

This process is an environmentally benign and one of the most effective techniques of carbon sequestration, and carbonates produced naturally via mineralization of CO2 can remain stable for centuries. This process is free from complexities and many researchers have already outlined this process in minute details, hence, easily adaptable (Seifritz, 1990; Druckenmiller and Maroto-Valer, 2005; Liu et al., 2005; Stolaroff et al., 2005; Mirjafari et al., 2007; Favre et al., 2009).

Raw materials for mineralization of CO2 are in abundance. These minerals comprise a huge CO2 reservoir having carbon equivalent to about 150,000 × 10 metric tons of CO2. Metal oxides such as MgO and CaO are emitted from the industries as hazardous wastes in the form of fly ash (Soong et al., 2006). Mineral carbonation using such wastes will allow their re-utilization in sequestering CO2 (Stolaroff et al., 2005). Fly ash was used for mineral carbonation in USA and concentration of CO2 reduced from 13.0 to 9.6% and SO2 concentration drastically decreased from 107.8 ppm to 15.1 ppm within 2 min (Reddy et al., 2010).

Mineral carbonates formed after sequestration will also provide industrially valuable and useful byproducts such as cements, chemicals, fillers for paper making, white paints, and other construction materials. These mineral carbonates are also used in manufacturing calcium supplements, antacids and tableting the excipient for medical usage as well as remediation of waste feed stocks (Ciullo, 1996). Pure silica with a desirable particle size can be used as a material in the construction, plastics, electronics, and glass industries.

The process is economically viable, since it eliminates the large scale and energy-intensive process of solvent capture of CO2 from industrial wastes. This process does not require the transportation of supercritical CO2 into deep underground.

Despite being very effective, it has certain limitations. The process is very slow in ambient conditions (Haywood et al., 2001). According to the study of kinetics of calcite precipitation by Dreybodt et al. (1997), except at high pH, the formation of (bicarbonate) is the rate limiting step. Equilibrium constants for reactions (2) and (3) are 2.6 × 10−3 and 1.7 × 10−4, respectively (Mirjafari et al., 2007). The rate of reaction (3) and (4) is being virtually diffusion controlled and very rapid. If CO2 hydration rate could be enhanced in some way or the other, then maximal amount of anthropogenic CO2 can be converted into mineral carbonates. As it is said that the “Nature has solution to every problem,” we are endowed with a natural solution to the climate change problem in the form of carbonic anhydrase (CA). The CAs can speed up the entire mineralization process by catalyzing the hydration of dissolved CO2 into bicarbonate i.e., the reaction 2 at a faster rate (biomineralization). The addition of dolomite and K-feldspar to the soil can further enhance carbon sequestration in soil (Xiao et al., 2016). Use of CA as a potential biocatalyst has caught the attention of many researchers and much work has been done on exploring the possibilities of using this “Nature's own catalyst” for CCS (Farrell, 2011; Alvizo et al., 2014). Zinc(II) cyclen, which is a mimic of the enzyme carbonic anhydrase, was evaluated for its utilization in carbon capture process in rigorous conditions as that in industries and it was shown to be inhibited by bicarbonate accumulation (Floyd et al., 2013). There are some CA variants which can minimize bicarbonate inhibition by protecting the active site with a hydrophobic pocket. Hence, it is worthwhile to search for natural CA enzymes which can circumvent bicarbonate inhibition. Power et al. (2016) have successfully demonstrated the utility and efficiency of bovine carbonic anhydrase (BCA) and CO2-rich gas streams in the carbonation rate of brucite [Mg(OH)2], which is a highly reactive mineral. Carbonation was affected by decrement in CO2 supply. In the following sections, the role of CA in CCS has been described in greater detail.

Carbonic anhydrase: vital cog in the wheel of life

Carbonic anhydrases catalyze CO2 hydration and dehydration, in almost all organisms. It (EC No. 4.2.1.1) is a zinc metalloenzyme which is used as a catalyst in living systems for the conversion of carbon dioxide to bicarbonates and vice-versa. It was the first zinc metalloenzyme to be discovered in living systems (Smith and Ferry, 2000). Zinc ion complex facilitates carbon dioxide hydration activity. In most of the organisms, CAs are required for rapid processes, particularly transport processes. For example, it is required for the removal of CO2 from lungs and for synthesis of eye secretions. CAs maintain optimum level of CO2 and in the body as they are utilized as substrate for many enzymatic reactions. It maintains acid—base balance in blood and helps in maintaining its physiological pH and also actively participates in ion transport and respiration. Mutations in CA genes can lead to osteoporosis and mental retardation. Carbonic anhydrase II (hCAII) is present in relatively high concentrations in red blood cells (Berg et al., 2002).

Initially the presence of the enzyme was found in the animal kingdom but later on CAs showed their signatures in all three living domains (Kaur et al., 2012; Di Fiore et al., 2015). This enzyme is either found intracellularly in cytoplasm or secreted outside (extracellular) associated with the periplasm and an essential component for survival of nearly all life forms. CAs are one of the fastest among the enzymes known having kcat in the order of 106 s−1 and kcat/Km in the order of 108M−1s−1. An “anhydrase” is defined as an enzyme that catalyzes the removal of a water molecule from a compound, and so it is this “reverse” reaction that gives carbonic anhydrase its name, because it removes a water molecule from carbonic acid (Smith et al., 1999). In plants, β—CAs have a role in photosynthesis in chloroplasts by raising the concentration of CO2 to enhance the carboxylation rate of ribulose 1, 5-bisphosphate carboxylase (RuBisCO) (Smith and Ferry, 2000). It functions in three modes: conversion of CO2 to bicarbonate (to be utilized by RuBisCO in C4 plants), conversion of bicarbonate into CO2 [for fixation by phosphoenol pyruvate carboxylase (PEPC)] and also aids in facilitated diffusion by rapid equilibration between CO2 and . It also provides bicarbonate, which is required for the metabolism in plants (Monti et al., 2013). Recently β–CA has been shown to play a role in the perception of salicylic acid in Arabidopsi thaliana, suggesting its requirement in defense response (Medina-Puche et al., 2017). Besides higher organisms, CAs are also required in lower organisms. In some of the heterotrophs such as Propionibacterium, CAs help in CO2 reduction during glycerol fermentation that results in the formation of oxaloacetate (Wood et al., 1941). In cyanobacteria and microalgae, CAs are involved in the CO2 concentrating mechanism (CCM), which helps the cells to photosynthesize in the absence of inorganic carbon and also due to decline in levels of CO2 in their surrounding environment (Badger and Price, 2003). CCM helps in maintenance of CO2 levels around the RuBisCo active centers thereby improving the efficiency of Calvin cycle. CAs have also been reported from facultative anaerobes such as Rhodospirillum rubrum (Gill et al., 1984). CAs supply the cellular transporters with by converting CO2 penetrating the cells into . Extracellular CA in alkaliphilic cyanobacteria plays a role in their survival in high alkaline conditions in alkaline soda lakes (Soltes-Rak et al., 1997; So et al., 1998; Kupriyanova et al., 2007, 2011). In Microcoleus and Rhabdoderma, CA doesn't allow CO2 to leak out from the cell by converting it into bicarbonate, thus preserving the intracellular Ci pool for photoautotrophic assimilation. In Rhabdoderma, out of two CAs present, one is bound to photosystem II (PSII) of thylakoid membranes. It participates in the light photosynthetic reactions, regulating operation of the water oxidizing complex via its protection against excess of protons, similar to luminal CA of microalgae and higher plants (Shutova et al., 2008). CA in cyanobacterial thylakoid membranes supplies CO2 for photosynthesis in cyanobacteria. CA helps in the formation of oxaloacetic acid from carboxylase and phosphoenolpyruvate (PEP) carboxylase by providing bicarbonate which is utilized by pyruvate (Norici et al., 2002). This oxaloacetate is used for the synthesis of aspartate family of amino acids. Lysine production increases in elevated CO2 conditions owing to the action CA and PEP carboxylase (Puri and Satyanarayana, 2010). CA in carboxysomal shell of chemolithoautotrophic cyanobacterium Halothiobacillus neapolitanus (CsoS3) supplies the active sites of RuBisCO with high concentrations of CO2 necessary for RuBisCO activity and efficient carbon fixation (So et al., 2004). β–CA present in Escherichia coli is a major player in the cyanate degradation pathway of the organism. This type of CA has also been shown to play a role in pathogenesis of some bacteria such as Salmonella typhimurium (Valdivia and Falkow, 1997). In methanogens, CA plays an active role in acetate metabolism by converting the excess carbon dioxide produced into bicarbonates. It also helps in the conversion of acetate into methane. γ–class homologs of the CamH subclass are found in mitochondria, where it might have a role in the carbon transport system to increase the efficiency of photosynthetic carbon dioxide fixation (Tripp and Ferry, 2000). Hence CA and its classes play an important role in metabolic functions of all life forms. Life without CA is virtually out of question. CA levels are also correlated with aging (Cabiscol and Levine, 1995). A variety of diseases have been associated with such oxidative damage, which includes Parkinson's disease, diabetes, rheumatoid arthritis and alzheimer's disease. Classes of CA have been briefly described in the next section.

Types of CA and mechanism of action

There are basically six types of CAs discovered till now, namely α, β, γ, δ, ζ, and η. They don't have any specific sequence similarity, hence representing a classical case of convergent evolution (Lane and Morel, 2000; Smith and Ferry, 2000; Lapointe et al., 2008; Del Prete et al., 2014). Characteristic features of these classes are briefly described in Table 1.

Table 1

Characteristic features of basic six classes of carbonic anhydrases.

Characteristics	α CA	β CA	γ CA	δ CA	ζ CA	η CA
Occurrence	Predominantly in animal kingdom also found in protozoa, algae, green plants, and in some archaea, bacteria and fungi	Reported in all three domains of life	Eubacteria and Archaea Methanosarcina thermophila	Thalassiosira weissfogii	Thalassiosira weissfogii (marine diatom)	Plasmodium falciparum
Molecular weight	monomeric (Mw: 26-37 kDa)	dimer, can form various olgomeric structures 45 to 200 kDa	homotrimer 60 kDa (native)	monomer27 kDa	69 kDa	-
Active site amino acids	His – 94, His – 96, His – 119	Cys 38, His 96 and Cys 99	His 81, His 122 and His 117	-	-	His – 94, His – 96, His – 118
Function	pH homeostasis, secretion of HCO3-, ion exchange	cyanate degradation (E.coli), CO2 fixation (cyanobacteria), Overexpressed during pathogenesis of some pathogens (Salmonella)	acetate metabolism and conversion of acetate to methane (methanogens)	-	-	Overexpressed during pathogenesis
Other features	esterase activity, N – terminal signal peptide for periplasmic localisation or extracellular secretion	Basic component of Carbon Concentrating Mechanism (CCM)	Oldest form of CA	-	cambialistic

Despite their structural differences, CAs have similar action mechanism. This mechanism has been widely studied in α–CAs. It is a two–step ping-pong reaction that catalyzes the reversible hydration/dehydration of CO2 into bicarbonate and a proton (Silverman, 1982). A histidine residue present near the water molecule accepts a proton (H+) which gets released from the water molecule. It leaves only hydroxide ion attached to zinc ion. The active site has specific pockets for binding CO2, where it gets bound to the hydroxide ion. Further, nucleophilic attack on the carbonyl group by the zinc-bound hydroxide takes place that results in formation. The enzyme is then regenerated and the bicarbonate ion is released (Lindskog and Coleman, 1973; Silverman and Lindskog, 1988).

CA specific inhibitors and their biological relevance

CA abnormality leads to several diseases such as edema, glaucoma, hypertension, epilepsy, and cancer (Supuran, 2008). Pharmaceuticals that suppress the activity of carbonic anhydrase are classified as carbonic anhydrase inhibitors. Their clinical use has been established as diuretics, anti-glaucoma agents and antiepileptics in the management of gastric and duodenal ulcers, mountain sickness, neurological disorders, or osteoporosis (Supuran et al., 2003). Among human CA isoforms, CAIX and CAXII have already been identified as potent drug targets and molecular markers for the treatment of various types of cancer and tumors. Both show upregulated expression in cancerous cells as compared to normal cells. The two isoforms are required for maintaining intracellular pH of tumor cells. The inhibition of these two CAs is, therefore, important for cancer treatment. Several workers and companies have developed several ureido and sulfonamide based pharmaceuticals for cancer treatment which inhibit CAIX and CAXII (Cabiscol and Levine, 1995; Lomelino and McKenna, 2016).

Sulfonamide, sulfamate, and sulfamide inhibitors

Sulfonamides (R–NH2SO2) constitute an important group of classical drugs which have been known for their pharmaceutical and CA inhibitory properties. The most effective are the heterocyclic sulfonamides (acetazolamide, methazolamide, ethoxzolamide). Acetazolamide is one of the well-known inhibitors of carbonic anhydrase and has rendered its effectiveness for the in vivo inhibition of intracellular CAs (Teicher et al., 1992). It is used in the treatment of glaucoma, epilepsy (rarely), idiopathic intracranial hypertension, and altitude sickness. Similarly other sulfanamide inhibitors such as dorzolamide and brinzolamide are used in the treatment of glaucoma as well. Near about 20 CA inhibitors have been granted FDA approval and they are being put to wide clinical usage (More et al., 1946; Sugrue, 2000; Frost and McKenna, 2013; Wulf and Matuszewski, 2013; Supuran, 2016a). Sulfamic acid (NH3SO3) and sulfamide (NH2SO2NH2) are the simplest CA inhibitors containing the –NH2SO2 moiety. However, the sulfonamides are less effective against some of the β–CAs like Cab and also some of the γ–CAs (Zimmerman et al., 2004) and fungal MG-CA where they inhibit in millimolar/micromolar concentrations. Sulfamic acid and sulfamide are the weakest with inhibition constants (K) in the millimolar range. Interestingly, a completely different inhibition profile was observed against Zn-Cam and MG-CA, where sulfamic acid and sulfananilamide were shown to be more potent than sulfonamide inhibitors. Over the years various other inhibitors of CAs (benzenesulfonamides, arylbenzenesulfonamides, tetrafluorobenzenesulfonamides, 4-aminoethylbenzenesulfonamide) have been synthesized/discovered and their potential inhibitory properties have been evaluated (Pastoreková and Pastorek, 2004; Pala et al., 2014). Two CAs (LpCA1 and LpCA2) from Legionella pneumophila, a pathogenic bacterium, also get inhibited by sulfanamide inhibitors (sulfonylated aromatic sulphonamides, acetazolamide, ethoxzolamide, methazolamide, and dichlorophenamide). They can serve as a promising drug target for this pathogen (Supuran, 2016a). MGM Institute of Health Sciences has developed cerium oxide nanoparticles which are plant based that exhibit CA inhibitory and antioxidant properties (Lomelino and McKenna, 2016). An electrochemical enzyme inhibition biosensor, based on CA entrapped in a carbon paste electrode using carbon black nanoparticles and solid paraffin, was developed that measures sulfanilamide inhibition of CA (Bourais et al., 2017). This biosensor can even detect the sub-micromolar levels of sulfanilamide and the detection limit was 0.4μm (Bourais et al., 2017).

Novel inhibitors

Coumarins, phenols, polyamines, fullerenes, boronic acid and their substituted derivatives have been effective against animal CAs (Innocenti et al., 2009b; Carta et al., 2012; Supuran, 2013). Their efficacy against microbial CAs, however, must be investigated. Carta et al. (2012) recently introduced dithiocarbamates (DTCs) as a new class of Zn-binding CA inhibitors, which can interact with the nearby amino acid residues for effective binding. Indeed these promising inhibitors have been effective even in sub-nanomolar concentrations. Nitroimidazoles decrease the pH of the hypoxic cancer cells, thereby helping in the uptake of chemotherapeutic agents. Scientists are also developing CA inhibitory antibodies for cancer treatment (Lomelino and McKenna, 2016). Incorporation of sugar moieties into sulfanilamide has resulted in sharp improvement in their solubility and effectiveness. The inhibition constants for ribose and galactose sulfanilamides against bsCA1 were reduced to 8.9 and 9.2 nM as compared to 2,500 nM for the unsubstituted sulfanilamide. In contrast to other sulfonamides and sulfanilamides, glycosylsulfanilamides have a good balance between its hydro- and liposolubility, therefore, it can easily penetrate through membranes to affect the growth of microorganisms (Supuran, 2015). Mete et al. (2016) synthesized a series of new thienyl-substituted pyrazoline benzenesulfonamides and showed their effective inhibition against hCAI and hCAII.

Thermo-alkalistable carbonic anhydrases

Advances in recombinant DNA technology have enabled us to modify/change a protein's structure and function as per the demand. As already stated, utilization of CAs in biomineralization of CO2 requires the enzyme to be alkalistable as the mineralization is favored at alkaline pH (Farrell, 2011) and the temperature of flue gas is too high (around 140°C), which is cooled to about 60°C for post-combustion CO2 capture. Hence, the enzymes needed for carbon sequestration must be thermostable. Several efforts have been made to modify the mesophilic CAs in order to make them thermo-alkali-stable. CO2 Solutions Inc. has developed a thermally optimized CA by genetic engineering which is stable at 90°C for 24 h (CO2 Solutions Inc., 2012). Fisher et al. (2012) modified the surface amino acid residues of hCAII (which are far away from active site) to increase the thermostability by 6°C. Some of the amino acid residues present at the surface (Tyr7, Leu224, Leu100, Leu240, Asn67, and Asn62) were replaced by Phe, Ser, His, Pro, Gln, and Leu, respectively. Directed evolution technique was utilized in order to develop a thermostable CA from β–CA from Desulfovibrio vulgaris. It can even retain activity at 107°C. The enzyme was stable in the presence of primary flue gas contaminats such as NOx and SOx as well as in the presence of 4.2 M concentration of N-methyl-diethanolamine (MDEA) at 50°C for about 14 weeks. The enzyme retains 40% residual activity at alkaline pH (11.8). This highly stable CA has been efficiently used for biomineralization of CO2 at high temperature (87°C) (Alvizo et al., 2014). A whole cell bacterial catalyst was generated from the CA of Neisseria gonorrhoeae (ngCA) by engineering it in such a way that it is secreted in the periplasm of E. coli. This whole cell catalyst was also found stable at low pH. It might be possible to sequester CO2 more efficiently using whole cell enzyme systems even at a pH below the pKa of HCO3− or , thereby reducing the cost of maintaining it at elevated pH (Jo et al., 2013). The modified CA thus generated by these strategies can aid in efficiently capturing CO2, but adds to the cost. It is worthwhile to search for enzymes that are stable at two/more extreme conditions. The use of thermo-alkali-stable CA from polyextrmophiles would simplify the process. Jo et al. (2016) engineered the de-novo sulfide bond of ngCA which resulted in enhancement in both kinetic and thermodynamic stabilities. The major reason for this enhancement is the loss of conformational entropy of the unfolded state, thereby increasing rigidity.

Recent advances in technology have enabled biologists to reach the extreme maxima of earth, sea and sky for exploring their diversity. Extremophiles have been isolated from a wide array of extreme environments like deep sea vents, hot springs, upper troposphere and stratosphere, outer space and others (Wilson and Brimble, 2009). There are also reports on the isolation of polyextremophiles from mines and industries (Onstott et al., 2003; Bhojiya and Joshi, 2012). Their characterization and applications have added new dimension to applied biology. Polyextremophiles are known to produce a variety of useful products (Coker, 2016). Metagenomics and data mining studies have revealed the presence of α, β, γ CA genes in microbes from stressed environments. β–CA from Methanobacterium thermoautotrophicum (CabCA) and γ–CA from Methanosarcina thermophila (CamCA) were the first known CAs from extremophiles (Alber and Ferry, 1994; Smith and Ferry, 2000). Two novel and highly thermo-alkali-stable α–CAs (SazCA and Ssp CA) have been discovered from thermophilic archaea Sulfurihydrogenibium azorense and Sulfurihydrogenibium yellowstonense. YO3AOP1, respectively. The former being one of the fastest known CAs till date (kcat/ Km value of 3.5 × 108M−1 s−1) (De Luca et al., 2013). SSp CA is even active after 3 h incubation at 70°C. SazCA is also highly thermostable having 53 days and 8 days of half-life at 40° and 70°C, respectively. It retains carbon dioxide hydration activity even after incubation at 80 and 90°C for several hours (Russo et al., 2013). Both these enzymes are alkalistable (active at pH 9.6) and stable in the presence of flue gas contaminants such as NO2−, NO3−, and (Vullo et al., 2012; De Luca et al., 2013). Two highly thermophilic bacteria isolated from hydrothermal vent ecosystems Persephonella marina EX-H1 (PMCA) and Thermovibrio ammonificans produced highly thermostable α–CA. The CA of T. ammonificans (TaCA) was more stable than SazCA and SspCA. This enzyme (taCA) showed thermo-stimulating properties (activity of taCA was elevated after the high temperature incubation (Jo et al., 2014). Faridi and Satyanarayana (2016a) reported a moderately thermostable and highly alkalistable α–CA(BhCA) from polyextremophilic bacterium Bacillus halodurans. It has a unique property of sulfate stimulation (its activity enhanced in the presence of sulfate ions). This property can be exploited for CCS as the flue gas contains SOx as one of the contaminants. BhCA did not get denatured in the presence of EDTA (Faridi and Satyanarayana, 2016b). Bose and Satyanarayana (2016) reported a moderately thermostable and alkalistable γ–CA from Aeribacillus pallidus, a polyextremophilic bacterium. Both ApCA and BhCA were stable in presence presence of bicarbonate (0.1M). Psychrobacter sp. SHUES1 isolated from frozen alkaline samples from Shanghai (China) produced carbonic anhydrase and urease which are important in microbially induced carbonate precipitation (MICP; Li et al., 2016). List of some of the thermo-alkali-stable CAs which have been characterized in the last few years have been highlighted in Table 2 with their characteristics.

Table 2

Thermostable CAs and their characteristic features.

Sl. No.	Enzyme	Organism	Class	Characteristic features	References
1.	SspCA	Sulfurihydrogenibium yellowstonense. YO3AOP1	α	Dimer, Stable at high temperatures (70°C for 3 h) Optimum working condition–95°C, pH 9.6	Capasso et al., 2012
2.	Saz CA	Sulfurihydrogenibium azorense	α	Dimer, Half-life at 70°C is 8 days and 53 days at 50°C. Alkalistable (pH 9.6)	De Luca et al., 2013; Russo et al., 2013
3.	TaCA	Thermovibrio ammonificans	α	77 days of half-life at 60°C, tetramer	Jo et al., 2014
4.	PmCA	Persephonella marina EX-H1	α	88 days of half-life at 100°C, Dimer	Jo et al., 2014; Kanth et al., 2014
5.	Cab CA	Methanobacterium thermoautotrophicum	β	Tetramer Optimal CO2 hydration activity at 75°C	Smith and Ferry, 2000
6.	MtCam (aerobically purified)	Methanosarcina thermophila	γ	Optimally active at 55°C and displayed 15 min of stability at 75°C, Activity doubles when zinc is replaced by cobalt	Alber and Ferry, 1994
7.	MtCam (anaerobicaly purified)	Methanosarcina thermophila	γ	NA	Tripp et al., 2004
8.	MtCam (expressed in M. acetivorans)	Methanosarcina thermophila	γ	Fe2+ present at active site enhances its activity	MacAuley et al., 2009
9.	BhCA	Bacillus halodurans	α	Thermo-alkali-table (pH 6–11), gets stimulated in the presence of SOx, stable with EDTA	Faridi and Satyanarayana, 2016a
10.	ApCA	Aeribacillus pallidus	γ	Thermo-alkali-stable (pH 8–11), stable in the presence of SOx and NOx	Bose and Satyanarayana, 2016

Crystal structures of three of the most thermo-alkali-stable CAs were solved and their analysis revealed the reasons of their higher thermostabilities. As per the crystallographic structure, SspCA was found to have increased structural compactness. It contained a large number of charged residues on the protein surface with a greater number of ionic networks. These might be the key factors involved in the higher thermostability of this enzyme with respect to its mesophilic homologs. It has a fold which is characterized by a 10—stranded centrally placed β–sheet, which is surrounded by several helices and β–strands. A deep conical cavity that extends from the center to the protein surface harbors the active site. Several polar and hydrophobic interactions play active role in stabilization of SspCA. SazCA has a similar structure to that of SSpCA with minor differences. SspCA has Glu2 and Gln207 residues which are substituted with His2 and His207 in SazCA. This substitution is responsible for higher SazCA catalytic activity. The crystallographic structures of both SazCA and SspCA confirmed the dimeric nature of the enzymes (Di Fiore et al., 2013; De Simone et al., 2015). Crystallographic structure analysis of TaCA revealed it to be similar to the structure of other previously known bacterial homologs (Huang et al., 1998; Di Fiore et al., 2013; De Simone et al., 2015), but having entirely novel oligomeric pattern. Indeed TaCA forms a tetramer that comprises two dimers, which are structurally similar to that of SazCA and SspCA. The two dimers are joined together by two intermolecular disulfide bridges and by inter-subunit ionic interactions (James et al., 2014). This tetrameric state may be a possible reason for the enhanced thermostability of TaCA. Tahirov et al. (1998) recorded that thermostable enzymes have higher degree of oligomerization than mesophilic enzymes. It is also worthwhile to mention that the two conserved cysteine residues, Cys202 and Cys47, are reduced partially in SspCA and SazCA due to insufficiently oxidative expression conditions. It is suggested that the presence of two cysteine residues in TaCA leads to its increased stability (James et al., 2014). These structural analyses of thermostable CAs not only provide structural insights of the enzymes but also aid in their modification, so that they can be efficiently utilized for biomineralization.

Utilization of thermo-alkali-stable CAs in biomineralization

Several strategies are being developed for utilization of thermo-alkali-stable CAs in mitigating global warming. CO2 Solutions Company has developed a CA based reactor for capturing CO2 from different CO2 intensive industries (http://www.co_2solutions.com/en/the-process). This process requires immobilized CA. Utilization of thermo-alkali-stable CAs for carbon capture requires a series of bioreactors which will have direct supply of flue gas. It is directly supplied to a bioreactor containing the immobilized enzyme. This enzyme in aqueous condition will hydrate CO2 present in flue gas and releases and H+. Alvizo et al. (2014) developed a process which utilizes a highly thermostable β–CA engineered from the β–CA of Desulfovibrio vulgaris. In this process, the set up consists of absorber column where carbon dioxide gets absorbed into MDEA; CA present in the column generates proton and bicarbonate. The residual flue gas is released and the rest (bicarbonate+amine+CA) is transferred to the next column maintained at 87°C, where CO2 is again regenerated, accompanied by regeneration of the solvent. Pure CO2 is later reutilized and the solvent returns back to the initial absorber column for the next cycle. The rate of CO2 absorption increases by about 25-fold in the catalyzed reaction as compared to the non-catalyzed reaction. Normal conditions for steady-state experiments were 2 l per minute of solvent, 180 l per minute of flue gas at 25°C and absorber and desorber temperature at 87°C. All enzyme–solvent mixtures were made using normal tap water without any further treatment (Alvizo et al., 2014). CAs from Caminibacter mediatlanticus (CmCA) and Sulfurihydrogenibium yellowstonense YO3AOP1 (SspCA), both belonging to α–class, have been used to capture CO2 from flue gas (Daigle and Fradette, 2014; Rossi, 2014). SspCA was characterized as prospective biocatalyst for CO2 capture as it has regenerative absorption ability in alkaline conditions. Its prolonged half life (53 days at 40°C and 8 days at 70°C) making it one of the most suitable candidates for CCS. Ssp CA was, therefore, tested for its biomimetic carbon sequestration (Russo et al., 2013). Ssp CA immobilized in polyurethane foam (PU-SspCA) has been used in designing a bioreactor to mimic CO2 capture process in industries (Migliardini et al., 2014). The immobilized CA (PU-SspCA) showed exceptional thermostability for very long duration even at 70°C and was highly stable at 100°C even after 48 h (Capasso et al., 2012). Heat stable carbonic anhydrases from M. thermophila and Caminibacter sp. have been used in bioreactors for efficient CO2 removal from flue gases. Pyrococcus horikoshii and M. thermophila secreted γ–CA which was used in developing γ–CA nanoassemblies. These assemblies were developed by joining the single entitites to make multiple linked interactions with the surface of the reactor. Biotinylation sites were created by specifically mutating some of the residues to cysteines. Firm nanostructures were thus created by cross-linking biotinylated-γ–CAs with streptavidin tetramers (Salemme and Weber, 2014).

There are basically three different crystal phases for calcium carbonate (CaCO3), viz. calcite (rhombic), aragonite (needle like) and vaterite (spherical)]. Calcite phase is thermodynamically the most stable phase, while the vaterite is the metastable phase which is more soluble (Favre et al., 2009). When PMCA and TaCA (both α–CAs) were utilized for biomineralization; it resulted in the formation of stable calcite (Jo et al., 2014). α–CA from Dunaliella sp. produced 8.9 mg of calcite per 100 μg (172 U/mg) of enzyme in presence of 10 mM Ca2+ (Kanth et al., 2012). Another thermo-alkali-stable γ–CA (ApCA) from polyextremophilic bacterium A. pallidus was used for biomineralization and well faceted rhombohedral calcite crystals were observed when viewed under scanning electron microscopy (SEM; Figure 1). The partially purified enzyme caused precipitation of 42.5 mg mg−1 protein (Bose and Satyanarayana, 2016). Optimization of the process parameters led to an increase in carbonate precipitation up to 200 mg mg−1 protein (Bose and Satyanarayana, 2017).

Figure 1

Scanning electron microscopic picture of calcium carbonate crystals in the presence and absence of CA (control). (A) Spherical vaterite crystals were formed in the control. (B) Rhombohedral and well faceted calcite crystals were formed in the presence of ApCA (adopted from Bose and Satyanarayana, 2016).

When a highly alkalistable and moderately thermostable α–CA (BhCA) from Bacillus halodurans was used for biomineralization, well defined calcite crystals were observed (Faridi and Satyanarayana, 2016a). ApCA and BhCA were also utilized for testing their efficacy in CO2 sequestration from flue gas using vehicular exhaust (Figure 2). Vehicular exhaust has a comparable composition as that of flue gas emitted from the thermal power plants (~71% N2, 14% CO2, 1–2% hydrocarbons, carbon monoxide, NOx, and minor amount of SO2; Perry and Gee, 1995). Both the enzymes were useful in sequestering CO2 from vehicular exhaust, hence making them efficient candidates for biomineralization (Faridi and Satyanarayana, 2016b; Figure 3). Biomineralization process for ApCA and BhCA was performed at 37°C in a 75 mL total reaction volume. CA (0.05 mg) was dispersed in 15 mL Tris buffer containing 0.9 g of CaCl2.2H2O in Tris (2.52 g) buffer according to a protocol used by Mirjafari et al. (2007). To initiate the mineralization process, 60 mL of CO2 solution was added to the enzyme mix. The reaction was performed for 10 min at 37°C. In an interesting study, the effect of CA from Bacillus mucilaginosus on carbonate formation and wollastonite dissolution were explored under variable CO2 conditions. Real time PCR was used to analyze the correlation between CA gene expression, sufficiency or deficiency of calcium and CO2 concentration. The findings reaffirmed the belief that CO2 concentration is not related to effects of CA. Further, they also showed that microbial CA has some role in silicate weathering (Xiao et al., 2014). Some of the other alkalistable CAs have also shown efficacy in carbon sequestration. Another α–CA from Serratia sp., which was alkalistable in nature, was successful in generating calcite crystals (Srivastava et al., 2015). Some of the mesophilic CAs from some other microorganisms such as Pseudomonas fragi (27.33 mg /mg of protein), Bacillus pumillus (25.43 /mg of protein), M. lylae (24.02 /HCO3−/mg of protein) (Prabhu et al., 2011) and Citrobacter freundii SW3 (Ramanan et al., 2009) [225 mg CO32−/mg of protein] also produced calcite crystals. Rhodobacter sphaeroides was genetically modified to harbor a surface displayed CA with inducible expression of phosphoenolpyruvate carboxylase led to very high CO2 reduction efficiency and the production of several organic compounds (carotenoids, polyhydroxybutyrate, malic acid, succinic acid; Park et al., 2017).

Figure 2

Exhaust fumes from the petrol driven car and motorcycle were collected by connecting one end of a plastic pipe to the exhaust of the car and the other to saturate distilled water (DW) kept in ice bath for an hour which served as a source of CO2 (adopted from Faridi and Satyanarayana, 2016a).

Figure 3

Mineralization of vehicular exhaust gas CO2 using BhCA in the presence of Ca2+. Test reaction containing CA showed efficient mineralization of CO2 as compared to the control (adopted from Faridi and Satyanarayana, 2016a).

Production and over expression of carbonic anhydrase genes by molecular approaches

One of the key factors that determine the cost effectiveness of any biotechnological application is the availability and cost of the biocatalysts. Microorganisms are well known to produce CAs for use in CCS technologies. Researchers have also displayed the ability of many prokaryotic species such as planktonic Bacillus mojavensis cells for microbially enhanced CCS by mineral trapping and solubility trapping (Mitchell et al., 2010). The production levels of CAs are, however, quite low for industrial use. Hence the production parameters must be optimized. Statistical approaches such as Response surface methodology (RSM) and two factorial designs are some of the well-known methods for optimizing production of biocatalysts (Kumar and Satyanarayana, 2014). The production of carbonic anhydrase is growth associated; hence, optimization of growth parameters leads to high enzyme titres. Optimization of growth conditions by mono-factor tests with blank control and orthogonal design methodology resulted in 7-fold increase in CA titres in B. mucilaginosus K02 (Zhang et al., 2011). Bose and Satyanarayana (2016) reported about 4-fold increment in enzyme titres on optimization of growth parameters. In both the studies, the CA production was found to be synchronous to that of the growth of the bacterium. The CA production by the wild type strain becomes too cumbersome. The production of CA from thermo-alkaliphilic microorganisms is difficult as it is not easy to provide accurate conditions [anaerobic, high temperature, pH (high/low) etc.] for their growth and enzyme production. Many archaeal life forms producing bioactive compounds need specialized growth conditions (Alber and Ferry, 1994; Mesbah and Wiegel, 2012). The advent of genome mining, metagenomics and bioinformatics approaches have enabled to use molecular biological tools for cloning and over expression of industrially relevant enzymes in prokaryotic (E. coli, Bacillus subtilis) and eukaryotic (Pichia pastoris) hosts. Downstream processing becomes easy as the enzymes have various protein tags (e.g., His, GST) for easy purification of the recombinant proteins (Swartz, 2001). Since late 1990s, the prokaryotic CA genes from different strata have been cloned and the protein was over expressed in E. coli for analytical and application purposes. The first CA gene cloned from prokaryotes was α–CA (NCA) from N. gonorrhoeae, which encoded a protein of 28 kDa (Chirică et al., 1997). This enzyme was also expressed heterologously in E. coli as a periplasmic protein in order to use it as a whole cell biocatalyst (Jo et al., 2013). The yield of ~106 mg L−1 with a specific activity of 3090 U mg−1 in the pure protein was achieved (Kim et al., 2012).

Since then many other microbial CAs have been cloned and expressed in prokaryotic hosts. Many researchers have already cloned and over expressed all the CA-encoding genes from E. coli (can, cynT, cynT2, caiE, pay, and yrdA) and studied their expression profiles in response to different growth conditions (Fujita et al., 1994; Cronk et al., 2001; Merlin et al., 2003). CA genes from thermophilic bacteria such as Thermovibrio ammonificans, M. thermobacterium, M. thermophila, Sulfurihydrogenibium, B. halodurans and others have been cloned and over expressed in E. coli to assess their efficacy in biomineralization. These CAs have been shown to be useful in sequestering CO2 from flue gas (Capasso et al., 2012; Faridi and Satyanarayana, 2016a). The role of CAs in virulence/pathogenesis have been studied. They play an active role in metabolism during pathogenesis in many bacterial and fungal pathogens such as Vibrio cholerae, Helicobacter pylori, Candida albicans, Aspergillus fumigatus, and others. List of CAs from some of the pathogens have been summarized in Table 3.

Table 3

Characteristics of CA from some pathogenic bacteria.

Sl. No.	Organism	Type	Cloning Vector/Host	Molecular weight	Other Features	References
1	V. cholerae	α	E. coli (pET15b)	26.4 kDa	Km = 11.7 mM kcat = 8.23 × 105s−1 kcat/KM = 7.0 × 107 M−1 s −1	Del Prete et al., 2012
2	Brucella suis	B	E. coli (pET15b)	25 kDa	kcat = 1.1 × 106, kcat/Km = 8.9 × 107 M−1 s−1	Joseph et al., 2010
3	H. pylori	α	E. coli (pACA1)	28.28 kDA	kcat = 2.4 × 105s−1 KM = 17 mM kcat/KM = 1.4 × 107 M−1s−1 at pH 8.9 and 25°C	Chirica et al., 2001
4	Salmonella typhimurium	β (two stCA1 and stCA2)	E. coli (pGEX-4T2)	24.8 kDa (stCA1) 26.6 kDa (stCA2)	kcat = 0.79 × 106 s−1 and 1.0 × 106 s-−1, kcat/Km = 5.2 x107M−1s−1 and 8.3 × 107 M−1 s−1	Vullo et al., 2011
5	Mycobacterium tuberculosis	β (mtCA1)	E. coli pGEX-4T2	NA	kcat = 3.9 × 105 s−1 kcat/ Km = 3.7 × 107 M−1 s−1	Minakuchi et al., 2009
6	Streptococcus pneumoniae	β (PCA)	E. coli	NA	kcat = 7.4 × 105 s−1 kcat/Km = 6.5 × 107 M−1 s−1 at an optimum pH of 8.4	Burghout et al., 2011
7	Plasmodium falciparum	η (PfCA)	E. coli	NA	kcat = 1.4 × 105 s−1kcat/Km = 5.4 × 106 M−1s−1	Del Prete et al., 2014
8	Haemophilus influenzae	β (HICA)	E. coli	105.26 kDA (native molecular weight)	Tetramer, presence of a novel non-catalytic bicarbonate binding site, kcat, kcat/Km is pH dependent	Cronk et al., 2006
9	Candida albicans	β (Nce103)		31.5 Da	kcat = 8.0 × 105 s−1kcat/Km = 9.7 × 107 M−1s−1	Innocenti et al., 2009a
10	Malassezia globosa	β (MG-CA)	E. coli	27 kDa	kcat = 8.6 × 105 s−1kcat/Km = 6.9 × 107 M−1s−1 Ki (acetazolamide) 76000 ± 450 nm	Hewitson et al., 2012
11	Cryptococcus neoformans	β (Can2)	E. coli	26 kDa	kcat = 3.9 × 105 s−1kcat/Km 4.3 × 107 M−1s−1Ki (acetazolamide) 10.5 nm (homodimer)	Mogensen et al., 2006; Innocenti et al., 2009a
12	Aspergillus fumigatus	4-βCAs (cafA-cafD)	Saccharomyces cerevisiae	–	All four CAs strongly expressed during pathogensis	Han et al., 2010; Tobal and Balieiro, 2014

One of the major problems with cloning of genes in heterologous hosts is obtaining the active protein in soluble form, as the recombinant proteins are aggregated as inclusion bodies, which need to be solubilised (Clark, 2001). Generally optimization of IPTG concentration, growth temperature (after induction) and incubation time brings the protein into the soluble form (Prasad et al., 2011). Techniques such as size-exclusion chromatography (Li et al., 2004), dialysis and dilution (Marston, 1986; Tsumoto et al., 2003; Umetsu et al., 2003), zeolite absorbing systems (Nara et al., 2009), reversed micelle systems (Sakono et al., 2004), microfluidic chips (Jahn et al., 2007) and the natural GroEL—GroES chaperone system (Zhi et al., 1992) could be used in soluble expression of recombinant proteins. Other problems include codon bias and lack of post translational machinery in E. coli (Gustafsson et al., 2004; Sahdev et al., 2008). The latter can be overcome by cloning the gene of interest in eukaryotic hosts such as Saccharomyces cerevisiae and P. pastoris. In this case, protein is expressed extracellularly, hence, we are saved from the energy intensive step of breaking the cells in disruptors or sonicators. Codon optimization also results in faster translation rates. α–CA from Dunaliella species was codon optimized and effectively expressed in E. coli, which was used for biosequestration of CO2 (Kanth et al., 2012). A synthetic α–CA (HC-aCA) from Hahella chejuensis was cloned and expressed (Ki et al., 2013). The codon-optimized carbonic anhydrase gene of thermophilic Persephonella marina EX-H1 (PMCA) was expressed and characterized. The removal of the signal peptide resulted in 5-fold enhancement of CA (Kanth et al., 2014).

Role of metagenomics in CCS technologies

The advent of metagenomics has permitted discovery of numerous microorganisms from extreme environments, which could be of biotechnological interest. Metagenomics analysis has revealed the presence of CA encoding genes in the Indian Ocean viral metagenome (Williamson et al., 2012). Jones et al. (2012) showed the existence of RuBisCo and CA gene clusters in the Acidithiobacillus, an extremely acidophilic sulfur-oxidizing biofilm by community genome analysis. Microarray data of a metagenome of acid mine drainage also showed the presence of CA encoding genes along with the RuBisCo gene clusters (Guo et al., 2013). Three gene copies were identified which encoded CA in the metagenome of the marine ammonium oxidizing bacteria (van de Vossenberg et al., 2003). The metagenomes of the serpentinite-hosted Lost City hydrothermal field and Mid-Atlantic Ridge also indicated the presence of CA encoding genes. These metagenomes were found to be similar to the genome of Thiomicrospira crunogena XCL-2, an isolate from a basalt-hosted hydrothermal vent in the Pacific Ocean (Brazelton and Baross, 2010). Microorganisms exhibit great potential as bioindicators to detect leakages from CO2 storage projects and for that metagenomics becomes handy. Metagenomics and high throughput screen (HTS) methods can also be utilized for studying the effect of environmental changes on microbial communities at the CCS sites (Caporaso et al., 2012; Håvelsrud et al., 2012, 2013; Howe et al., 2014). Information about amplicons and metagenomes helps in establishing a CCS monitoring approach, which could even be useful in the detection of CO2 leaks (Noble et al., 2012). The use of HTS has already been found to be effective in evaluating the response of in situ bacterial populations to increased CO2, and matching community shifts to metabolic potential (Mu et al., 2014). The metagenomic approach along with appropriate bioinformatics tools makes the system competent. Metagenomics can thus be used as a biosensor for monitoring the CCS sites efficiently (Hicks et al., 2017).

Utilization of immobilized CA in CCSU

Immobilization strategies are necessary so that the enzyme can be recycled number of times. Their stability can be enhanced by various immobilization techniques. Immobilization has long been used as an approach for increasing the stability of mesophilic enzymes. There are several reports of immobilization of mesophilic CAs. These CAs have been proved to be more efficient than the free enzymes for CO2 capture. CAs from P. fragi, Bacilllus pumilus, and Micrococcus lylae have been immobilized on chitosan and surfactant-modified silylated chitosan beads (Prabhu et al., 2009; Wanjari et al., 2011); these displayed enhanced CO2 hydration capacity. Chitosan is made of glucosamine and acetyl glucosamine units. The functional groups present on chitosan are amino and hydroxyl groups which are required for enzyme immobilization. The enzyme is adsorbed on the surface of chitosan beads. Immobilization of CAs also improved their thermal stabilities, for e.g., the immobilized CA retained at least 60% of the initial activity after 90 days at 50°C compared to about 30% for their free counterparts under the same conditions. The CAs also exhibit a high stability in the presence of inhibitors upon immobilization (Prabhu et al., 2009; Kanbar and Ozdemir, 2010). CaCO3 precipitation rate doubled in a period of 5 min when pure CA from P. fragi was immobilized by adsorption on chitosan beads in comparison with the free enzyme (Wanjari et al., 2012; Yadav et al., 2012). Immobilization of CAs on several other matrices such as ordered mesoporous aluminosilicate, octa(aminophenyl)silsesquioxane-functionalized Fe3O4/SiO2 nanoparticles, silica nanoparticles and by single/multiple attachments to polymers deposited on Fe3O4 particles was also attempted (Sharma et al., 2011; Rayalu et al., 2012). CA immobilized on ordered mesoporous aluminosilicate exhibited CO2 sequestration efficiency of 16.14 mg of CaCO3/mg CA as compared to that of free enzyme which sequesters 33.08 mg of CaCO3/mg CA. Immobilized CA even showed enhanced stability and retained 67% of initial activity even after six cycles (Yadav et al., 2011). Kinetics of the immobilized CAs (immobilized on ordered mesoporous aluminosilicate) were studied and compared with that of the free enzyme by Yadav et al. (2010). The Km, Vmax, and kcat values of the immobilized enzyme were 0.158 mM, 2.307 μ mole min−1ml−1, and 1.9 s−1, and these for free CA were 0.876 mM, 0.936 μ mole min−1ml−1, and 2.3 s−1, respectively (Yadav et al., 2010). A high CO2 sequestration and improved stability have been achieved when CA was immobilized on core-shell CA-chitosan nanoparticles (SEN-CA; Rayalu et al., 2012). Ssp CA was immobilized on solid matrix made of silica particles (silanized Sipernat® 22 particles). Enzyme-carrier covalent bonding was adopted as immobilization technique and it was observed that the enzyme stability and activity increased on immobilization. Immobilization of this CA in polyutherane foam also exhibited enhanced stability. The immobilized CA (PU-SspCA) showed exceptional thermostability for very long duration even at 70°C. The CO2 absorption capacity of PU-SspCA was verified in a three phase trickled bed bioreactor which mimics the post-combustion processes in a thermal power plant. The three-phase reactor was filled with shredded foam with PU-SspCA. The gas mixture (CO2/N2) was fed from both the sides (i.e., concurrent and countercurrent). Increasing the flow rate of water and decreasing the CO2 flow rate also greatly improved CO2 capture in these reactors. SspCA showed good CO2 capture performance when the PU-SspCA-shredded foam was used in the bioreactor (Migliardini et al., 2014). Concerted efforts are needed to develop CA immobilization techniques that allow reuse of the enzyme 100–500 times with sustained activity. Immobilization can also lead to unwanted release of enzyme on surface of the reactor. In order to overcome this problem, some novel immobilization techniques have been developed using γ–CA from P. horikoshii and M. thermophila (Salemme and Weber, 2014). The immobilization techniques allowed the development of γ–CA nanoassemblies (Salemme and Weber, 2014). An immobilization sequence was added at amino- or carboxy-terminus which aided in proper and reversible immobilization of γ–CA to the functionalized surface. Gas-liquid membrane contractors are also emerging as potential bio reactors for using CAs for CO2 capture. Iliuta and Iliuta (2017) has demonstrated a novel, cost effective and environmentally friendly approach for CO2 capture by immobilizing CA in a hollow-fiber membrane bioreactor (HFMB) by multiscale steady-state model, under partially liquid-filled and gas-filled membrane pores conditions.

Nanoparticles are also widely used for immobilization of enzymes due to their unique size and physical properties. The immobilization of enzymes on nanoparticles (NPs) offers high surface area and may lead to reduction in protein unfolding, improvement in storage stability and performance (Laurent et al., 2008; Xu et al., 2014). Iron mangnetic nanoparticles (MNPs) are being synthesized with various surface modifications in order to use them for immobilizing protein/enzyme. The CA from B. pumilus TS1 was immobilized successfully on chitosan stabilized iron MNPs (Yadav et al., 2012). Silanization of iron MNPs is being widely used for surface modifications of iron MNPs. It is also very easy and cost effective technique, which can be carried out simply in aqueous or organic media at moderate temperatures (Xu et al., 2014). Faridi et al. (2017) showed that even after 22 cycles of reuse, recombinant α–CA (rBhCA) from B. halodurans TSLV1 immobilized on silanized iron MNPs (rBhCA-Si-MNPs) lost only 50% of activity. Nickel nanoparticles have been successfully used as a direct catalyst for CO2 hydration reaction for assessing their application in CO2 mineralization (Bhaduri et al., 2015).

Other applications of carbonic anhydrases

Apart from their utility in CCSU, the CAs have some other applications too as discussed below:

Carbonic anhydrase in formation of bioconcrete

Biomineralization by bacteria facilitates the development of bioconcrete, wherein calcium carbonate is formed by the metabolic activity of microorganisms, which involves a series of complex reactions directed mainly by urease and carbonic anhydrase enzymes (Castro et al., 2016). The activity of urease, CA, concentration of calcium and pH are very important in bioconcrete formation (Achal and Mukherjee, 2015).

Artificial lungs

This equipment helps to overcome respiratory problems. The major drawback of this technique is the insufficient transfer of CO2 per square inch through the polymeric hollow fiber membranes (HFM). CAs can be utilized by immobilizing on HFM in order to increase the rate of CO2 transfer. CAs can, therefore, be used in developing small artificial lungs, which could be efficiently utilized within the human body (Kaar et al., 2007).

Biosensors

HCA II based biosensors have been employed to check the toxic effects of zinc on marine life (Thompson and Jones, 1993; Rout and Das, 2003; Muyssen et al., 2006). Many researchers are attempting to develop biosensor variants for other transition metals (Thompson et al., 2000, 2002; Frederickson et al., 2006; Bozym et al., 2008; Wang et al., 2011; McCranor et al., 2012).

Pharmalogical considerations

CAs can be incorporated into stimuli-triggered drug delivery systems which utilize CO2, bicarbonate or pH changes as signaling molecules. This can improve the efficiency of these antidote based delivery systems (Satav et al., 2010).

Blood substitutes

The current blood substitutes have inadequate CO2 removal rate, which leads to coma or death. CAs can be utilized along with catalase (CAT) and superoxide dismutase (SOD into the PolySFHb substitute (PolySFHb-SOD-CAT-CA) in order to overcome this limitation (Bian et al., 2011).

Conclusions and future perspectives

CAs are a class of enzymes which are essential for the survival of living beings. This enzyme not only helps in our metabolic activities but also aids in the protection of Mother Nature. Due to anthropogenic activities, the nature is getting destroyed day by day. Global warming is having its toll on the climate and weather. Carbonic anhydrase can aid in tackling the future catastrophes due to global warming. Unfortunately the CCS and biomineralization techniques are either in the lab stage or pilot plant stage. Researchers are constantly attempting to address a few of the key issues related to this technology, thus, it has become quite difficult to generate a public consensus on CCS technology. The technology needs to be ameliorated. We are also not able to bring down the carbon emissions as fossil fuels are (also will be in near future) the main energy source which drives today's world. Although much is known about CAs, the current metadata reveals the presence of many CA genes in the extreme realms of earth which are waiting to be discovered. These are mostly from unculturable microbes. Bioinformatics tools have been useful in identifying different CA encoding genes. Once identified, they can be easily cloned and expressed in different microbial hosts for studying their novel properties and utility in CO2 biomineralization. Currently the unexplored data is so vast that we may discover a few novel classes of CAs in addition to the known six classes in future. CAs from polyextremophilic microbial sources have already been tried for CCS related strategies. Enzyme immobilization techniques permit the repeated use of the enzyme and designing continuously operating reactors. We need to improve the CA immobilization technology so that it becomes cost effective and readily accepted by people. Further research efforts are called for developing highly efficient and robust CAs, efficient immobilization techniques and designing continuously operating reactors for cost effective biomimetic carbon sequestration.

Author contributions

All authors listed have made a substantial, direct and intellectual contribution to the work, and approved it for publication.

Conflict of interest statement

The authors declare that the research was conducted in the absence of any commercial or financial relationships that could be construed as a potential conflict of interest. The reviewer SD and handling Editor declared their shared affiliation, and the handling Editor states that the process nevertheless met the standards of a fair and objective review.