Calcium Carbonate Formation and Dissolution

Transformation of amorphous calcium carbonate nanoparticles into aragonite controlled by ACCBP

Polymorph switching of calcium carbonate controlled by amorphous calcium carbonate-binding protein, an extrapallial fluid (EPF) protein from the pearl oyster, is investigated. The polymorph selection in nacre or pearl growth may be controlled not only by the nucleating template on the matrix but also by the physicochemical effects of EPF proteins.

Hierarchically porous titanium phosphate monoliths and their crystallization behavior in ethylene glycol

A new hierarchically porous titanium phosphate monolithic material is synthesized via a sol–gel method and its crystallization in ethylene glycol is observed.

Nucleation of Fe-rich phosphates and carbonates on microbial cells and exopolymeric substances

Although phosphate and carbonate are important constituents in ancient and modern environments, it is not yet clear their biogeochemical relationships and their mechanisms of formation. Microbially mediated carbonate formation has been widely studied whereas little is known about the formation of phosphate minerals. Here we report that a new bacterial strain, Tessarococcus lapidicaptus, isolated from the subsurface of Rio Tinto basin (Huelva, SW Spain), is capable of precipitating Fe-rich phosphate and carbonate minerals. We observed morphological differences between phosphate and carbonate, which may help us to recognize these minerals in terrestrial and extraterrestrial environments. Finally, considering the scarcity and the unequal distribution and preservation patterns of phosphate and carbonates, respectively, in the geological record and the biomineralization process that produces those minerals, we propose a hypothesis for the lack of Fe-phosphates in natural environments and ancient rocks.

Biogeochemistry of bulk organic matter and biogenic elements in surface sediments of the Yangtze River Estuary and adjacent sea

This study investigated the distribution and roles of total organic carbon (TOC), biogenic silicon (BSi), various forms of nitrogen (N) and phosphorus (P), and the stable carbon isotope (δ(13)C) in surface sediments of the Yangtze River Estuary (YRE) and adjacent sea. Terrestrial input accounted for 12-63% of total organic matter in the study area. The distribution of biogenic elements was affected by the Changjiang Diluted Water, the Jiangsu Coastal Current, human activities, marine biological processes, and the sediment grain size. Potentially bioavailable N and P accounted for an average 79.6% of the total N (TN) and 31.8% of the total P (TP), respectively. The burial fluxes for TOC, BSi, TN and TP were 39.74-2194.32, 17.34-517.48, 5.02-188.85 and 3.10-62.72 μmol cm(-2) yr(-1), respectively. The molar ratios of total N/P (1.2-5.0), Si/P (5.0-14.8) and Fe/P (21-61) indicated that much of the P was sequestered in sediments.

Self-Assembly of Protein Nanofibrils Orchestrates Calcite Step Movement through Selective Nonchiral Interactions

The recognition of atomically distinct surface features by adsorbed biomolecules is central to the formation of surface-templated peptide or protein nanostructures. On mineral surfaces such as calcite, biomolecular recognition of, and self-assembly on, distinct atomic kinks and steps could additionally orchestrate changes to the overall shape and symmetry of a bulk crystal. In this work, we show through in situ atomic force microscopy (AFM) experiments that an acidic 20 kDa cement protein from the barnacle Megabalanus rosa (MRCP20) binds specifically to step edge atoms on {101̅4} calcite surfaces, remains bound and further assembles over time to form one-dimensional nanofibrils. Protein nanofibrils are continuous and organized at the nanoscale, exhibiting striations with a period of ca. 45 nm. These fibrils, templated by surface steps of a preferred geometry, in turn selectively dissolve underlying calcite features displaying the same atomic arrangement. To demonstrate this, we expose the protein solution to bare and fibril-associated rhombohedral etch pits to reveal that nanofibrils accelerate only the movement of fibril-forming steps when compared to undecorated steps exposed to the same solution conditions. Calcite mineralized in the presence of MRCP20 results in asymmetric crystals defined by frustrated faces with shared mirror symmetry, suggesting a similar step-selective behavior by MRCP20 in crystal growth. As shown here, selective surface interactions with step edge atoms lead to a cooperative regime of calcite modification, where templated long-range protein nanostructures shape crystals.

Effects of Sulfate during CO2 Attack on Portland Cement and Their Impacts on Mechanical Properties under Geologic CO2 Sequestration Conditions

To investigate the effects of sulfate on CO2 attack on wellbore cement (i.e., chemical and mechanical alterations) during geologic CO2 sequestration (GCS), we reacted cement samples in brine with 0.05 M sulfate and 0.4 M NaCl at 95 °C under 100 bar of either N2 or supercritical CO2. The results were compared to those obtained from systems without additional sulfate at the same temperature, pressure, salinity, and initial brine pHs. After 10 reaction days, chemical analyses using scanning electron microscopy with a backscattered electron detector (SEM-BSE) and inductively coupled plasma optical emission spectrometry (ICP-OES) showed that the CO2 attack in the presence of additional sulfate was much less severe than that in the system without additional sulfate. The results from three-point bending tests also indicated that sulfate significantly mitigated the deterioration of the cement's strength and elastic modulus. In all our systems, typical sulfate attacks on cement via formation of ettringite were not observed. The protective effects of sulfate on cement against CO2 attack resulted from sulfate adsorption, coating of CaSO4 on the CaCO3 grains in the carbonated layer, or both, which inhibited dissolution of CaCO3. Findings from this study provide new, important information for understanding the integrity of wellbores at GCS sites and thus promote safer GCS operations.

Discovery of the mineral brucite (magnesium hydroxide) in the tropical calcifying alga Polystrata dura (Peyssonneliales, Rhodophyta)

Red algae of the family Peyssonneliaceae typically form thin crusts impregnated with aragonite. Here, we report the first discovery of brucite in a thick red algal crust (~1 cm) formed by the peyssonnelioid species Polystrata dura from Papua New Guinea. Cells of P. dura were found to be infilled by the magnesium-rich mineral brucite [Mg(OH)2 ]; minor amounts of magnesite and calcite were also detected. We propose that cell infill may be associated with the development of thick (> ~5 mm) calcified red algal crusts, integral components of tropical biotic reefs. If brucite infill within the P. dura crust enhances resistance to dissolution similarly to crustose coralline algae that infill with dolomite, then these crusts would be more resilient to future ocean acidification than crusts without infill.

Can clays ensure nuclear waste repositories?

Research on argillite as a possible host rock for nuclear waste disposal is still an open subject since many issues need to be clarified. In the Underground Research Laboratories constructed for this purpose, a damaged zone around the excavation has been systematically observed and characterized by the appearance of micro-fissures. We analyse here -at nanoscale level- the calcite/clay assembly, the main constituents of argillite, under storage conditions and show the fragility of the montmorillonite with respect to calcite. Under anisotropic stress, we have observed a shear deformation of the assembly with the presence of broken bonds in the clay mineral, localised in the octahedral rather than the tetrahedral layers. The stress/strain curve leads to a failure strength point at 18.5 MPa. The obtained in-plane response of the assembly to perpendicular deformation is characterized by smaller perpendicular moduli E_z = 48.28 GPa compared to larger in-plane moduli E_x = 141.39 GPa and E_y = 134.02 GPa. Our calculations indicate the instability of the assembly without water molecules at the interface in addition to an important shear deformation.

Nucleation of metastable aragonite CaCO3 in seawater

Predicting the conditions in which a compound adopts a metastable structure when it crystallizes out of solution is an unsolved and fundamental problem in materials synthesis, and one which, if understood and harnessed, could enable the rational design of synthesis pathways toward or away from metastable structures. Crystallization of metastable phases is particularly accessible via low-temperature solution-based routes, such as chimie douce and hydrothermal synthesis, but although the chemistry of the solution plays a crucial role in governing which polymorph forms, how it does so is poorly understood. Here, we demonstrate an ab initio technique to quantify thermodynamic parameters of surfaces and bulks in equilibrium with an aqueous environment, enabling the calculation of nucleation barriers of competing polymorphs as a function of solution chemistry, thereby predicting the solution conditions governing polymorph selection. We apply this approach to resolve the long-standing "calcite-aragonite problem"--the observation that calcium carbonate precipitates as the metastable aragonite polymorph in marine environments, rather than the stable phase calcite--which is of tremendous relevance to biomineralization, carbon sequestration, paleogeochemistry, and the vulnerability of marine life to ocean acidification. We identify a direct relationship between the calcite surface energy and solution Mg:Ca [corrected] ion concentrations, showing that the calcite nucleation barrier surpasses that of metastable aragonite in solutions with Mg:Ca ratios consistent with modern seawater, allowing aragonite to dominate the kinetics of nucleation. Our ability to quantify how solution parameters distinguish between polymorphs marks an important step toward the ab initio prediction of materials synthesis pathways in solution.

Oxygen isotope fractionation in phosphates: the role of dissolved complex anions in isotope exchange

Oxygen isotope fractionation factors for phosphates were calculated by means of the increment method. The results suggest that Ag3PO4 and BiPO4 are enriched in (18)O relative to AgPO4, and the three phosphates are consistently depleted in (18)O relative to Ba3[PO4]2; fluorapatite and chlorapatite exhibit a similar behaviour of oxygen isotope fractionation with consistent enrichment of (18)O relative to hydroxyapatite. The valence, radii and coordination of metal cations play a quantitative role in dictating the (18)O/(16)O partitioning in these phosphates of different compositions. The calculated fractionation factors for the Ag3PO4-H2O system are in agreement with experimental determinations derived from enzyme-catalysed isotope exchange between dissolved inorganic phosphate and water at the longest reaction durations at low temperatures. This demonstrates that the precipitated Ag3PO4 has completely captured the oxygen isotope fractionation in the dissolved inorganic phosphate. The calculated fractionation factors for the F/Cl-apatite-water systems are in agreement with the enzyme-catalysed experimental fractionations for the dissolved phosphate-water system at the longest reaction durations but larger than fractionations derived from bacteria-facilitated exchange and inorganic precipitation experiments as well as natural observations. For the experimental calibrations of oxygen isotope fractionation involving the precipitation of dissolved phosphate species from aqueous solutions, the fractionation between precipitate and water is primarily dictated by the isotope equilibration between the dissolved complex anions and water prior to the precipitation. Therefore, the present results provide a quantitative means to interpret the temperature dependence of oxygen isotope fractionation in inorganic and biogenic phosphates.

Effect of carbonic anhydrase on silicate weathering and carbonate formation at present day CO₂ concentrations compared to primordial values

It is widely recognized that carbonic anhydrase (CA) participates in silicate weathering and carbonate formation. Nevertheless, it is still not known if the magnitude of the effect produced by CA on surface rock evolution changes or not. In this work, CA gene expression from Bacillus mucilaginosus and the effects of recombination protein on wollastonite dissolution and carbonate formation under different conditions are explored. Real-time fluorescent quantitative PCR was used to explore the correlation between CA gene expression and sufficiency or deficiency in calcium and CO₂ concentration. The results show that the expression of CA genes is negatively correlated with both CO₂ concentration and ease of obtaining soluble calcium. A pure form of the protein of interest (CA) is obtained by cloning, heterologous expression, and purification. The results from tests of the recombination protein on wollastonite dissolution and carbonate formation at different levels of CO₂ concentration show that the magnitudes of the effects of CA and CO₂ concentration are negatively correlated. These results suggest that the effects of microbial CA in relation to silicate weathering and carbonate formation may have increased importance at the modern atmospheric CO₂ concentration compared to 3 billion years ago.

One-pot solvothermal synthesis of graphene wrapped rice-like ferrous carbonate nanoparticles as anode materials for high energy lithium-ion batteries

Well dispersed rice-like FeCO3 nanoparticles were produced and combined with reduced graphene oxide (RGO) via a one-pot solvothermal route. SEM characterization shows that rice-like FeCO3 nanoparticles are homogeneously anchored on the surface of the graphene nanosheets; the addition of RGO is helpful to form a uniform morphology and reduce the particle size of FeCO3 to nano-grade. As anode materials for lithium-ion batteries, the FeCO3/RGO nanocomposites exhibit significantly improved lithium storage properties with a large reversible capacity of 1345 mA h g(-1) for the first cycle and a capacity retention of 1224 mA h g(-1) after 50 cycles with a good rate capability compared with pure FeCO3 particles. The superior electrochemical performance of the FeCO3/RGO nanocomposite electrode compared to the pure FeCO3 electrode can be attributed to the well dispersed RGO which enhances the electronic conductivity and accommodates the volume change during the conversion reactions. Our study shows that the FeCO3/RGO nanocomposite could be a suitable candidate for high capacity lithium-ion batteries.

Biomimetic vaterite formation at surfaces structurally templated by oligo(glutamic acid) peptides

In this communication, we demonstrate that vaterite phase calcium carbonate can be structurally “self-templated” at surfaces by engineered peptides.

Microbial metabolism alters pore water chemistry and increases consolidation of oil sands tailings

Tailings produced during bitumen extraction from surface-mined oil sands ores (tar sands) comprise an aqueous suspension of clay particles that remain dispersed for decades in tailings ponds. Slow consolidation of the clays hinders water recovery for reuse and retards volume reduction, thereby increasing the environmental footprint of tailings ponds. We investigated mechanisms of tailings consolidation and revealed that indigenous anaerobic microorganisms altered porewater chemistry by producing CO and CH during metabolism of acetate added as a labile carbon amendment. Entrapped biogenic CO decreased tailings pH, thereby increasing calcium (Ca) and magnesium (Mg) cations and bicarbonate (HCO) concentrations in the porewater through dissolution of carbonate minerals. Soluble ions increased the porewater ionic strength, which, with higher exchangeable Ca and Mg, decreased the diffuse double layer of clays and increased consolidation of tailings compared with unamended tailings in which little microbial activity was observed. These results are relevant to effective tailings pond management strategies.

An exploratory study on seawater-catalysed urine phosphorus recovery (SUPR)

Phosphorus (P) is a crucial and non-renewable resource, while it is excessively discharged via sewage, significant amounts originating from human urine. Recovery of P from source-separated urine presents an opportunity not only to recover this precious resource but also to improve downstream sewage treatment works. This paper proposes a simple and economic method to recover urine derived P by using seawater as a low-cost precipitant to form struvite, as Hong Kong has practised seawater toilet flushing as an alternative water resource since 1958. Chemical reactions, process conditions and precipitate composition for P precipitation in urine have been investigated to develop this new urine P recovery approach. This study concluded that ureolysis extent in a urine-seawater mixture determines the reaction pH that in turn influences the P recovery efficiency significantly; 98% of urine P can precipitate with seawater within 10 min when 40-75% of the urea in urine is ureolysed; the urine to seawater ratio alters the composition of the precipitates. The P content in the precipitates was found to be more than 9% when the urine fraction was 40% or higher. Magnesium ammonium phosphate (MAP) was confirmed to be the predominant component of the precipitates.

NMR characterization of hydrocarbon adsorption on calcite surfaces: a first principles study

The electronic and coordination environment of minerals surfaces, as calcite, are very difficult to characterize experimentally. This is mainly due to the fact that there are relatively few spectroscopic techniques able to detect Ca(2+). Since calcite is a major constituent of sedimentary rocks in oil reservoir, a more detailed characterization of the interaction between hydrocarbon molecules and mineral surfaces is highly desirable. Here we perform a first principles study on the adsorption of hydrocarbon molecules on calcite surface (CaCO3 (101¯4)). The simulations were based on Density Functional Theory with Solid State Nuclear Magnetic Resonance (SS-NMR) calculations. The Gauge-Including Projector Augmented Wave method was used to compute mainly SS-NMR parameters for (43)Ca, (13)C, and (17)O in calcite surface. It was possible to assign the peaks in the theoretical NMR spectra for all structures studied. Besides showing different chemical shifts for atoms located on different environments (bulk and surface) for calcite, the results also display changes on the chemical shift, mainly for Ca sites, when the hydrocarbon molecules are present. Even though the interaction of the benzene molecule with the calcite surface is weak, there is a clearly distinguishable displacement of the signal of the Ca sites over which the hydrocarbon molecule is located. A similar effect is also observed for hexane adsorption. Through NMR spectroscopy, we show that aromatic and alkane hydrocarbon molecules adsorbed on carbonate surfaces can be differentiated.

Dissolution dominating calcification process in polar pteropods close to the point of aragonite undersaturation

Thecosome pteropods are abundant upper-ocean zooplankton that build aragonite shells. Ocean acidification results in the lowering of aragonite saturation levels in the surface layers, and several incubation studies have shown that rates of calcification in these organisms decrease as a result. This study provides a weight-specific net calcification rate function for thecosome pteropods that includes both rates of dissolution and calcification over a range of plausible future aragonite saturation states (Ω(ar)). We measured gross dissolution in the pteropod Limacina helicina antarctica in the Scotia Sea (Southern Ocean) by incubating living specimens across a range of aragonite saturation states for a maximum of 14 days. Specimens started dissolving almost immediately upon exposure to undersaturated conditions (Ω(ar) ∼ 0.8), losing 1.4% of shell mass per day. The observed rate of gross dissolution was different from that predicted by rate law kinetics of aragonite dissolution, in being higher at Ω(ar) levels slightly above 1 and lower at Ω(ar) levels of between 1 and 0.8. This indicates that shell mass is affected by even transitional levels of saturation, but there is, nevertheless, some partial means of protection for shells when in undersaturated conditions. A function for gross dissolution against Ω(ar) derived from the present observations was compared to a function for gross calcification derived by a different study, and showed that dissolution became the dominating process even at Ω(ar) levels close to 1, with net shell growth ceasing at an Ω(ar) of 1.03. Gross dissolution increasingly dominated net change in shell mass as saturation levels decreased below 1. As well as influencing their viability, such dissolution of pteropod shells in the surface layers will result in slower sinking velocities and decreased carbon and carbonate fluxes to the deep ocean.

Sediment Chemistry and Meiofauna from the Northern Gulf of Mexico Continental Shelf

This study examined sediment chemistry, granulometry, and meiofauna on the northern Gulf of Mexico continental shelf from central Louisiana to Apalachicola, Florida. Sediment samples were collected in October/November 2012 with a Shipek grab sampler from 26 locations (extending from 28°18′46.079′′N, 91°10′44.471′′W to 29°3′48.383′′N, 85°28′25.679′′W) at depths ranging from 49 to 361 m. Sediment analysis revealed two distinct profiles to the east and west of the Mississippi River Delta at approximately 88°30′W. The concentrations of silt + clay, organic carbon, Ba, Cr, Cu, Fe, Ni, Pb, V, and Zn were higher in western sites and positively correlated with Al concentrations. Eastern sites contained sandier sediments with lower organic carbon concentrations and higher Sr and Ca concentrations. Nematode densities were higher at western sites and positively correlated with Al, Cr, Cu, Fe, Ni, Pb, Zn, silt + clay, and organic carbon concentrations. Copepod densities correlated with very coarse + coarse sand, exhibiting higher densities at eastern sites. PAH concentrations were relatively low, with all sites having <1700 µg/kg total PAHs. This study has revealed two distinct sediment profiles in the eastern and western zones of the study, which appear to influence the nematode and copepod densities.

Does seawater acidification affect survival, growth and shell integrity in bivalve juveniles?

Anthropogenic emissions of carbon dioxide are leading to decreases in pH and changes in the carbonate chemistry of seawater. Ocean acidification may negatively affect the ability of marine organisms to produce calcareous structures while also influencing their physiological responses and growth. The aim of this study was to evaluate the effects of reduced pH on the survival, growth and shell integrity of juveniles of two marine bivalves from the Northern Adriatic sea: the Mediterranean mussel Mytilus galloprovincialis and the striped venus clam Chamelea gallina. An outdoor flow-through plant was set up and two pH levels (natural seawater pH as a control, pH 7.4 as the treatment) were tested in long-term experiments. Mortality was low throughout the first experiment for both mussels and clams, but a significant increase, which was sensibly higher in clams, was observed at the end of the experiment (6 months). Significant decreases in the live weight (-26%) and, surprisingly, in the shell length (-5%) were observed in treated clams, but not in mussels. In the controls of both species, no shell damage was ever recorded; in the treated mussels and clams, damage proceeded via different modes and to different extents. The severity of shell injuries was maximal in the mussels after just 3 months of exposure to a reduced pH, whereas it progressively increased in clams until the end of the experiment. In shells of both species, the damaged area increased throughout the experiment, peaking at 35% in mussels and 11% in clams. The shell thickness of the treated and control animals significantly decreased after 3 months in clams and after 6 months in mussels. In the second experiment (3 months), only juvenile mussels were exposed to a reduced pH. After 3 months, the mussels at a natural pH level or pH 7.4 did not differ in their survival, shell length or live weight. Conversely, shell damage was clearly visible in the treated mussels from the 1st month onward. Monitoring the chemistry of seawater carbonates always showed aragonite undersaturation at 7.4 pH, whereas calcite undersaturation occurred in only 37% of the measurements. The present study highlighted the contrasting effects of acidification in two bivalve species living in the same region, although not exactly in the same habitat.

Calcite dissolution rates in texturally diverse calcareous rocks

The injection of reactive fluids into carbonate reservoirs during enhanced recovery operations can induce important changes in rock permeability. However, reliably predicting these changes requires accurate knowledge of calcite reaction rates. While numerous studies have examined calcium carbonate dissolution rates, most have focused on pure calcite crystals rather than actual rocks. In this study, two types of flow-through experiments were carried out to determine the calcite dissolution rates in texturally diverse calcareous rocks: the first type of experiment had a duration of 3 days, while the second type ran for 3 months. Our experiments show that rocks with differing textures and roughness (samples included coarse-grained oolitic limestone, fine-grained Solnhofen limestone, marble and calcite spar) do in fact dissolve by different mechanisms. However, despite these differences, bulk reaction rates were found to be remarkably similar (with a relative standard deviation of <20%) and consistent with previously reported reaction rates for calcite. Thus, our results suggest that textural differences between rock types are unlikely to have an important impact on overall reaction rates in fractured carbonate reservoirs.

Strontium, nickel, cadmium, and lead substitution into calcite, studied by density functional theory

We have used density functional theory to predict the ion exchange energies for divalent cations Ni(2+), Sr(2+), Cd(2+), and Pb(2+) into a calcite {10.4} surface in equilibrium with water. Exchange energies were calculated for substitution into the topmost surface layer, at the mineral-fluid interface, and into the second layer of the solid. This information can be used as an indicator for cation substitution in the bulk phase, such as for the uptake of toxic metals from the environment and the growth of secondary phases. In both the surface and in the second layer, Ni(2+), Cd(2+), and Pb(2+) substitute exothermically and Sr(2+) substitutes endothermically. Our results agree with published experimental data that demonstrate trace metal coprecipitation with calcite as a sink for Ni(2+), Cd(2+), and Pb(2+), whereas Sr(2+) has a distribution constant significantly smaller than 1. Ni(2+) substitution is favored at the mineral-fluid interface compared with bulk substitution, which also agrees with experimental data. Our results predict that Ni(2+), Cd(2+), and Pb(2+) form a stable solid solution with calcite. Successful prediction of the experimental results gives us confidence in our ability to predict the divalent cation preference for surfaces rather than for sites within the bulk crystal structure, which cannot be directly derived from experiment.

In situ probing calcium carbonate formation by combining fast controlled precipitation method and small-angle X-ray scattering

The initial stage of calcium carbonate nucleation and growth, found usually in "natural" precipitation conditions, is still not well understood. The calcium carbonate formation for moderate supersaturation level could be achieved by an original method called the fast controlled precipitation (FCP) method. FCP was coupled with SAXS (small-angle X-ray scattering) measurements to get insight into the nucleation and growth mechanisms of calcium carbonate particles in Ca(HCO3)2 aqueous solutions. Two size distributions of particles were observed. The particle size evolutions of these two distributions were obtained by analyzing the SAXS data. A nice agreement was obtained between the total volume fractions of CaCO3 obtained by SAXS analysis and by pH-resistivity curve modeling (from FCP tests).

Precipitation softening: a pretreatment process for seawater desalination

Reduction of membrane fouling in reverse osmosis systems and elimination of scaling of heat transfer surfaces in thermal plants are a major challenge in the desalination of seawater. Precipitation softening has the potential of eliminating the major fouling and scaling species in seawater desalination plants, thus allowing thermal plants to operate at higher top brine temperatures and membrane plants to operate at a reduced risk of fouling, leading to lower desalinated water costs. This work evaluated the use of precipitation softening as a pretreatment step for seawater desalination. The effectiveness of the process in removing several scale-inducing materials such as calcium, magnesium, silica, and boron was investigated under variable conditions of temperature and pH. The treatment process was also applied to seawater spiked with other known fouling species such as iron and bacteria to determine the efficiency of removal. The results of this work show that precipitation softening at a pH of 11 leads to complete elimination of calcium, silica, and bacteria; to very high removal efficiencies of magnesium and iron (99.6 and 99.2 %, respectively); and to a reasonably good removal efficiency of boron (61 %).

Enzyme-accelerated and structure-guided crystallization of calcium carbonate: role of the carbonic anhydrase in the homologous system

The calcareous spicules from sponges, e.g. from Sycon raphanus, are composed of almost pure calcium carbonate. In order to elucidate the formation of those structural skeletal elements, the function of the enzyme carbonic anhydrase (CA), isolated from this species, during the in vitro calcium carbonate-based spicule formation, was investigated. It is shown that the recombinant sponge CA substantially accelerates calcium carbonate formation in the in vitro diffusion assay. A stoichiometric calculation revealed that the turnover rate of the sponge CA during the calcification process amounts to 25 CO2s(-1) × molecule CA(-1). During this enzymatically driven process, initially pat-like particles are formed that are subsequently transformed to rhomboid/rhombohedroid crystals with a dimension of ~50 μm. The CA-catalyzed particles are smaller than those which are formed in the absence of the enzyme. The Martens hardness of the particles formed is ~4 GPa, a value which had been determined for other biogenic calcites. This conclusion is corroborated by energy-dispersive X-ray spectroscopy, which revealed that the particles synthesized are composed predominantly of the elements calcium, oxygen and carbon. Surprising was the finding, obtained by light and scanning electron microscopy, that the newly formed calcitic crystals associate with the calcareous spicules from S. raphanus in a highly ordered manner; the calcitic crystals almost perfectly arrange in an array orientation along the two opposing planes of the spicules, leaving the other two plane arrays uncovered. It is concluded that the CA is a key enzyme controlling the calcium carbonate biomineralization process, which directs the newly formed particles to existing calcareous spicular structures. It is expected that with the given tools new bioinspired materials can be fabricated.

Laboratory activity to effectively teach introductory geomicrobiology concepts to non-geology majors

We have designed a three-week experiment that can complement any microbiology course, to teach main geomicrobiology concepts for non-geology majors. One of the most difficult concepts for non-geology majors to comprehend is how bacteria serve as a platform for different mineralization reactions. In our three-week laboratory practice, students learn the main principles and conditions required for an induced bacterial mineralization. Upon completion of the laboratory experience, students will: 1) learn how microbial-induced mineralization (such as calcium carbonate formation) is affected by differential media and growth conditions; 2) understand how bacterial physiology affects any induced in situ or in vitro mineralization; 3) comprehend how growing conditions and bacterial physiologies interrelate, resulting in differential crystal formation. The teaching-learning process was assessed using a pre-/posttest with an increase from 26% to 76% in the number of positive answers from the students. We also measured the students' proficiency while conducting specific technical tasks, revealing no major difficulties while conducting the experiments. A final questionnaire was provided with satisfactory evaluations from the students regarding the organization and content of the practices. 84-86% of the students agreed that the exercises improved their knowledge in geomicrobiology and would like to attend similar laboratories in the future. Such response is the best indicator that the laboratory practice can be implemented in any undergraduate/graduate microbiology course to effectively teach basic geomicrobiology concepts to non-geology majors.

Effects of ocean acidification on the dissolution rates of reef-coral skeletons

Ocean acidification threatens the foundation of tropical coral reefs. This study investigated three aspects of ocean acidification: (i) the rates at which perforate and imperforate coral-colony skeletons passively dissolve when pH is 7.8, which is predicted to occur globally by 2100, (ii) the rates of passive dissolution of corals with respect to coral-colony surface areas, and (iii) the comparative rates of a vertical reef-growth model, incorporating passive dissolution rates, and predicted sea-level rise. By 2100, when the ocean pH is expected to be 7.8, perforate Montipora coral skeletons will lose on average 15 kg CaCO₃ m⁻² y⁻¹, which is approximately −10.5 mm of vertical reduction of reef framework per year. This rate of passive dissolution is higher than the average rate of reef growth over the last several millennia and suggests that reefs composed of perforate Montipora coral skeletons will have trouble keeping up with sea-level rise under ocean acidification. Reefs composed of primarily imperforate coral skeletons will not likely dissolve as rapidly, but our model shows they will also have trouble keeping up with sea-level rise by 2050.

Biogenic fish-gut calcium carbonate is a stable amorphous phase in the gilt-head seabream, Sparus aurata

The main source of calcium carbonate (CaCO₃) in the ocean comes from the shells of calcifying planktonic organisms, but substantial amounts of CaCO₃ are also produced in fish intestines. The precipitation of CaCO₃ assists fish in intestinal water absorption and aids in whole body Ca²⁺ homeostasis. Here we report that the product formed in the intestinal lumen of the gilt-head seabream, Sparus aurata, is an amorphous calcium carbonate (ACC) phase. With FTIR spectroscopy and SEM imaging, our study shows that the fish-derived carbonates from S. aurata are maintained as a stable amorphous phase throughout the intestinal tract. Moreover, intestinal deposits contained up to 54 mol% Mg²⁺, the highest concentration yet reported in biogenic ACC. Mg is most likely responsible for stabilizing this inherently unstable mineral. The fish carbonates also displayed initial rapid dissolution when exposed to seawater, exhibiting a significant increase in carbonate concentration.

Nanoscale analysis of the morphology and surface stability of calcium carbonate polymorphs

Under earth surface conditions, in ocean and natural water, calcium carbonate is ubiquitous, forming anhydrous and hydrous minerals. These hydrous phases are of considerable interest for their role as precursors to stable carbonate minerals. Atomistic simulation techniques have been employed here to perform a comprehensive and quantitative study of the structural and energetic stability of dry and hydrous surfaces of calcium carbonate polymorphs using two recently developed forcefields. Results show that the dry forms are prone to ductility; while hydrous phases are found to be brittle. The (001) surface of monohydrocalcite appears to be the most stable (0.99 J/m(2)) whereas for the ikaite phase, the (001) surface is the most stable. The corresponding value is 0.2 J/m(2), i.e. even lower than the surface energy of the Beautiful computed morphology pictures are obtained with Xiao's model and are very similar to the observed SEM images.

The enzyme carbonic anhydrase as an integral component of biogenic Ca-carbonate formation in sponge spicules

The inorganic scaffold of the spicules, the skeletal elements of the calcareous sponges, is formed of calcium carbonate (CaCO3). The growth of the approximately 300-μm large spicules, such as those of the calcareous sponge Sycon raphanus used in the present study, is a rapid process with a rate of about 65 μm/h. The formation of CaCO3 is predominantly carried out by the enzyme carbonic anhydrase (CA). The enzyme from the sponge S. raphanus was isolated and prepared by recombination. The CA-driven deposition of CaCO3 crystallites is dependent on temperature (optimal at 52 °C), the pH value of the reaction assay (7.5/8.0), and the substrate concentration (CO2 and Ca(2+)). During the initial phase of crystallite formation, ≈40 μm large round-shaped deposits are formed that remodel to larger prisms. These crystal-like prisms associate to each other and form either rope-/bundle-like aggregates or arrange perfectly with their smaller planes along opposing surfaces of the sponge spicule rays. The CA-dependent CaCO3 deposition can be inhibited by the CA-specific inhibitor acetazolamide. The Michaelis-Menten constant for the CA-driven mineralization has been determined to be around 8 mM with respect to CaCO3. The deposits formed have a Martens hardness of ≈5 GPa. The data presented here highlights for the first time that calcite deposition in the sponge system is decisively controlled enzymatically. This data will contribute to the development of new strategies applicable for the fabrication of novel biomaterials.

The effect of silica on polymorphic precipitation of calcium carbonate: an on-line energy-dispersive X-ray diffraction (EDXRD) study

Calcium carbonate is the most abundant biomineral and a compound of great industrial importance. Its precipitation from solution has been studied extensively and was often shown to proceed via distinct intermediate phases, which undergo sequential transformations before eventually yielding the stable crystalline polymorph, calcite. In the present work, we have investigated the crystallisation of calcium carbonate in a time-resolved and non-invasive manner by means of energy-dispersive X-ray diffraction (EDXRD) using synchrotron radiation. In particular, the role of silica as a soluble additive during the crystallisation process was examined. Measurements were carried out at different temperatures (20, 50 and 80 °C) and various silica concentrations. Experiments conducted in the absence of silica reflect the continuous conversion of kinetically formed metastable polymorphs (vaterite and aragonite) to calcite and allow for quantifying the progress of transformation. Addition of silica induced remarkable changes in the temporal evolution of polymorphic fractions existing in the system. Essentially, the formation of calcite was found to be accelerated at 20 °C, whereas marked retardation or complete inhibition of phase transitions was observed at higher temperatures. These findings are explained in terms of a competition between the promotional effect of silica on calcite growth rates and kinetic stabilisation of vaterite and aragonite due to adsorption (or precipitation) of silica on their surfaces, along with temperature-dependent variations of silica condensation rates. Data collected at high silica concentrations indicate the presence of an amorphous phase over extended frames of time, suggesting that initially generated ACC particles are progressively stabilised by silica. Our results may have important implications for CaCO3 precipitation scenarios in both geochemical and industrial settings, where solution silicate is omnipresent, as well as for CO2 sequestration technologies.

Morphological and mechanical characterization of composite calcite/SWCNT-COOH single crystals

A growing number of classes of organic (macro)molecular materials have been trapped into inorganic crystalline hosts, such as calcite single crystals, without significantly disrupting their crystalline lattices. Inclusion of an organic phase plays a key role in enhancing the mechanical properties of the crystals, which are believed to share structural features with biogenic minerals. Here we report the synthesis and mechanical characterization of composite calcite/SWCNT-COOH single crystals. Once entrapped into the crystals SWCNT-COOH appeared both as aggregates of entangled bundles and nanoropes. Their observation was possible only after crystal etching, fracture or FIB (focused ion beam) cross-sectioning. SWCNT-COOHs occupied a small volume fraction and were randomly distributed into the host crystal. They did not strongly affect the crystal morphology. However, although the Young's modulus of composite calcite/SWCNT-COOH single crystals was similar to that of pure calcite their hardness increased by about 20%. Thus, SWCNT-COOHs provide an obstacle against the dislocation-mediated propagation of plastic deformation in the crystalline slip systems, in analogy with the well-known hardness increase in fiber-reinforced composites.

Abiotic production of methane in terrestrial planets

On Earth, methane is produced mainly by life, and it has been proposed that, under certain conditions, methane detected in an exoplanetary spectrum may be considered a biosignature. Here, we estimate how much methane may be produced in hydrothermal vent systems by serpentinization, its main geological source, using the kinetic properties of the main reactions involved in methane production by serpentinization. Hydrogen production by serpentinization was calculated as a function of the available FeO in the crust, given the current spreading rates. Carbon dioxide is the limiting reactant for methane formation because it is highly depleted in aqueous form in hydrothermal vent systems. We estimated maximum CH4 surface fluxes of 6.8×10(8) and 1.3×10(9) molecules cm(-2) s(-1) for rocky planets with 1 and 5 M⊕, respectively. Using a 1-D photochemical model, we simulated atmospheres with volume mixing ratios of 0.03 and 0.1 CO2 to calculate atmospheric methane concentrations for the maximum production of this compound by serpentinization. The resulting abundances were 2.5 and 2.1 ppmv for 1 M⊕ planets and 4.1 and 3.7 ppmv for 5 M⊕ planets. Therefore, low atmospheric concentrations of methane may be produced by serpentinization. For habitable planets around Sun-like stars with N2-CO2 atmospheres, methane concentrations larger than 10 ppmv may indicate the presence of life.

Inside the alkalinity engine: the role of electron donors in the organomineralization potential of sulfate-reducing bacteria

Mineral precipitation in microbial mats may have been the key to their preservation as fossil stromatolites, potentially documenting evidence of the earliest life on Earth. Two factors that contribute to carbonate mineral precipitation are the saturation index (SI) and the presence of nucleation sites. Both of these can be influenced by micro-organisms, which can either alter SI through their metabolisms, or produce and consume organic substances such as extracellular polymeric substances (EPS) that can affect nucleation. It is the balance of individual metabolisms within the mat community that determines the pH and the dissolved inorganic carbon concentration, thereby potentially increasing the alkalinity and consequently the SI. Sulfate-reducing bacteria (SRB) are an important component of this 'alkalinity engine.' The activity of SRB often peaks in layers where CaCO(3) precipitates, and mineral precipitation has been demonstrated in SRB cultures; however, the effect of their metabolism on the alkalinity engine and actual contribution to mineral precipitation is the subject of controversy. Here, we show through culture experiments, theoretical calculations, and geochemical modeling studies that the pH, alkalinity, and organomineralization potential will vary depending on the type of electron donor. Specifically, hydrogen and formate can increase the pH, but electron donors like lactate and ethanol, and to a lesser extent glycolate, decrease the pH. The implication of this for the lithification of mats is that the combination of processes supplying electron donors and the utilization of these compounds by SRB may be critical to promoting mineral precipitation.

Dissolution measurement free from mass transport

Standard dissolution experiments are carried out in stirred liquid. Therefore, the measured dissolution rate contains also diffusive and convective contributions, besides the desired surface reaction contribution. We present here a methodology, based on the hydrodynamical analysis of classical dissolution experiments, enabling us to extract the pure dissolution rate constant from the set of the already measured dissolution rates. The application of this analysis to the case of gypsum shows that the removal of the mass transport contribution from the dissolution rates of this mineral found in the literature brings, despite their apparent inconsistency, a coherent description of its dissolution kinetics and a well-defined value of its rate constant.

Diel variability in seawater pH relates to calcification and benthic community structure on coral reefs

Community structure and assembly are determined in part by environmental heterogeneity. While reef-building corals respond negatively to warming (i.e. bleaching events) and ocean acidification (OA), the extent of present-day natural variability in pH on shallow reefs and ecological consequences for benthic assemblages is unknown. We documented high resolution temporal patterns in temperature and pH from three reefs in the central Pacific and examined how these data relate to community development and net accretion rates of early successional benthic organisms. These reefs experienced substantial diel fluctuations in temperature (0.78°C) and pH (>0.2) similar to the magnitude of ‘warming’ and ‘acidification’ expected over the next century. Where daily pH within the benthic boundary layer failed to exceed pelagic climatological seasonal lows, net accretion was slower and fleshy, non-calcifying benthic organisms dominated space. Thus, key aspects of coral reef ecosystem structure and function are presently related to natural diurnal variability in pH.