Adsorption of protein and non-protein amino acids on a clay mineral: a possible role of selection in chemical evolution

Impact of pH on sodium caseinate binding and structural changes on montmorillonite surface

The immobilization of proteins onto clay surfaces has proven beneficial for pharmaceutical and environmental applications. This study examines the adsorption of sodium caseinate (Cas), an amphiphilic protein widely used in pharmaceutical formulations, onto sodium montmorillonite (Mt). Adsorption isotherms and kinetics were examined at two pHs, above and below Cas isoelectric point (IEP). Dynamic light scattering (DLS), zeta potential, Fourier Transform Infrared Spectroscopy (FTIR), and X-ray Diffraction (XRD) were used to characterize the complexes formed. Results showed that at pH 3, Cas reversed Mt surface charge from negative to positive due to electrostatic attraction, intercalating into the basal spacing. At pH 7, despite repulsion expected, different mechanisms occurred, including protein orientation on the external surface and Cas self-assembly on Mt, increasing the negative zeta potential. Fluorescence quenching and isothermal titration calorimetry (ITC) revealed binding parameters and thermodynamic interactions, identifying electrostatic, hydrogen, and hydrophobic forces at both pH levels. This study contributes to understanding protein immobilization mechanisms and key factors affecting protein-clay adsorption.

Photochemical Evolution of Alanine in Association with the Martian Soil Analog Montmorillonite: Insights Derived from Experiments Conducted on the International Space Station

The Photochemistry on the Space Station (PSS) experiment was part of the European Space Agency's EXPOSE-R2 mission and was conducted on the International Space Station from 2014 to 2016. The PSS experiment investigated the properties of montmorillonite clay as a protective shield against degradation of organic compounds that were exposed to elevated levels of ultraviolet (UV) radiation in space. Additionally, we examined the potential for montmorillonite to catalyze UV-induced breakdown of the amino acid alanine and its potential to trap the resulting photochemical byproducts within its interlayers. We tested pure alanine thin films, alanine thin films protected from direct UV exposure by a thin cover layer of montmorillonite, and an intimate combination of the two substances forming an organoclay. The samples were exposed to space conditions for 15.5 months and then returned to Earth for detailed analysis. Concurrent ground-control experiments subjected identical samples to simulated solar light irradiation. Fourier-transform infrared (FTIR) spectroscopy quantified molecular changes by comparing spectra obtained before and after exposure for both the space and ground-control samples. To more deeply understand the photochemical processes influencing the stability of irradiated alanine molecules, we performed an additional experiment using time-resolved FTIR spectroscopy for a second set of ground samples exposed to simulated solar light. Our collective experiments reveal that montmorillonite clay exhibits a dual, configuration-dependent effect on the stability of alanine: while a thin cover layer of the clay provides UV shielding that slows degradation, an intimate mixture of clay and amino acid hastens the photochemical decomposition of alanine by promoting certain chemical reactions. This observation is important to understand the preservation of amino acids in specific extraterrestrial environments, such as Mars: cover mineral layer depths of several millimeters are required to effectively shield organics from the harmful effects of UV radiation. We also explored the role of carbon dioxide (CO2), a byproduct of alanine photolysis, as a tracer of the amino acid. CO2 can be trapped within clay interlayers, particularly in clays with small interlayer ions such as sodium. Our studies emphasize the multifaceted interactions between montmorillonite clay and alanine under nonterrestrial conditions; thus, they contribute valuable insights to broader astrobiological research questions.

Efficacy of Acacia Gum Biopolymer in Strength Improvement of Silty and Clay Soils under Varying Curing Conditions

Acacia gum (AG), a polysaccharide biopolymer, has been adopted to improve the strength of three cohesive soils by subjecting them to diverse environmental aging conditions. Being a polysaccharide and a potentially sustainable construction material, the AG yielded flexible film-like threads after 48 h upon hydration, and its pH value of 4.9 varied marginally with the aging of the stabilized soils. The soil samples for the geotechnical evaluation were subjected to wet mixing and were tested under their Optimum Moisture Content (OMC), as determined by the light compaction method. The addition of AG modified the consistency indices of the soils due to the presence of hydroxyl groups in AG, which also led to a rise in OMC and reduction in Maximum Dry Unit weight (MDU). The Unconfined Compressive Strength (UCS) and California Bearing Ratio (CBR) were determined under thermal curing at 333 K as well as on the same day of sample preparation. The least performing condition of the soil's CBR was evaluated under submerged conditions after allowing the AG-stabilized specimens to air-cure for a period of 1 week. The UCS specimens tested after 7 days were subjected to the initial 7 days of thermal curing at 333 K. A dosage of 1.5% of AG yielded the UCS of 2530 kN/m2 and CBR of 98.3%, respectively, for the low compressible clay (LCC) after subjecting the sample to 333 K temperature for 1 week. The viscosity of the AG was found to be 214.7 cP at 2% dosage. Scanning Electron Microscopy (SEM), Fourier Transform Infrared Spectroscopy (FTIR), and average particle size determination revealed the filling of pores by AG gel solution, adsorption, and hydrogen bonding, which led to improvements in macroproperties.

Acceleration of the Dehydrogenation of d-Glucose to 2-Keto-d-gluconate in Aqueous Amino Acid via Hydrated Stacked Clay Nanosheets

The assembly of discrete active species to form periodical nanostructures is essential in realizing low-cost artificial enzymes that mimic natural enzymatic functions in extraordinary bio(chemo)selective reactions. In this study, we developed artificial bifunctional glucose/gluconic acid dehydrogenase from naturally abundant resources: l-aspartic acid (Asp) and montmorillonite (a subgroup of smectite natural clay minerals). β-d-Glucose (Glc) was dehydrogenated to 2-keto-d-gluconate (2-KGA) at 25 and 30 °C in an aqueous acidic solution (pH = 3, 4, and 5). The reaction involved sequential steps that yielded d-gluconic acid (GA) as an intermediate. The second step of the dehydrogenation (GA to 2-KGA) occurred at a higher rate than the first (Glc to GA), which is comparable to the natural process. A negatively charged carboxylate in Asp was required for the dehydrogenation, which donates an electron pair (COO:^-) to the hydroxyl group bonded to the C(1)-position of Glc. The acidic sites in clay served as coenzymatic sites (electron acceptor), promoting the Glc dehydrogenation as the Glc reduced by Asp approached the clay coenzymatic sites. The active coenzymatic structures were developed in 48 h (induction period) through the rearrangement of the adsorbed Asp and Glc molecules on montmorillonite in water (intermediate structure). The spontaneous assembling of the intermediate structures facilitated the one-pot dehydrogenation of Glc to 2-KGA via periodic "hydrated stacked layers" comprising clay nanosheets, Asp, and Glc. The facile synthetic route proposed here is inexpensive and would be beneficial without using both GDH and GADH enzymes bound to a cell membrane.

Clays and the Origin of Life: The Experiments

There are three groups of scientists dominating the search for the origin of life: the organic chemists (the Soup), the molecular biologists (RNA world), and the inorganic chemists (metabolism and transient-state metal ions), all of which have experimental adjuncts. It is time for Clays and the Origin of Life to have its experimental adjunct. The clay data coming from Mars and carbonaceous chondrites have necessitated a review of the role that clays played in the origin of life on Earth. The data from Mars have suggested that Fe-clays such as nontronite, ferrous saponites, and several other clays were formed on early Mars when it had sufficient water. This raised the question of the possible role that these clays may have played in the origin of life on Mars. This has put clays front and center in the studies on the origin of life not only on Mars but also here on Earth. One of the major questions is: What was the catalytic role of Fe-clays in the origin and development of metabolism here on Earth? First, there is the recent finding of a chiral amino acid (isovaline) that formed on the surface of a clay mineral on several carbonaceous chondrites. This points to the formation of amino acids on the surface of clay minerals on carbonaceous chondrites from simpler molecules, e.g., CO2, NH3, and HCN. Additionally, there is the catalytic role of small organic molecules, such as dicarboxylic acids and amino acids found on carbonaceous chondrites, in the formation of Fe-clays themselves. Amino acids and nucleotides adsorb on clay surfaces on Earth and subsequently polymerize. All of these observations and more must be subjected to strict experimental analysis. This review provides an overview of what has happened and is now happening in the experimental clay world related to the origin of life. The emphasis is on smectite-group clay minerals, such as montmorillonite and nontronite.

Quantitative models for predicting adsorption of oxytetracycline, ciprofloxacin and sulfamerazine to swine manures with contrasting properties

Understanding antibiotic adsorption in livestock manures is crucial to assess the fate and risk of antibiotics in the environment. In this study, three quantitative models developed with swine manure-water distribution coefficients (LgK_d) for oxytetracycline (OTC), ciprofloxacin (CIP) and sulfamerazine (SM1) in swine manures. Physicochemical parameters (n=12) of the swine manure were used as independent variables using partial least-squares (PLSs) analysis. The cumulative cross-validated regression coefficients (Q²_cum) values, standard deviations (SDs) and external validation coefficient (Q²_ext) ranged from 0.761 to 0.868, 0.027 to 0.064, and 0.743 to 0.827 for the three models; as such, internal and external predictability of the models were strong. The pH, soluble organic carbon (SOC) and nitrogen (SON), and Ca were important explanatory variables for the OTC-Model, pH, SOC, and SON for the CIP-model, and pH, total organic nitrogen (TON), and SOC for the SM1-model. The high VIPs (variable importance in the projections) of pH (1.178-1.396), SOC (0.968-1.034), and SON (0.822 and 0.865) established these physicochemical parameters as likely being dominant (associatively) in affecting transport of antibiotics in swine manures.

A urine-fuelled soil-based bioregenerative life support system for long-term and long-distance manned space missions

A soil-based cropping unit fuelled with human urine for long-term manned space missions was investigated with the aim to analyze whether a closed-loop nutrient cycle from human liquid wastes was achievable. Its ecohydrology and biogeochemistry were analysed in microgravity with the use of an advanced computational tool. Urine from the crew was used to supply primary (N, P, and K) and secondary (S, Ca and Mg) nutrients to wheat and soybean plants in the controlled cropping unit. Breakdown of urine compounds into primary and secondary nutrients as well as byproduct gases, adsorbed, and uptake fractions were tracked over a period of 20 years. Results suggested that human urine could satisfy the demand of at least 3 to 4 out of 6 nutrients with an offset in pH and salinity tolerable by plants. It was therefore inferred that a urine-fuelled life support system can introduce a number of advantages including: (1) recycling of liquids wastes and production of food; (2) forgiveness of neglect as compared to engineered electro-mechanical systems that may fail under unexpected or unplanned conditions; and (3) reduction of supply and waste loads during space missions.

In-situ atrazine biodegradation dynamics in wheat (Triticum) crops under variable hydrologic regime

A comprehensive biodegradation reaction network of atrazine (ATZ) and its 18 byproducts was coupled to the nitrogen cycle and integrated in a computational solver to assess the in-situ biodegradation effectiveness and leaching along a 5m deep soil cultivated with wheat in West Wyalong, New South Wales, Australia. Biodegradation removed 97.7% of 2kg/ha ATZ yearly applications in the root zone, but removal substantially decreased at increasing depths; dechlorination removed 79% of ATZ in aerobic conditions and 18% in anaerobic conditions, whereas deethylation and oxidation removed only 0.11% and 0.15% of ATZ, respectively. The residual Cl mass fraction in ATZ and 4 byproducts was 2.4% of the applied mass. ATZ half-life ranged from 150 to 247days in the soil surface. ATZ reached 5m soil depth within 200years and its concentration increased from 1×10^-6 to 4×10^-6mg/kg_dry-soil over time. The correlation between ATZ specific biomass degradation affinity Φ₀ and half-life t_1/2, although relatively uncertain for both hydrolyzing and oxidizing bacteria, suggested that microorganisms with high Φ₀ led to low ATZ t_1/2. Greater ATZ applications were balanced by small nonlinear increments of ATZ biodegraded fraction within the root zone and therefore less ATZ leached into the shallow aquifer.

Affinity of Smectite and Divalent Metal Ions (Mg(2+), Ca(2+), Cu(2+)) with L-leucine: An Experimental and Theoretical Approach Relevant to Astrobiology

Earth is the only known planet bestowed with life. Several attempts have been made to explore the pathways of the origin of life on planet Earth. The search for the chemistry which gave rise to life has given answers related to the formation of biomonomers, and their adsorption on solid surfaces has gained much attention for the catalysis and stabilization processes related to the abiotic chemical evolution of the complex molecules of life. In this communication, surface interactions of L-leucine (Leu) on smectite (SMT) group of clay (viz. bentonite and montmorillonite) and their divalent metal ion (Mg(2+), Ca(2+) and Cu(2+)) incorporated on SMT has been studied to find the optimal conditions of time, pH, and concentration at ambient temperature (298 K). The progress of adsorption was followed spectrophotometrically and further characterized by FTIR, SEM/EDS and XRD. Leu, a neutral/non polar amino acid, was found to have more affinity in its zwitterionic form towards Cu(2+)- exchanged SMT and minimal affinity for Mg(2+)- exchanged SMT. The vibrational frequency shifts of -NH3 (+) and -COO(-) favor Van der Waal's forces during the course of surface interaction. Quantum calculations using density functional theory (DFT) have been applied to investigate the absolute value of metal ion affinities of Leu (Leu-M(2+) complex, M = Mg(2+), Ca(2+), Cu(2+)) with the help of their physico-chemical parameters. The hydration effect on the relative stability and geometry of the individual species of Leu-M(2+) × (H2O)n, (n =2 and 4) has also been evaluated within the supermolecule approach. Evidence gathered from investigations of surface interactions, divalent metal ions affinities and hydration effects with biomolecules may be important for better understanding of chemical evolution, the stabilization of biomolecules on solid surfaces and biomolecular-metal interactions. These results may have implications for understanding the origin of life and the preservation of biomarkers.

Peptide formation mechanism on montmorillonite under thermal conditions

The oligomerization of amino acids is an essential process in the chemical evolution of proteins, which are precursors to life on Earth. Although some researchers have observed peptide formation on clay mineral surfaces, the mechanism of peptide bond formation on the clay mineral surface has not been clarified. In this study, the thermal behavior of glycine (Gly) adsorbed on montmorillonite was observed during heating experiments conducted at 150 °C for 336 h under dry, wet, and dry-wet conditions to clarify the mechanism. Approximately 13.9 % of the Gly monomers became peptides on montmorillonite under dry conditions, with diketopiperazine (cyclic dimer) being the main product. On the other hand, peptides were not synthesized in the absence of montmorillonite. Results of IR analysis showed that the Gly monomer was mainly adsorbed via hydrogen bonding between the positively charged amino groups and negatively charged surface sites (i.e., Lewis base sites) on the montmorillonite surface, indicating that the Lewis base site acts as a catalyst for peptide formation. In contrast, peptides were not detected on montmorillonite heated under wet conditions, since excess water shifted the equilibrium towards hydrolysis of the peptides. The presence of water is likely to control thermodynamic peptide production, and clay minerals, especially those with electrophilic defect sites, seem to act as a kinetic catalyst for the peptide formation reaction.

Adsorption and polymerization of amino acids on mineral surfaces: a review

The present paper offers a review of recent (post-1980) work on amino acid adsorption and thermal reactivity on oxide and sulfide minerals. This review is performed in the general frame of evaluating Bernal's hypothesis of prebiotic polymerization in the adsorbed state, but written from a surface scientist's point of view. After a general discussion of the thermodynamics of the problem and exactly what effects surfaces should have to make adsorbed-state polymerization a viable scenario, we examine some practical difficulties in experimental design and their bearing on the conclusions that can be drawn from extant works, including the relevance of the various available characterization techniques. We then present the state of the art concerning the mechanisms of the interactions of amino acids with mineral surfaces, including results from prebiotic chemistry-oriented studies, but also from several different fields of application, and discuss the likely consequences for adsorption selectivities. Finally, we briefly summarize the data concerning thermally activated amide bond formation of adsorbed amino acids without activating agents. The reality of the phenomenon is established beyond any doubt, but our understanding of its mechanism and therefore of its prebiotic potential is very fragmentary. The review concludes with a discussion of future work needed to fill the most conspicuous gaps in our knowledge of amino acids/mineral surfaces systems and their reactivity.

Mechanical Properties of the Sodium Montmorillonite Interlayer Intercalated with Amino Acids

Nanosized montmorillonite clay dispersed in small amounts in polymer results in polymer nanocomposites having superior engineering properties compared to those of the native polymer. These nanoinclusions are created by treating clay with an organic modifier which makes clay organophilic and results in intercalation or exfoliation of the montmorillonite. The modifiers used are usually long carbon chains with alkylammonium or alkylphosphonium cations. In this work, we have investigated the use of some alternative molecules which can act as modifiers for clay composites using clay for reinforcing a matrix of biopeptides or proteins. Such composites have potential applications in the fields of biomedical engineering and pharmaceutical science. In this work, the amino acids arginine and lysine are used as modifiers. The intercalation and mechanical behavior of the interlayer spacing with these amino acids as inclusions under compression and tension are studied using molecular dynamics simulations. Significant differences in the responses are observed. This work also provides an insight into the orientation and interaction of amino acids in the interlayer under different stress paths.

pH profile of the adsorption of nucleotides onto montmorillonite. I. Selected homoionic clays

The effect of adsorbed ions and pH on the adsorption of several purine and pyrimidine nucleotides on montmorillonite was studied. The cations used to prepare homoionic montmorillonite was Na+, Mn2+, Fe3+, Co2+, Ni+, Cu2+, and Zn2+. The nucleotides studied were 5'-,3'-, and 2'-AMP, and 5'-CMP in the pH range 2 through 12. The results show that preferential adsorption amongst nucleotides and similar molecules is dependent upon pH and the nature of the substituted metal cation in the clay. At neutral pH, it was observed that 5'-AMP was more strongly adsorbed than 2'AMP, 3'-AMP, and 5'-CMP. Cu2+ and Zn2+ clays showed enhanced adsorption of 5'-AMP compared to the other cation clays studied in the pH range 4-8. Below pH 4, the adsorption is attributed to cation and anion exchange adsorption mechanisms: above pH 4, anion exchange may also occur, but the adsorption (when it occurs) likely depends on a complexation mechanism occurring between metal cation in the clay exchange site the biomolecule. It is thus proposed that homoionic clays may have played a significant role in the concentration mechanism of biomonomers in the prebiotic environment, a prerequisite step necessary for the formation of biopolymers in the remaining steps leading to the origin of life.

Enthalpy of Adsorption and Isotherms for Adsorption of Naphthenic Acid onto Clays

The enthalpies of adsorption and the isotherms for adsorption of naphthenic acid onto Na-montmorillonite, Na-kaolinite, and Na-illite were studied by means of calorimetry and the static method at 298.15 K. The results show that the enthalpies of adsorption and saturated adsorption amounts of naphthenic acid on different clays change in the order Na-montmorillonite > Na-illite > Na-kaolinite. The interaction between naphthenic acid and clays is discussed.

Chemical studies on the possible existence of life on Mars

Although there is no direct evidence yet for the existence of life on Mars, it is reasonable to conclude that the emergence of life on Earth, which appears to have been controlled by universal laws of physics and chemistry, may have been repeated elsewhere in the universe. The dual approach of synthesis and analysis in our experimental studies has provided ample evidence in support of this hypothesis.

Theoretical investigation of the role of clay edges in prebiotic peptide bond formation. II. Structures and thermodynamics of the activated complex species

Amino acid activation by anhydride formation in model tetrahedral silicate and aluminate sites in clays and neutral phosphates have been studied by semi-empirical molecular orbital calculations. The results have been compared to previous ab initio studies on the reactant species and were found to be in good agreement. The geometries of all species were totally optimized and heats of formation obtained. Relative heats of formation of the anhydrides indicate the extent of anhydride formation to be A1 greater than Si greater than P which is the same order as the stability of hydrolysis. The relative efficacy of the anhydrides in promoting peptide bond formation has been evaluated using both thermodynamic and chemical reactivity criteria. Heats of reaction for model reactions were calculated from calculated enthalpies of formation of the products and reactants. The electrophilicity of the carbonyl carbon and the nucleophilicity of the oxygen were specifically used as indicators of chemical reactivity towards dipeptide formation by the activated amino acids. Our results indicate that if the reaction mechanism is dominated by the nucleophilic character of the oxygen, tetrahedral A1 sites should be more active than Si, and if the electrophilic character dominates, the order would be reversed.

Interactions between clay minerals and siderophores affect the respiration of Histoplasma capsulatum

The reduction in the respiration of Histoplasma capsulatum in broth culture caused by montmorillonite appeared to be the result, in part, of the interference by the clay with the iron nutrition of the fungus. This interference was apparently the result of the adsorption by the clay of the iron-transporting siderophore (deferricoprogen B) produced by the fungus, as the reduction in respiration was partially alleviated by the addition of foreign siderophores. Neither kaolinite nor attapulgite (palygorskite) appeared to adsorb significant amounts of the siderophores, probably because of the low cation exchange capacity and specific surface area of kaolinite and the inaccessibility of adsorption sites in the fibrous attapulgite. These observations, in addition to the adhesion of montmorillonite to the hyphae, suggest mechanisms that may explain the discrete geographic distribution of this fungus, which is pathogenic to humans and which has been isolated essentially only from soils that do not contain montmorillonite.

Clay and the origin of life

Research concerning the possible role of clay in chemical evolution is reviewed. The probable importance of clays in the origin of life is assessed.