The nanostructure, physical properties and mechanical performance of C-S-H, 1.4 nm tobermorite, jennite, and ettringite were studied. C-S-H of variable stoichiometries was examined as a model system in comparison with that produced in the hydration of Portland cement. The current Master’s thesis is comprised of four research papers designed to improve the current understanding of the nanostructure and engineering properties of C-S-H systems and modified C-S-H systems. Many of the controversial issues in cement science were identified and were addressed in a comprehensive research study, which examined the key features of the C-S-H systems at the nano-structure level. In Chapter 4, each paper presented new evidence for a number of mechanical aspects of C-S-H materials. Numerous advanced analytical tools were used in order to verify the observations made in each section. The major achievements of the current work are mentioned briefly as follows: 1. It was determined that microindentation is a useful method for determining the creep behavior of C-S-H of various stoichiometries, 1.4 tobermorite, jennite, and ettringite. 2. Microindentation parameters i.e. creep modulus, indentation modulus and indentation hardness are porosity dependent. 3. Microindentation creep measurements on C-S-H (C/S = 0.80 and 1.20) demonstrated that creep modulus, indentation modulus, and indentation hardness are all dependent on mass-loss from the 11%RH condition. 4. Evidence was presented that the nanostructural role of interlayer water in C-S-H has a significant influence on the creep process.

Les sols qui ne rencontrent pas les normes d’ingénierie civile doivent êtres soumis à des améliorations géotechniques car les vibrations causées par les tremblements de terre ou par la surcharge sur des infrastructures en hauteur peuvent mener à la liquéfaction partielle ou totale des sols saturés en eau. Ceci peut donc entrainer des dommages importants aux structures construites sur ces sols. Certaines méthodes existent pour remédier à ce problème, mais elles demeurent couteuses et parfois toxiques car elles utilisent de l’acrylamide et des lignosulfates. La bio-précipitation in situ de calcite dans les sols représente une méthode alternative. Le tout se fait avec des bactéries qui démontrent une activité uréolytique. La présente étude s’est intéressée à l’activité uréolytique des souches Escherichia coli, Sporosarcina ureae, Bacillus pasteurii, Lysinibacillus sphaericus, Bacillus subtilis et Bacillus megaterium. Les résultats démontrent que l’urée est seulement dégradée par les souches S. ureae et S. pasteurii. L’incubation de S. ureae en présence de Ni2+ (0.1-1 ppm) et Fe2+ (1-10 ppm) a toutefois permis d’augmenter l’activité catalytique de la souche, ce qui démontre l’importance des éléments nutritifs lors de l’hydrolyse de l’urée. Afin de tester l’activité uréolytique des autres souches, nous avons introduit un système d’expression uréase dans la souche E. coli en substituant des amino-acides dans la structure primaire des protéines. Suite à cette modification, l’activité uréolytique de E. coli s’est améliorée et est devenue comparable à celle des souches S. ureae et S. pasteurii. L’injection de S. ureae et du mutant E. coli dans des sables non-consolidés a permis de cimenter de façon significative (p < 0.05) le matériel par rapport à des sables non inoculés, et ce après seulement 48 heures. Le transfert du système recombinant de E coli vers S. ureae est présentement en cours. Ces résultats prometteurs indiquent qu’il est possible de stimuler la précipitation in situ de calcite en utilisant des bactéries et de stabiliser les sols prônes à la liquéfaction. === Soils often do not satisfy functional requirements for civil engineering projects and as a result geotechnical improvements to soils are often made. Dynamic shaking during earthquakes or static overloading by overlying structures may still result in liquefaction in partially or fully water saturated soils. These have little bearing capacity for structures. Severe damages can result. Moreover, preventative soil grouting strategies are expensive, toxic, and permanent due to acrylamides, lignosulfonates, and otherwise harmful compounds present therein. Alternative methods of strength enhancement are advisable. Microbial induced calcite precipitation (MICP) was assessed in this investigation to consolidate loose, sandy soils. Ureolytic activty of Escherichia coli, Sporosarcina ureae, Bacillus pasteurii, Lysinibacillus sphaericus, Bacillus subtilis and Bacillus megaterium were assessed. Urea was readily degraded foremost by S. ureae and next by S. pasteurii with no significant (p <0.05) activity in other strains. Incubation of S. ureae with 0.1 - 1ppm Ni2+ and 1-10ppm Fe2+ was shown to improve catalytic activity, suggesting their importance as a dietary source for urea hydrolysis. A urease expression system was established in E. coli and particular amino acid substitutions in protein primary structure made. Enhanced ureolytic activity was observed in these E. coli mutants, comparable to native S. ureae activity. Application of wild type S. ureae and recombinant E. coli for MICP in a model sand showed significant (p < 0.05) improvements compared to controls after 48 hours. Transfer of the recombinant system in E. coli to S. ureae is currently underway. These results provide valuable insight affirming that a practical system for the application of MICP may be feasible in the field for the strength enhancement of native and construction-laid loose, sandy soils.

Composites, in which the matrix and the reinforcing fillers are respectively, poly(acrylic acid) (PAA) with two different molecular weights, and chitin whiskers (CHW) were successfully prepared using an evaporation method. The weight fraction of CHW was varied from 0.03 to 0.73. Mechanical and thermal properties and crystallinity of the composites were characterised using tensile testing, differential scanning calorimetry, thermogravimetric analysis and X-ray diffraction. The tensile strength of the composite increased up to 11 wt % CHW after which it decreased. XRD characterisation showed a decrease in crystalline index, crystalline size, chitin crystalline peak and intensity as the content of PAA and its molecular weight increased. Raman spectroscopy was used for the first time to monitor the deformation of chitin film and CHW reinforced PAA composites. The Raman band located at 1622 cm^(-1) was monitored for deformation. On application of tensile deformation the Raman band initially located at 1622 cm^(-1) shifted toward a lower wavenumber. Raman band shift rates of -1.85 cm^(-1)/% for chitin film and -0.59 and -0.25 cm^(-1)/% for 73 and 23 wt % CHW content, respectively, were measured. The modulus of a single chitin whisker and composites were found to be 115, 37 and 16 GPa respectively, for a two dimensional (2D) in-plane distribution of CHW. CHW within a PAA matrix did not show any preferential alignment in a polarised Raman. The Raman intensity ratio〖 I〗_1698 /I_1622 showed that the strongest interaction of the carboxylic group in the composites occured at 3 wt % CHW content. The interaction gradually reduced as the CHW content increased. 〖 CaCO〗_3 crystals were grown in CHW, PAA and CHW/PAA composites by a solution and evaporation casting method. In the absence of PAA and CHW, rhombohedral calcites were observed while rod-like aragonite polymorphs were seen when only PAA was used as a template. In the presence of only CHW, a morphological mixture of ellipsoidal and disc shape with traces of rhombohedral aggregate calcite were the features. In the presence of both PAA and CHW, the rhombohedral shape showed roughness with irregular faces while the vaterite polymorph continued to agglomerate with the observation of porosity at higher CHW content. The vaterite particles gradually decreased as the CHW content was decreased. At lower CHW content aragonite polymorph growth was favoured to the detriment of calcite. The results showed that the vaterite polymorph can be grown even at higher filler loading. The effect of 〖 CaCO〗_3 growth on the mechanical properties of CHW reinforced PAA indicated that better mechanical properties can be achieved at a CHW content of 3 wt % when compared with neat PAA and when 〖 CaCO〗_3 was not incorporated into the CHW/25PAA composites.

The primary objective of this research was to determine if changes in iron availability influence the periodicity of blue-green algal growth. A secondary goal was to resolve how iron availability was related to events such as calcite (calcium carbonate) precipitation and sediment nutrient release. The biogeochemical regulation of blue-green algal succession was studied in three eutrophic hardwater lakes located upon the Thompson Plateau in south-central British Columbia. The experimental approaches included iri situ bottle and limnocorral experiments, sediment core analysis, monitoring of seasonal changes in water chemistry, and whole-lake manipulation by hypolimnetic aeration, or calcium hydroxide addition. Growth and primary production bioassays were used to evaluate iron availability. Microbial chelators were isolated from algal cultures and lake water, quantified by a chelation assay, and used to determine their in situ effects on algal productivity and bacterial heterotrophy. Microbes were able to regulate the bioavailability of iron. Algal siderophore isolates were rapidly assimilated in lake water and they were highly specific for iron chelation. Moreover, chelator concentrations in Black Lake usually exceeded the dissolved iron concentration. Algae excreted chelators that could suppress growth of some other species of algae by 90%, enhance the primary production of some other algal species by 30%, or suppress the heterotrophic activity of bacteria by 14-98%. The degree of iron limitation varied greatly during the summer. In Black Lake, iron limitation was more than ten-fold more intense in early summer than in late summer. Dense blooms of blue-green algae occurred in Black Lake only after the iron content of the lake increased from 20 to more than 100 ug/L. An increase in iron concentration in the water column of the three lakes was caused by a midsummer sediment release of iron. Although sediment pyrite formation converted available iron into refractory iron in both Chain and Frisken lakes, the degree of iron limitation varied greatly among the lakes. Unlike in Black Lake, the algae in Chain Lake were not limited by iron availability. Phosphorus solubility was a good index of iron availability. Black and Frisken lakes had too little iron for iron phosphate to precipitate, but the higher iron concentration in Chain Lake regulated phosphorus solubility. The differences among lakes was primarily a function of external iron loading, not sediment iron release. Chain Lake received 10³ more iron per m² than Frisken or Black lakes. Carbonate equilibria integrated the microbial responses to iron enrichment. When iron availability was increased in the epilimnion of Black Lake, algal productivity was enhanced which resulted in an increase in pH and the coprecipitation of more calcite and phosphorus than in control treatments. The precipitation of calcite could sediment as much as 90% of the algae and 97% of the phosphorus from the epilimnion. The hypolimnia of the iron-enriched limnocorrals had the lowest pH and highest dissolution of precipitated phosphorus. Three reactions, iron chelation, sediment iron release, and calcite precipitation, can regulate much of the periodicity of blue-green algal growth in hardwater lakes. / Science, Faculty of / Zoology, Department of / Graduate

abstract: The potential of using bio-geo-chemical processes for applications in geotechnical engineering has been widely explored in order to overcome the limitation of traditional ground improvement techniques. Biomineralization via urea hydrolysis, referred to as Microbial or Enzymatic Induced Carbonate Precipitation (MICP/EICP), has been shown to increase soil strength by stimulating precipitation of calcium carbonate minerals, bonding soil particles and filling the pores. Microbial Induced Desaturation and Precipitation (MIDP) via denitrification has also been studied for its potential to stabilize soils through mineral precipitation, but also through production of biogas, which can mitigate earthquake induced liquefaction by desaturation of the soil. Empirical relationships have been established, which relate the amount of products of these biochemical processes to the engineering properties of treated soils. However, these engineering properties may vary significantly depending on the biomineral and biogas formation mechanism and distribution patterns at pore-scale. This research focused on the pore-scale characterization of biomineral and biogas formations in porous media. The pore-scale characteristics of calcium carbonate precipitation via EICP and biogenic gas formation via MIDP were explored by visual observation in a transparent porous media using a microfluidic chip. For this purpose, an imaging system was designed and image processing algorithms were developed to analyze the experimental images and detect the nucleation and growth of precipitated minerals and formation and migration mechanisms of gas bubbles within the microfluidic chip. Statistical analysis was performed based on the processed images to assess the evolution of biomineral size distribution, the number of precipitated minerals and the porosity reduction in time. The resulting images from the biomineralization study were used in a numerical simulation to investigate the relation between the mineral distribution, porosity-permeability relationships and process efficiency. By comparing biogenic gas production with abiotic gas production experiments, it was found that the gas formation significantly affects the gas distribution and resulting degree of saturation. The experimental results and image analysis provide insight in the kinetics of the precipitation and gas formation processes and their resulting distribution and related engineering properties. / Dissertation/Thesis / Doctoral Dissertation Civil, Environmental and Sustainable Engineering 2019

The decomposition of land snail shell is a complex process involving a number of factors and influences, including the characteristics of conchs themselves. In particular, it is the shell size with which the progress and the rate of degradation are tightly bound. Post-mortem changes begin with the loss of the original colour and, in the case of transparent species, by the opacification of the shell wall. Subsequently, the periostracum disruption and dissolution of calcium layers occur. However, this sequence may be reversed for some small species (e.g. Columella aspera, Nesovitrea hammonis). Animals mechanically destroy empty shells, humic acids from the substrate cause their artificial dyeing. Fungal mycelium or colonies of Streptomyces grow on the surface of the conchs. The plant roots are also involved in shell decomposition. While degradation of large shells starts with periostracum disruption and subsequent ostracal dissolution, periostracum of small shells persists even after dissolution of ostracal layers. The phenomenon is caused by high resistance of the periostraca of small species. In the case of large shells, periostracum has primarily a "building" function during shell formation, and sometimes it is flaking off already during the snail's life. For small species, it is an important part...

Cellulose nanocrystals (CNC) are great candidates for composite materials. The reasons why CNCs are such attractive materials for them are due to their great mechanical properties, high aspect ratio and low density. On the other hand, hydroxyapatite (HAp) is a kind of calcium phosphate and a main component of bones and teeth. The purpose of the present study is to make oriented nano-sized composites with CNC and HAp. Although some researchers carried out to make CNC composites with HAp for biomedical materials, nano-sized and oriented ones haven’t been achieved yet. Also, films made of CNC and other compounds are known to be transparent and have good oxygen permeability. Especially when CNCs’ direction is in parallel, they show high strength. However most previous researches dealt with particles or plate-like minerals in inorganic/CNC films, so there is no case that coated CNCs themselves were aligned in the films. Therefore fabrication of composite-oriented thin films is quite unique and it will be a potential step for bone-like hierarchical structure. In experiment, certain amount of CNC suspension with functional groups were put into revised simulated body fluid (r-SBF) solutions which were adjusted between pH 6.9-7.9 to make the molar ratio of calcium ion per functional groups on CNC surfaces between 30-230. The suspensions were put into the ultrasonic bath for 15 minutes and stirred in the thermostatic oven at 37 ⁰C for 1 hour. The process of ultrasound and stirring in oven was repeated 1-3 times depending on conditions. Precipitated products were collected with the centrifuge instrument and dried with the freeze dryer. Functional groups induced HAp’s nucleation and the HAp/CNC composites could be obtained under control of molar ratio of calcium ions per functional groups on CNC and pH. Morphology of the composites could be determined by pH and HAp content could be controlled between 25-75 wt% by initial molar ratio. The suspension having the composites synthesized in pH 7.9 with low initial molar ratio was dropped on superhydrophilic glass substrates. At the moment, the substrates were set with leans of 20 degrees. Then they were dried at 60 oC for 3 hours and transparent films containing 25-40 wt% of HAp were obtained. The transmittances of the films were more than 90 % and their thicknesses were 2.2-4.2 μm. The films were suggested to have oriented structure by polarization microscope when the shape of the composites were needle-like homogeneously and independent each other. From the results from SEM, they were aligned longitudinally at both ends of the film and laterally at the upper middle part of the films. It is considered that controlling drying direction influenced on the orientation. The current study should become a promising step to build up a bone-like hierarchical structure artificially.

The carbonate saturometer method developed by Weyl (1961) was studied in respect to the effect of several variables on the solubility of carbonates. The solubility of three solid carbonate materials was measured in four different salt solutions, at four ionic strengths, and at two different temperatures . The solids studied included: calcite, dolomite, and a calcareous soil. It was found that the three solid carbonate materials varied in solubility from a low in the soil carbonates to a high in dolomite. Increasing the ionic strength of the solution increased the solubility of most of the solid carbonate materials. By decreasing the temperature, the solubility was increased. When S04- was present in solution, the solubility of both calcium carbonate and dolomite increased. When Mg++ was present in solution the solubility of calcium carbonate was increased more than was the solubility of dolomite.

The Sr/Ca ratios in calcium carbonate fossils are used by the paleooceanographic community to infer past environmental conditions, such as sea surface temperature and ocean chemistry. The processes of biogenic calcification that produce these chemical signatures are complex and not fully understood, however, and vital effects are known to affect the trace element composition of the CaCO₃ biomineral products. The recent discovery that calcifying organisms produce amorphous calcium carbonate (ACC) as an intermediate phase during the crystallization process calls into question whether this pathway to mineral formation affects trace element distributions in the final product. This non-classical mineralization process raises the question of whether the Sr/Ca ratios of the final products are dependent upon temperature. That is, what is the temperature dependence of Sr/Ca ratios in calcite produced via ACC compared to the measurements obtained from calcite grown by the classical process in laboratory experiments and from biogenic settings. The goal of this study is to determine the effects of solution chemistry and temperature on the Sr composition of ACC and resultant crystalline CaCO₃. Two types of experiments were designed: First, experiments were conducted to synthesize inorganic ACC in a batch reactor for a suite of selected chemical compositions and allowing this intermediate phase to transform into calcite in the reactant solution. In a second series of experiments, ACC was precipitated by a flow-through method to compare results to the batch reactor experiments. The experimental design focused on determining the Sr/Ca ratio and Sr distribution coefficients (KD, Sr) of the amorphous and final crystalline products. Mg/Ca ratios of 5/1 were found to suppress Sr uptake into ACC by a factor of 25% when the initial Sr solution had concentration of one millimolar. ICP-AES data collected across the 18° to 30°C range showed that the Sr/Ca ratio in both ACC and the resultant calcite was independent of temperature. Upon transformation, the Sr/Ca ratios of both the ACC and calcite product were found to be similar, showing that Sr/Ca ratios were independent of the transformation process. Analysis of the data determined KD, Sr values of 0.564(±0.006) for ACC and 0.466(±0.009) for the resultant calcite in the 18-30°C temperature range. The findings show that the Sr/Ca ratios of ACC and the transformed calcite are independent of temperature. However, the corresponding KD, Sr values exceed those reported for calcite grown by classical processes by an order of magnitude. The findings for the inorganic calcite yield KD, Sr values up to four times higher than those found in biogenic calcites. Because the findings of this study show that Sr/Ca is independent of temperature, this study calls into question whether previously reported Sr/Ca measurements in biogenic calcites should be revisited. It is plausible that biological factors have a significant influence on trace element incorporation into biogenic calcite. Vital effects, such as the influence of macromolecules during the ion uptake process, may regulate the apparent Sr/Ca versus temperature trends observed in marine paleontology. Higher KD, Sr values in marine calcifiers may indicate that organisms use the non-classical mineralization pathway in whole or in part. Future studies of trace element incorporation in calcifying species should consider the pathway to mineralization in tandem with interpretations of environmental controls on distribution coefficients. / Master of Science

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