Citrus fruits are some of the most widely consumed fruits in the world and contain significant levels of flavonoids, a category of plant secondary metabolites which control taste, color, plant defense, and overall marketability. In citrus and other plants, flavonoids are found in their glucosylated form. Glucosyltransferases (GT’s) are enzymes that add glucose to secondary metabolites like flavonoids. They make up a diverse class of enzymes ubiquitous throughout the plant and animal kingdoms. While many GT’s have been identified, they vary greatly in their structural identity, and their chemical properties make it such that only a small percentage of existing GT’s have been functionally characterized. Research on GT structure function relationships strengthens the reliability of genomic databases and makes significant contributions to the field of enzyme biotechnology. Bioenergy research and custom enzyme synthesis rely on GT structural data, making this research critical to the success of many promising current and future projects. A GT was isolated from grapefruit and was shown to glucosylate the flavonol class of flavonoids at the 3-OH position, called CP3GT. Subsequent analysis showed there are specific arrangements of amino-acids inside the catalytic cleft of CP3GT that likely account for its specificity with flavonols. These interactions are not fully understood and make CP3GT an excellent model for elucidating unique structure function relationships of a GT enzyme. X-ray crystallography is one of the best methods for structure determination that allows a 3D image of the protein in question to be resolved at the molecular level. This method has vast potential for advancing plant enzymology, yet to date only 6 plant glucosyltransferases have had their crystal structures solved. The structural similarities and complementary specificities that CP3GT shares with these crystallized GT’s make CP3GT an excellent candidate for crystallization. This research hypothesizes that there are unique structural features that give CP3GT its specificity, and that these features can be elucidated using x-ray crystallography. Wild type CP3GT and 3 recently characterized mutants are being prepared for crystallization. The crystallization of 3 CP3GT mutants in addition to wild type will compliment structure/function analysis by providing insight into how structural modifications can alter enzyme function. It is recommended that protein be in its native form for crystallization, thus a thrombin-cleavage site was inserted into WT CP3GT and 3 mutants to remove tags following purification. Some studies have suggested that the presence of tags alters enzyme activity, thus this presented the opportunity to test the effect of tags by assaying both native and tagged enzyme. Initial results showed that WT CP3GT treated with thrombin retained 70 percent activity after a 2-hour treatment at 4o C. Additional assays will be conducted to fully determine tag effects and will run concurrently with crystallization experiments

Semicrystalline polymers constitute the majority of the commercially manufactured polymers, mostly known as commodities with low modulus and inferior properties. A robust approach used in tailoring such commodity’s properties for more advanced applications is through the incorporation of inorganic nanoparticles (NPs). Over the past half century, polymer nanocomposites (PNCs) have attracted extensive interest in fundamental research and technological applications. However, NPs have been found to result in complicated alterations in the semicrystalline polymer crystallization kinetics, and their crystalline morphology, which could either synergistically or adversely affect the final composite properties. A comprehensive understanding of this topic is still lacking, which with one could tune the final polymer properties for various cutting-edge applications. In this dissertation, we focus on the crystallization kinetics of semicrystalline PNCs and the connection between the morphology and the mechanical (and rheological) properties of such hybrid systems. First, we control the NP dispersion and self-assembly in a semicrystalline poly(ethylene oxide) (PEO) matrix using both bare and polymer-grafted NPs. We show that bare NPs (with different sizes) and unimodal poly(methyl methacrylate) (PMMA)-g-SiO2 NPs uniformly disperse in a PEO matrix because of the favorable interaction between the matrix and the NP surface (or the PMMA brush). Grafting the latter NPs with a short dense polystyrene brush that is immiscible with PEO while varying the PMMA grafting parameters induces self-assembly and leads to various NP structures: well-dispersed, connected sheets, strings, and large aggregates. Next, we systematically investigate the role of bare and self-assembled grafted NPs on the spherulitic growth kinetics of semicrystalline polymers. In all cases, the incorporation of spherical NPs suppresses the polymer growth kinetics. Using rheological measurements, we show that the reduction in growth is mainly attributed to the NPs increasing the melt viscosity; whereas, they minimally alter the secondary nucleation process. Surprisingly, the PNC growth kinetics is suppressed in two apparently universal manners when plotted as a function of confinement: NP dominated and brush-controlled regimes. Bare NPs and large aggregates of polymer-grafted NPs appear to nearly follow the same dependence for the role of additives on polymer viscosity, weakly suppressing the growth kinetics. On the other hand, all the other self-assembled NP structures showed much stronger growth reductions because of the larger increase in the melt viscosity by the chemically bonded brush. Given our prior knowledge of the PNC growth kinetics, we then draw generalized trends for the role of bare and grafted NPs in nucleating semicrystalline polymers. This is achieved by comparing the polymer crystallization kinetics in the presence of large, asymmetric, immobile fillers (selected from the well-established literature) to those smaller, spherical, mobile NPs (examined throughout this thesis). Generally, NPs serve as heterogenous nucleation sites when incorporated at smaller amounts, leading to accelerated crystallization kinetics. At larger filler contents, NPs confine the polymer chains into smaller domains and become more susceptible to aggregation, which results in antinucleating effects and suppressing the crystallization rate. Such competing effects result in a maximum nucleation efficiency at moderate filler contents. It is also worth noting that the degree of nucleation enhancement and subsequent suppression depends on the system and is controlled by NP dispersion, geometry, and surface chemistry. For example, one- and two-dimensional NPs usually result in a higher nucleation power compared to spherical NPs. Another major difference between mobile and immobile fillers is that when slowly crystallizing from the melt, the smaller diffusive NPs can be segregated and ordered into hierarchal structures (interlamellar sheets and interfibrillar and interspherulitic aggregates). This provides a much richer class of materials with a kinetics route in controlling NP assemblies. Finally, we create robustly toughened semicrystalline polymers by confining the PEO crystallization using a densely grafted PMMA brush (i.e., PMMA-g-SiO₂) with different molecular weights. For comparison, we prepare linear PMMA/PEO blends with equivalent PMMA molecular weights and volume fractions to those of the nanocomposites. We show that PMMA-g¬-SiO₂ NPs surpass linear PMMA homopolymers in terms of toughening the PEO matrix, with the grafted system experiencing relatively higher connectivity and lower crystallinity. At moderate confinement, the nanocomposite sustains a maximum modulus increase of 42%, with around a 200-fold increase in the PEO toughness. This provides a novel route for toughening semicrystalline polymers using noncrystallizable polymer-grafted NPs.

Halide perovskites have recently emerged as the state-of-the-art semiconductors with the unique combination of outstanding optoelectronic properties and facile solution synthesis. Within only a decade of research, they have witnessed a remarkable success in photovoltaics and shown great potential for applications in light-emitting devices, photodetectors, and high-energy sensors. Yet, the majority of current perovskite-based devices still rely on polycrystalline thin films which, as will be discussed in Chapter 2, exhibit inferior charge transport characteristics and increased tendency to chemical degradation compared to their single-crystalline analogues. In this regard, unburdened from the effects of grain boundaries, single crystals demonstrate the upper limits of semiconductor performance. Their study is, thus, important from both fundamental and practical aspects, which present the major objectives of this dissertation. In Chapter 3, we study the intrinsic charge transport and recombination characteristics of single crystals of formamidinium lead halide perovskites. While, in Chapter 4, we investigate the mechanistic origins of rapid synthesis of halide perovskite single crystals by inverse temperature crystallization. Understanding the nucleation and growth mechanisms of halide perovskites enables us to design strategies toward integrating their single crystals into device applications. Namely, in Chapters 5 and 6, we demonstrate crystal engineering approaches for tailoring the thicknesses and facets of halide perovskite single crystals to make them suitable for, respectively, vertical and planar architecture optoelectronic devices. The findings of this dissertation are expected to benefit future studies on fundamental characterization of halide perovskites, as well as motivate researchers to develop perovskite-based optoelectronic devices with better crystallinity, performance and stability.

The morphology, crystallization and melting behaviors of a series of ethylene/alpha-olefin copolymers were investigated as a function of comonomer content, comonomer type and processing conditions, including crystallization temperature and time. This was achieved by using a combination of techniques such as Nuclear Magnetic Resonance Spectroscopy (NMR), Differential Scanning Calorimetry (DSC), Atomic Force Microscopy (AFM) and Fourier Transform Infrared Spectroscopy (FTIR). The results from the thermal analysis studies clearly indicated the existence of two distinct regions of crystallization, demarcated by a cross-over temperature, 𝑇*. The high temperature region (above 𝑇*) displayed cooling-rate dependence as well as significant hysteresis in crystallinity between cooling and heating processes, similar to that observed in linear polyethylene. This implied that the crystals associated with this region were formed via chain-folded lamellar growth. However, the lower temperature region (below 𝑇*) exhibited reversible changes in crystallinity between cooling and heating, and was found to be independent of the cooling rate. The temporal evolution of secondary crystallization in the copolymers was studied for times ranging from 100-106 min, at different crystallization temperatures (Tx). Two distinct melting endotherms were discerned at crystallization temperatures below 𝑇*. A higher melting endotherm that remained invariant with crystallization time (tx) was associated with lamellar crystals that were formed during primary crystallization. In contrast, both the positions as well as the magnitude of the lower temperature endotherm were found to vary systematically with log (tx). The peak positions of the low endotherm, i.e., the melting temperature of the secondary crystals, were found to consistently extrapolate to the crystallization temperature at very short times. Based on this and other considerations, the secondary crystals were associated with the melting of thin stacks of polymer chains aggregated in the form of "fringed-micelle"-like bundled crystals. The temperature dependence of the kinetic parameters (derived from Avrami and other analyses) above 𝑇* and their invariance below 𝑇*, suggested that the transformation in morphology from lamellar to bundled crystals was gradual and systematic, as the branch content was increased or as the crystallization temperature was lowered. Further verification of this result was obtained via AFM experiments. A systematic variation in morphology from lamellar to spot-like (lamellae were less clearly visible) was clearly discerned on increasing the comonomer content. Furthermore, a second morphological feature represented by bridge-like links between the lamellae, and approximately perpendicular to them, was also observed for some copolymers. This feature was correlated with the bundled crystals discussed above. The presence of an alternate crystal structure, in addition to the usual orthorhombic crystal form expected for linear polyethylene, was also established from the results of the FTIR studies. The relative proportions of the second crystal form in the copolymers as a function of branch content and temperature were modeled and estimated via mathematical deconvolution and curve-fitting processes. Comparing the results to those of the hexagonal rotator phase of n-paraffins, it was proposed that the second crystal structure in the copolymers could be assigned to a hexagonal type unit cell structure. Furthermore, the crystallization and melting behaviors of all three types of copolymers studied - ethylene/1-butene, ethylene/1-pentene and ethylene/1-hexene - were found to be identical to each other, suggesting that the crystallization process examined was independent of branch type for the ethyl, propyl and butyl branches examined. Since the lengthy butyl branch (in the ethylene-hexene copolymers) is not likely to be accommodated in the crystal, it was concluded that all three branch types were predominantly excluded from the crystal structure. Based on the results from these studies, a new model for the crystallization mechanism in these copolymers was proposed and could be further extended to other semicrystalline polymers such as PET, PEEK, PVC, PBT, i-PS and polycarbonate. In this model, the primary and secondary crystallization stages were redefined on the basis of the chain-folded lamellar growth process. According to the model, secondary crystallization involves the generation of the bundled crystals that may be viewed as physical cross-links in the amorphous phase. Therefore, it may provide a means of correlating the temporal evolution of secondary crystallization to the time and temperature dependence of the physical properties of semicrystalline polymers, above their glass transition temperatures. / Ph. D.

At the cutting edge of the chemical and biological research, innovation takes place in a field referred to as Lab on Chip (LoC), a multi-disciplinary area that combines biology, chemistry, electronics, microfabrication, and fluid mechanics. Within this field, droplets have been used as microreactors to produce advanced materials like quantum dots, micro and nanoparticles, active pharmaceutical ingredients, etc. The size of these microreactors offers distinct advantages, which were not possible using batch technologies. For example, they allow for lower reagent waste, minimal energy consumption, increased safety, as well as better process control of reaction conditions like temperature regulation, residence times, and response times among others. One of the biggest drawbacks associated with this technology is its limited production volume that prevents it from reaching industrial applications. The standard production rates for a single droplet microfluidic device is in the range of 1-10mLh-1, whereas industrial applications usually demand production rates several orders of magnitude higher. Although substantial work has been recently undertaken in the development scaled-out solutions, which run in parallel several droplet generators. Complex fluid mechanics and limitations on the manufacturing capacity have constrained these works to explore only in-plane parallelization. This thesis investigates a three-dimensional parallelization by proposing a microfluidic system that is comprised of a stack of droplet generation layers working on the liquid-liquid ow regime. Its realization implied a study of the characteristics of conventional droplet generators and the development of a fabrication process for 3D networks of microchannels. Finally, the combination of these studies resulted in a functional 3D parallelization system with the highest production rate (i.e. 1 Lh-1) at the time of its publication. Additionally, this architecture can reach industrially relevant production rates as more devices can be integrated into the same chip and many chips can compose a manufacturing plant. The thesis also addresses the concerns about system reliability and quality control by proposing capacitive and radio frequency resonator sensors that can measure accurately increments as small as 2.4% in the water-in-oil volume fraction and identify errors during droplet production.

Since the fortuitous discovery of the existence of quantum size effects on the band structure of colloidal semiconductor nanocrystals, the development of synthetic methods that can form nanoscale crystalline materials of controllable size, shape, and composition has blossomed as an empirical scientific achievement. The fact that the term “recipe” is commonly used within the context of describing these synthetic methods is indicative of the experimentally driven nature of the field. In this respect, the highly attractive photophysical properties of semiconductor nanocrystals—as cheap wavelength tunable and high quantum yield absorbers and emitters of light for various applications in lighting, biological imaging, solar cells, and photocatalysis—has driven much of the interest in these materials. Nevertheless, a more rigorously predictive first-principles-grounded understanding of how the basic processes of nanocrystal formation (nucleation and growth) lead to the formation of semiconductor nanocrystals of desired size and size dispersity remains an elusive practical and fundamental goal in materials chemistry. In this thesis, we describe efforts to directly study these dynamic nucleation and growth processes for lead chalcogenide nanoparticles, in many cases in-situ, using a mixture of X-ray scattering and UV-Vis/NIR spectroscopy. The lack of a rigorously predictive and verified mechanism for nanocrystal formation in solution for many material systems of practical interest is due both to the inherent kinetic complexity of these reactions, as well as the spectroscopic challenge of finding in-situ probes that can reliably monitor nanoscale crystal growth. In particular, required are direct time-resolved structural probes of metastable inorganic amorphous and crystalline intermediates formed under the high temperature inert conditions of nanocrystal synthesis. It is, at the very least, highly challenging to apply many of the standard spectroscopic tools of mechanistic inorganic and organic chemistry such as ¹H NMR spectroscopy, IR vibrational spectroscopy, and mass spectrometry to this task. A notable counterexample is, of course, UV-vis/NIR absorbance and emission spectroscopies, which are of great value to the studies described herein. Nevertheless, to address this relative dearth of conventional spectroscopic probes, here we explore the use of X-ray Total Scattering real space Pair Distribution Function (PDF) analysis and Small Angle X-ray Scattering (SAXS) techniques to directly probe the crystallization process in-situ. Time-resolved measurements of the small angle reciprocal space scattering data allow mapping of the time evolution of the colloidal size and concentration of the crystals during synthesis, while the Fourier transform of scattering data over a wide range of reciprocal space provides direct insight into the local structure. Through this approach, we compare direct observations of these nucleation and growth processes to the widely cited theoretical models of these processes (Classical Nucleation Theory and LaMer “Burst Nucleation”) and find a number of stark differences between these widely cited theories and our experiments. The first two chapters cover the results of these 𝘪𝘯-𝘴𝘪𝘵𝘶 diffraction studies. Chapter 1 focuses on small angle X-ray scattering data collection and modeling. Chapter 2 focuses upon lead sulfide and lead selenide real space PDF analysis of local structural evolution during synthesis. Finally, Chapter 3 discusses a project in which we examine the origins of emergent semiconducting electronic structure in an increasing size series of atomically precise oligomers of [Ru₆C(CO)₁₆]²⁻ bridged by Hg²⁺ and Cd²⁺ atoms. Using an atomically well-defined series of molecules that bridge the small molecule and nanoscale size regimes, we discuss the factors that give rise to controllable semiconductor electronic structure upon assembly into extended periodic structures in solution. In all these projects, we seek to highlight the value of applying concepts of molecular inorganic chemistry—ligand binding models, relative bond strengths, in addition to kinetics and thermodynamics—to explain our observations regarding nanocrystal nucleation and growth. Consideration of the chemistry of nanocrystal formation processes provides a valuable compliment to the physics-based classical models of nucleation and growth that do not explicitly consider the system specific molecular structure and bonding.

京都大学 / 0048 / 新制・課程博士 / 博士(農学) / 甲第19020号 / 農博第2098号 / 新制||農||1030(附属図書館) / 学位論文||H27||N4902(農学部図書室) / 31971 / 京都大学大学院農学研究科応用生命科学専攻 / (主査)教授 加納 健司, 教授 宮川 恒, 教授 三上 文三 / 学位規則第4条第1項該当 / Doctor of Agricultural Science / Kyoto University / DFAM

京都大学 / 0048 / 新制・課程博士 / 博士(農学) / 甲第21138号 / 農博第2264号 / 新制||農||1057(附属図書館) / 学位論文||H30||N5112(農学部図書室) / 京都大学大学院農学研究科食品生物科学専攻 / (主査)教授 谷 史人, 教授 保川 清, 教授 橋本 渉 / 学位規則第4条第1項該当 / Doctor of Agricultural Science / Kyoto University / DFAM

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