京都大学 / 新制・課程博士 / 博士(理学) / 甲第24437号 / 理博第4936号 / 新制||理||1705(附属図書館) / 京都大学大学院理学研究科化学専攻 / (主査)教授 谷村 吉隆, 教授 林 重彦, 教授 鈴木 俊法 / 学位規則第4条第1項該当 / Doctor of Science / Kyoto University / DGAM

The complementary value of vibrational spectroscopy and mass spectrometry in obtaining structural information on a range of tricyclic indoles with various ring patterns has been investigated, focusing particularly on whether these heterocycles with a functional group containing oxygen in the third ring should be described as ketoindoles or hydroxindolenines. Parallels between certain fragmentations of ionised indoles and electrophilic substitution in solution have been identified. A mechanistically interesting and analytically useful interesting dimerisation, leading to the formation of [2M-H]+ ions, has been discovered in the positive ion electrospray mass spectra of 3-alkylindoles. This dimerisation, which occurs in the nebuliser of the instrument, offers a potential new route to bisindoles under milder conditions than those employed in classical solution chemistry. Facile formation of C=N bonds by condensation of C=O and H2N has been shown to provide a means of preparing protonated imines and protonated quinoxalines from mixtures of the requisite (di)carbonyl compounds and (di)amines, thus further illustrating how organic synthesis is possible in the droplets in the nebuliser of the instrument. Possible metal catalysed coupling reaction routes to bisindoles have been explored. Acyl transfer reactions from nitrogen to carbon have been investigated in 1-acyl-2-methylindoles and orthogonally protected sulphonamides. These processes have been shown to be intermolecular and intramolecular, respectively. The latter rearrangement, which may be prevented when necessary by choosing the nitrophenylsulphonamide protecting group, offers a route to acyl, carboalkoxy and carboaryloxy aromatic compounds, some of which are difficult to prepare.

No description available.

Damage to the hyaline articular cartilage that cushions joints is exceedingly common worldwide, whether caused by traumatic injuries or degenerative pathologies that can lead to the onset of osteoarthritis. Clinically, cartilage lesions are treated with surgical procedures that attempt to restore the architecture of the hyaline tissue. Unfortunately, the current treatment options often result in the undesired formation of fibrocartilage, a type of cartilage with mechanical properties that are inferior to those of hyaline cartilage. The ability to withstand constant mechanical load is the primary function of articular cartilage, and therefore, critical to restore. The field of cartilage tissue engineering aims to address the limitations of current treatment options by generating restorative tissue with cartilaginous protein composition and concomitant mechanical competency of native hyaline cartilage. Efforts to recapitulate functional cartilage often include approaches that start with cells seeded on a scaffold. Scaffolds are employed to provide the mechanical structure while cells execute the formation of the extracellular matrix. Furthermore, adult mesenchymal stem cells (MSCs) are used in combination with chondrocytes, the single cell type of cartilage, to enhance chondrogenic composition. Given the possible adult MSC sources, such as bone marrow, adipose tissue or the synovial membrane, it is important to select the source that will yield maximum cartilage differentiation. However, the multi-lineage differentiation capacity of MSCs is also their intrinsic limitation. Stem cells undergoing differentiation to cartilage formation can transition into bone, a process known as hypertrophy, which yields changes in chondrocyte function and subsequent undesired deposition of mineralized matrix instead of a normal chondral matrix. The overarching hypothesis of this thesis is that using cartilage-specific MSCs from the synovial membrane, a tissue adjacent to the articular surface, will generate cartilage with superior properties when compared to tissue derived from other cell sources. This hypothesis was tested in the following four aims: First, to assess the in vivo response of tissue engineered cartilage generated from gold standard bone marrow-derived MSCs in a preclinical minipig model; second, to compare the chondrogenic capacity of synovial MSCs and bone marrow MSCs in scaffold-free and scaffold-based engineered cartilage; third, to challenge scaffold-based engineered cartilage with a hypertrophic environment and evaluate the response; and fourth, to explore the use of a hypoxia-simulating agent for the enhancement of chondrogenic differentiation. Together these studies contribute to the identification of an optimal cell source for cartilage tissue engineering to be used in translational preclinical models. / Bioengineering

Over the last century, despite enormous advancements in biomedical research and the development of sophisticated analytical instruments many diseases continue to be a burden on humankind particularly on the aged. This is because of a lack of complete understanding of the pathogenesis and specific therapies. Due to the complexity involved, we need to explore all facets of diagnosis and therapies. Therefore, there is a requirement for different strategies to combat these diseases. A quick diagnosis is the primary step towards improving treatment and increasing the chance of survival. To realize this goal we entail to monitor multiple biomarkers which will also help us to understand the progression of disease. Mid-Infrared (MIR) and Raman spectroscopic techniques are well established analytical methods to understand the molecular structure and chemical composition of heterogeneous systems. These techniques are rapid, non-destructive and offer multiple component analysis (global/multiplex) in a single measurement without any labels. Importantly, biological materials like proteins, carbohydrates, lipids, nucleic acids etc. have unique structures and therefore we can obtain unique spectral fingerprints of these molecules in different physiological and pathological conditions. This will provide a potential route to obtain diagnostic markers for diseases. Also, to improve the ability to diagnose and treat human diseases much more efficiently, understanding the mechanisms involved in the progression of disease is necessary. It would be time consuming and often unethical to perform these studies directly on humans. Therefore, there is a need for model organisms to explore the complexity of various diseases. A model organism is an animal, plant or microbe that is being studied to understand a range of biological phenomena. They should meet certain criteria such as short life cycles, easy to breed and maintain in large numbers under laboratory conditions, and the data generated through use of the model should be applicable to other higher organisms like humans. The microbial system, mouse, rat, Drosophila (fruitfly), C Elegans (nematode worm) and zebrafish are being used extensively for this purpose. The most adaptable organisms to study diseases in humans are the mice as they share almost 99% of their genes with humans. Mice are similar to humans in most physiological and pathological features such as nervous, cardiovascular, immune, liver etc. In addition to mice, Drosophila melanogaster (fruitfly) has been used for years as an attractive model organism to understand the mechanisms of underlying human diseases. This is because 75% of human disease genes have counterparts in Drosophila and it meets the above mentioned criteria to be a model organism. It also plays an important role for studying genetics and development biology. The average life span of Drosophila is 60-80 days; therefore it is a suitable model to study age related diseases. In the present thesis, the ability to probe low-micrometer domains using Raman and Fourier Transform Infrared (FTIR) microspectroscopy was utilized to monitor the chemical changes during various biomedical conditions using model systems. Chapter 1 of the thesis discusses about the origin of Raman and FTIR microspectroscopy along with instrumentation and applications. Various data analysis methods (both univariate & multivariate) and the validation criterion are described in chapter 2. Depending on the objective of the study and based on the technique (Raman or FTIR) used, one (or more) of these methods can be applied for effective interpretation of the data. Further, the thesis includes four different investigations; a) the FTIR spectroscopic study of hepatotoxicity due to acetaminophen using mice as model, b) the Raman spectroscopic studies of muscle-related disorders using Drosophila as a model, c) Vibrational spectroscopic study of septic shock using mice as model, d) Surface Enhanced Raman Spectroscopy (SERS) study of serum components using Lab-on-a-chip (LOC). The first part comprises mainly the FTIR microspectroscopy study of hepatotoxicity in mice post oral dosing of acetaminophen (paracetamol), which is extensively used worldwide as an analgesic and antipyretic drug (chapter 3). The infrared spectra of acetaminophen treated livers in BALB/c mice show a decrease in glycogen and an increase in amounts of cholesteryl esters and DNA. Importantly, analysis of sera identified the lowering of glycogen and increase in DNA and chlolesteryl esters earlier than the increase in alanine aminotransferase, which is routinely used to diagnose liver damage. Similar changes are also observed in C57BL/6 and Nos2−/− mice. Revert experiments using an antidote (L-methionine) demonstrate that depletion in glycogen and increase in DNA are abrogated with pre-treatment, but not post-treatment, with L-methionine. In the second study Raman spectroscopy is applied to discriminate between various muscle defects in Drosophila, since it can provide a unique molecular fingerprint of tissues on the basis of their biochemical composition (chapter 4). Raman spectra were collected from Indirect Flight Muscles (IFM) of mutants upheld1 (up1), heldup2 (hdp2), Myosin heavy chain7 (Mhc7), Actin88FKM88 (Act88FKM88), upheld101 (up101) and Canton-S (CS) for both 2 and 12-days old flies. The difference spectra (mutant minus CS) of all mutants have shown an increase in nucleic acids (DNA/RNA) content along with an increase in β-sheet and/or random coil content at the expense of α-helix. Interestingly, 12th day sample of up1 & Act88FKM88 exhibit significantly higher levels of glycogen and carotenoids than CS. A Principal Components based Linear Discriminant Analysis (PC-LDA) classification model was developed, which classifies the mutants according to their pathophysiology and yielded overall accuracy (OA) of 97% and 93% for 2 and 12-days old flies respectively. up1 & Act88FKM88 (nemaline myopathy phenotypes) form a group which is clearly separated in a Linear Discriminant (LD) Plane from up101 & hdp2 (cardiomyopathy phenotypes). In the third part we investigated septic shock, a life threatening condition associated with multiple organ dysfunctions, in mice (chapter 5). Salmonella typhimurium were given to BALB/c and 129/SvJ mice via the intraperitoneal route to induce infection. Liver, spleen and sera samples were studied using FTIR microspectroscopy. The infrared spectra of liver, spleen and serum samples in BALB/c (Nramp1-deficient) mice show significant spectral changes as early as 1 hour post infection but spleen shows changes only after 6 hour. Interestingly, 129/SvJ (Nramp1-sufficient) mice were resistant to sepsis and show significant spectral changes only at 12 hour post infection. This study demonstrates that suppression of Nramp-1, a renowned gene known to control susceptibility to infections by intracellular bacteria can be an effective cure for sepsis. The final study presented in this thesis demonstrates the use and benefits of lab-on-a-chip (LOC) devices in surface enhanced Raman spectroscopy (SERS) which is used to enhance the weak Raman signals (chapter 6). Most of the diseases have related proteins or analytes present in serum although in early stages their concentration in blood are low. The idea is to detect at low concentration using SERS the serum components which are related to progression of disease. Here, we have compared the effect of different aggregating agents on silver colloids and the resulting enhancement in Raman signals for tryptophan and Bovine Serum Albumin (BSA). Reproducibility issues, the key concern of static phase SERS, can be overcome by performing SERS spectroscopic measurements in automated flow cells. Further, pyridine and tryptophan were used to demonstrate SERS in a segmented flow system. The spectra from different drops were compared and demonstrate the high reproducibility in comparision to static SERS. Lastly, chapter 7 summarizes the entire work of the present thesis with future prospects of Raman and FTIR microspectroscopy to study the progression mechanism of various diseases like neurodegenerative diseases which is easy to follow in drosophila due to their short life span. Also, technological developments in the field of nanotechnology and micro-fluidics will enable the detection of early biochemical changes in bodily fluids such as urine, cerebral spinal fluid, tears etc. Building on the results demonstrated in this thesis, hopefully label-free vibrational (Raman and FTIR) microspectroscopic studies using model organisms would help in understanding the underlying mechanisms of progression of various other diseases which in turn would facilitate the development of effective therapies.

No description available.

Le carcinome hépatocellulaire (CHC) est la 3ème cause de mortalité par cancer dans le monde. L'identification de nouveaux marqueurs sériques est cruciale pour améliorer le pronostic. Dans ce travail, nous avons évalué l'intérêt de la spectroscopie vibrationnelle, infrarouge et Raman, appliquée au sérum pour le diagnostic du CHC. Dans un premier temps, nous avons réalisé 2 études pilotes pour évaluer le potentiel de ces deux approches. L'intérêt de la spectroscopie Raman appliquée au sérum a été évalué chez 37 patients cirrhotiques avec CHC et 34 patients cirrhotiques sans CHC. L'analyse des données spectrales a permis de classer les patients avec un taux d'exactitude diagnostique de 85 à 91%. Nous avons également démontré l'intérêt diagnostique de la spectroscopie IRTF dans une population de 40 patients avec CHC et 39 patients sans CHC. Dans cette étude, le taux d'exactitude diagnostique était de 82 à 86%. Dans un deuxième temps, nous avons mené une étude sur un plus grand nombre de patients afin de valider les résultats obtenus dans l'étude pilote IRTF. Les caractéristiques spectrales IRTF du sérum de 308 patients cirrhotiques avec CHC ont été comparées à celles du serum de 509 patients cirrhotiques sans CHC. L'analyse des données spectrales par deux méthodes de classification supervisée, SVM et PLS-DA, n'a pas permis de confirmer les résultats obtenus dans cette étude pilote. Avec un taux d'exactitude diagnostique entre 50 et 60 %, l'analyse spectrale IRTF du sérum entier n'apparait pas discriminante pour distinguer les patients cirrhotiques avec et sans CHC. Ce résultat souligne la nécessité de confirmer sur un grand nombre de patients les résultats obtenus dans des études pilotes. L'analyse spectrale ciblée sur des fractions du sérum pourrait permettre d'identifier plus efficacement des marqueurs diagnostiques en évitant la superposition des informations spectrales liées aux multiples molécules présentes dans le sérum entier. / Hepatocellular carcinoma (HCC) is the third cause of cancer death in the world. The identification of novel serum markers is crucial to improve the prognosis. In this work, we evaluated the potentiels of vibrational spectroscopy, infrared and Raman spectroscopy, applied to serum to diagnose HCC. On a first step, two pilot studies were conducted to evaluate these two approaches. Raman spectroscopy applied to the serum was tested in 37 cirrhotic patients with HCC and 34 cirrhotic patients without HCC. Analysis of spectral data showed that it was possible to classify patients with a diagnostic accuracy rate of 85 to 91%. We also demonstrated the diagnostic performance of FTIR spectroscopy in a population of 40 patients with HCC and 39 patients without HCC. In this study, the diagnostic accuracy rate was 82 to 86%. In a second step, an FTIR study on a larger number of patients was performed to validate the results obtained in the pilot studiey. FTIR spectral characteristics of 308 serum from cirrhotic patients with HCC were compared with those of 509 cirrhotic patients without HCC. The supervised classification methods, SVM and PLS -DA were applied but did not confirm the results obtained in the pilot study. The diagnostic accuracy was between 50 and 60%, FTIR spectral analysis of whole serum does not appear discriminant enough to differentiate cirrhotic patients with and without HCC. This result highlights the need to confirm on a large number of patients results in pilot studies. Spectral analysis of serum fractions could be an alternative to more effectively identify diagnostic markers avoiding overlapping spectral information related to the complex composition of whole serum.

No description available.

Neste trabalho foram estudados os complexos de transferência de carga resultantes da interação entre as espécies aceptoras de elétrons tetracianoetileno (TCNE) e 7,7,8,8-tetracianoquinodimetano (TCNQ), com aminas mono, bi e tri aromáticas, como espécies doadoras de elétrons, em solução. Também foram estudadas as reações de substituição eletrofílica aromática que ocorre entre o TCNE e aminas. Para tal estudo, foram utilizadas as técnicas espectroscópicas de absorção UV-VIS e Raman, o que permitiu a caracterização dos complexos de transferência de carga, assim como das espécies participantes da reação de tricianovinilação que ocorre entre aminas e TCNE. Para dar suporte aos dados experimentais, cálculos DFT (Teoria do Funcional da Densidade) e TDDFT (Teoria do Funcional da Densidade dependente do tempo) foram realizados, o que permitiu a obtenção das geometrias otimizadas, valores de frequência Raman e energias de transição dessas espécies. Os espectros eletrônicos dos complexos formados entre TCNE e aminas monoaromáticas mostraram que suas energias de transição são proporcionais à capacidade de doação de elétrons da amina. De fato, as energias de transição puderam ser correlacionadas com os valores de potencial de ionização das aminas, apresentando uma correlação linear de acordo com a regra Mulliken. Os espectros Raman permitiram verificar que os modos vibracionais do TCNE envolvidos no processo de transferência de carga apresentam deslocamento para menores números de onda com a diminuição do potencial de ionização da amina, e analogamente, pôde-se obter uma correlação linear entre esses dois parâmetros. No caso das aminas bi e tri aromáticas, a tendência linear entre energia de transição e potencial de ionização foi observada, mas não para os deslocamentos Raman das bandas do TCNE. Na reação de tricianovinilação, os espectros eletrônicos possibilitaram a identificação das espécies participantes da reação, assim como sua caracterização vibracional por espectroscopia Raman ressonante. Através da espectroscopia Raman ressonante, pôde-se, pela primeira vez, caracterizar as espécies intermediárias da reação de tricianovinilação entre TCNE e aminas aromáticas. Os complexos envolvendo TCNQ e aminas monoaromáticas apresentou tendência semelhante à observada em complexos com o TCNE. As energias de transição desses complexos diminuem linearmente, assim como, os modos vibracionais do TCNQ, que apresentam deslocamentos para menores frequências Raman com a diminuição do potencial de ionização da amina. Por outro lado, complexos formados pelo TCNQ e aminas com mais de um anel aromático em sua estrutura, não apresentam correlação entre potencial de ionização do doador e energia de transição e deslocamentos Raman. Os cálculos dos espectros eletrônicos e vibracionais apresentaram boa concordância com os obtidos experimentalmente, porém algumas limitações ficam evidentes na descrição das interações π nesses sistemas modelo. / In this work the charge transfer complexes resulting from the interaction between tetracyanoethylene (TCNE) and 7,7,8,8-tetracyanoquinodimethane (TCNQ), as electron accepting species and mono, bi and tri aromatic amines, as electron donating species, were studied in solution. Also the electrophilic aromatic substitution that occurs between the TCNE and amines has been studied. For this study, the spectroscopic techniques of UV-VIS absorption and Raman were used, which allowed the characterization of the charge transfer complexes, as well as of the species involved in the reaction of tricianovinylation that occurs between amines and TCNE. In order to support the experimental data, DFT (Density Functional Theory) and TDDFT (Time-dependent Density Functional Theory) calculations were performed, to obtain the optimized geometries, Raman frequency values and theoretical transition energies of such species. The electronic spectra of the complexes formed between TCNE and monoaromatic amines showed that their transition energies are proportional to the amine electron donation capacity. In fact it could be linearly correlated with the ionization potential values of the amines, following the Mullikens rule. The Raman spectra allowed to verify that the vibrational modes of the TCNE involved in the process of charge transfer, were displaced to lower wavenumbers with the reduction of the ionization potential of the amine, and analogously, a linear correlation between these two parameters could be obtained. In the case of bi and tri aromatic amines, the linear trend between transition energy and ionization potential was observed, but not for the Raman shifts of the TCNE bands. In the reaction of tricianovinylation, the electronic spectra enabled the identification of the participating species in the reaction, and their vibrational characterization by resonance Raman. Using resonance Raman spectroscopy, it was possible to characterize the intermediate species of the tricianovinylation reaction between TCNE and aromatic amines for the first time. The complexes involving TCNQ and monoaromatic amines showed a similar trend to that observed in complexes with TCNE. The transition energies of these complexes decrease linearly, as well as the vibrational modes of the TCNQ, which present shifts to lower Raman frequencies with the decrease of the ionization potential of the amine. On the other hand, complexes formed by TCNQ and amines with more than one aromatic ring in their structure do not present correlation between donor ionization potential and transition energy and Raman displacements. The calculations of the electronic and vibrational spectra presented good agreement with those obtained experimentally, however some limitations were evidenced in the description of the π interactions in these model systems.

Filmes de água cobrem a maior parte das superfícies em condições ambientes. O estudo dessas interfaces é crucial em biologia e em ciência dos materiais. No entanto, o completo entendimento da adsorção da água e de suas complexas redes de ligações de hidrogênio ainda não foi alcançado. Somente recentemente possuímos técnicas com a sensibilidade e seletividade para estudar estas superfícies até a última camada atômica. A espectroscopia por geração de soma de frequências (SFG) é uma técnica óptica não linear que fornece o espectro vibracional de moléculas em interfaces, sem contribuição do volume do material. A técnica SFG foi utilizada para estudar a estrutura interfacial das moléculas de água estrutural na face livre (010) do cristal natural gipsita (CaSO4 2H2O) e a adsorção de água na mesma à temperatura ambiente. Os espectros SFG na face livre (010), em atmosfera inerte, apresentaram um arranjo com anisotropia azimutal das moléculas de água estrutural com a presença de grupos OH ligados à superfície e grupos OH livre sem formar ligação de hidrogênio, apontando para fora da superfície. O arranjo anisotrópico das moléculas na face (010) é diferente daquele para as moléculas de água no volume do cristal. A adsorção de água foi estudada em equilíbrio com vapor de água em vários valores de umidade relativa. A água adsorvida na gipsita (010) também apresenta um arranjo anisotrópico, porém, diferentemente da água estrutural na superfície livre do cristal, esta apresenta um menor grau de ordenamento e suprime consideravelmente a presença de grupos OH livre. Os resultados experimentais são analisados em conjunto com simulações por dinâmica molecular ab initio realizadas por colaboradores. As simulações apresentaram boa concordância qualitativa e quantitativa com os resultados experimentais, permitindo fazer a atribuição dos espectros vibracionais experimentais, e fornecendo informações difíceis de se obter dos experimentos, como a distribuição orientacional das moléculas de água na interface e sua dinâmica de difusão espacial. / Water films cover most of surfaces under ambient conditions. The study of these interfaces is crucial in biology and materials science. However, a complete understanding of water adsorption and its complex hydrogen bonding networks has not yet been achieved. Only recently we have techniques with the sensitivity and selectivity to study these surfaces to the last atomic layer. Sum-frequency generation (SFG) is a non-linear optical technique that provides the vibrational spectrum of molecules at interfaces, without contribution from the bulk. This technique was used to study the interfacial structure of neat (010) face of Gypsum (CaSO4 2H2O) single crystals and water adsorption on the (010) face at room temperature. The SFG spectra for the neat Gypsum face (010), in inert atmosphere, presented azimuthally anisotropy arrangement of the structural water molecules with the presence of OH groups bound to the surface and free OH groups pointing out of the surface. The arrangement of water molecules on the face (010) is anisotropic but different from that of the water molecules in the bulk crystal. Water adsorption was studied in equilibrium with water vapor at several values of relative humidity. The adsorbed water also exhibited an anisotropic arrangement, however, unlike the structural water, it presents a lower ordering and the free OH groups are strongly suppressed. The experimental results are analyzed together with ab initio molecular dynamics simulations performed by collaborators. The simulations presented good qualitative and quantitative agreement with the experimental results, elucidating the assignment of the experimental vibrational spectra and yielding information that would be difficult to get from the experiments, such as the orientational distribution of interfacial water molecules and their spatial diffusion dynamics.