Aplicando tecnologia de microarray, objetivamos traçar o perfil do programa de maturação das Mo-DC pulsadas com HIV autólogo inativado por AT-2, a fim de identificar marcadores específicos de ativação funcional e sugerir um perfil de expressão de genes úteis na identificação de respostas ao modelo in vitro das Mo-vacina DC. Essas informações podem ajudar a estabelecer assinaturas moleculares das funções celulares mais relevante para a melhoria das vacinas terapêuticas. O perfil transcricional foi analisado com base das vias celulares moduladas das Mo-DCs no estado imaturo, transitório e maduro. O HIV-1 inativado por AT-2 induz ativação de genes associados à apresentação de antígenos. Os conjuntos de genes do citoesqueleto podem influenciar a mudança de comportamento migratório das Mo-DCs ativadas. O aumento na expressão dos receptores celulares contribuem para o recrutamento de monócitos, DCs e macrófagos para o local da infecção. Além disso, modulam a resposta imune inata e adaptativa, incluindo a polarização das células Th e sub-regulação da resposta inflamatória, que pode interferir significativamente com a resposta imune. Coletivamente, o perfil transcricional das Mo-DCs induzido pelo HIV-1 inativado com AT-2 reflete uma significativa reprogramação imunológica e celular das células envolvidas na resposta imune do hospedeiro. Os resultados deste estudo focaram na interpretação de genes específicos dos perfis de transcrição das Mo-DCs como modelo terapêutico utilizado na vacina anti-HIV. As análises de assinaturas gene associado e sua correlação as respostas funcionais simplificam a identificação de indivíduos susceptíveis a vacina e a compreensão de eventuais falhas em ensaios clínicos. Microarray permitiu a análise quantitativa e simultânea da expressão de um elevado número de genes. Os estudos do perfil de expressão foram extremamente úteis para identificar os eventos moleculares e vias envolvidas nas funções de celular induzida por estímulos específicos. Em particular, os resultados sobre o padrão global da expressão dos genes subjacentes as modificações induzidas pelo HIV-1 inativado por AT-2, na fase inicial da administração do antígeno, pôde ser extremamente útil para a identificarmos marcadores de ativação e avaliar os efeitos biológicos que poderiam estar envolvidos para modificação e otimização de estratégias vacinação com Mo-DC / Applying microarray technology, we intend to profile the program to mature Mo-DC pulsed with autologous inactivated HIV by AT-2, in order to identify specific markers of functional activation and suggest a profile of expression of specific genes, useful identification of responders to in vitro model of Mo-DC vaccine. Such information may help to establish detailed molecular signatures of cellular functions most relevant to improving the therapeutic vaccines. The transcriptional profile was analyzed on the basis of the cellular pathways modulated in immature MoDC, transitional MoDC and mature MoDC. The AT-2-inactivated HIV-1 induction of MoDC results in the activation of genes associated with antigen presentation functions. A set of cytoskeletal genes that may potentially mediate shape change and migratory behavior of activated MoDC is also observed. The increase in the expression of immune receptors contribute to the recruitment of monocytes, DCs, and macrophages to the site of infection. Moreover, they modulate both innate and adaptive immune response, including the polarization of Th cells, and the down-regulation of the inflammatory response, which may significantly interfere with the immune response. Collectively, the transcriptional profile induced by AT-2-inactivated HIV-1 in MoDc reflects a significant cellular and immunological reprogramming of cells directly involved in the host immune response. The results of this study focused on the interpretation of specific genes of transcription profile of MoDC used in therapeutic HIV vaccine model. Supplementing the analyses with examination of associated gene signatures and their correlation to functional responses will simplify the identification of responsive vaccine individuals and the understanding of eventual failures in individuals enrolled in clinical trials. Microarray approach allows quantitative and simultaneous analysis of gene expression of a large amount of genes and the systematic studies of expression patterns are extremely useful for identify molecular events and key pathways involved in cellular functions induced by specific stimuli. In particular, data on the global pattern of gene expression underlying the modifications induced by AT-2-inactivated HIV-1 in MoDC, at early stages of antigen administration, may be extremely helpful for the identification of exclusive activation markers to trace the biological effects of modifications/optimizations of the MoDc vaccination strategy

Recentemente desenvolvida, a biotecnologia denominada por Microarrays permite o monitoramento simultâneo dos valores de expressão gênica de centenas de milhares de genes, fator este que traz uma nova interpretação aos resultados obtidos em pesquisas desenvolvidas nas mais diversas áreas do conhecimento incluindo, por exemplo, a Farmacologia e Medicina, uma vez que os resultados obtidos são interpretados ao nível molecular. Contudo, apesar de muita tecnologia ser empregada à técnica de Microarrays, sua aplicação ainda ocasiona algumas complicações decorrentes, por exemplo, das inúmeras fontes de variação existentes, da escala das respostas ou da natural dificuldade de se analisar uma grande quantidade de fragmentos genéticos avaliados sob poucas unidades experimentais. Frente a estas complicações, atualmente, muitas são as propostas metodológicas de análises estatísticas para atenuar ou eliminar os problemas inerentes à técnica de Microarrays e propiciar a extração de resultados mais confiáveis a partir dos valores de expressão gênica, porém muitos desafios ainda persistem. Sob esta colocação, o presente trabalho procurou explorar duas metodologias de análise estatística alternativas no que diz respeito a seus conceitos, embora ambas tenham sido contextualizadas ao problema de Microarrays e aplicadas para se atingir o mesmo objetivo: possibilitar a identificação dos genes diferencialmente expressos sob distintas condições experimentais. A primeira metodologia consistiu da aplicação de Modelos de Análise de Variância de efeitos fixos com a adoção de modificações nas estatísticas de teste, metodologias de correções para múltiplos testes e a construção de gráficos vulcão. Já, a segunda metodologia consistiu da contextualização e aplicação da Teoria da Resposta ao Item TRI aos experimentos de Microarrays, abordagem esta pouco explorada na análise deste tipo de dado, mas a qual possibilita a seleção de genes diferencialmente expressos a partir de uma medida latente estimada para cada gene e a construção de uma escala para as categorias de resposta de expressão gênica. A motivação para este trabalho originou de um experimento de Microarrays com ratos congênicos disponibilizado pelo Laboratório de Cardiologia e Genética Molecular do Instituto do Coração (InCor-USP) cujo objetivo é identificar genes associados à hipertensão. / Recently developed, the biotechnology denominated Microarrays permits a simultaneous monitoring of the gene expression values of hundred thousands of genes; fact that introduces a new interpretation of the results obtained in researches developed in many distinct areas including, for example, Pharmacology and Medicine, once the obtained results are read according to the molecular level. However, despite the fact that much technology is used in the Microarrays technique, its application still causes some implications, for example, the countless sources of existing variance, the scale of answers or the natural difficulty in analyzing a large number of genetic fragments measured by few experimental units. Facing such complications, a lot of methodologies were suggested in order to reduce or eliminate the problems caused by the Microarrays technique and also foster the obtainment of more reliable results from the gene expression values, yet many challenges still persist. Under this perspective, the present work aimed at exploring two alternative methodologies regarding concepts, despite both were contextualized according to the Microarrays problem and applied with the same objective: enabling the identification of the genes differently expressed under different experimental conditions. The first methodology was composed by the application of Analysis of Variance Models of fixed effects with changes in the test statistics, correction methodologies for multiple tests and volcano plot. The second methodology consisted of the contextualization and application of the Item Response Theory IRT towards the Microarrays experiments, being this one not much explored in analysis that use this kind of data, but enabling the selection of genes differently expressed from an estimated latent trait for each gene and the construction of a scale for the categories of gene expression answers. The motivation for the present work came from an experiment of Microarrays with congenic mice made available by the Cardiology and Molecular Genetics Laboratory of the Heart Institute (InCor-USP) that aimed at identifying genes associated with hypertension.

Recentemente desenvolvida, a biotecnologia denominada por Microarrays permite o monitoramento simultâneo dos valores de expressão gênica de centenas de milhares de genes, fator este que traz uma nova interpretação aos resultados obtidos em pesquisas desenvolvidas nas mais diversas áreas do conhecimento incluindo, por exemplo, a Farmacologia e Medicina, uma vez que os resultados obtidos são interpretados ao nível molecular. Contudo, apesar de muita tecnologia ser empregada à técnica de Microarrays, sua aplicação ainda ocasiona algumas complicações decorrentes, por exemplo, das inúmeras fontes de variação existentes, da escala das respostas ou da natural dificuldade de se analisar uma grande quantidade de fragmentos genéticos avaliados sob poucas unidades experimentais. Frente a estas complicações, atualmente, muitas são as propostas metodológicas de análises estatísticas para atenuar ou eliminar os problemas inerentes à técnica de Microarrays e propiciar a extração de resultados mais confiáveis a partir dos valores de expressão gênica, porém muitos desafios ainda persistem. Sob esta colocação, o presente trabalho procurou explorar duas metodologias de análise estatística alternativas no que diz respeito a seus conceitos, embora ambas tenham sido contextualizadas ao problema de Microarrays e aplicadas para se atingir o mesmo objetivo: possibilitar a identificação dos genes diferencialmente expressos sob distintas condições experimentais. A primeira metodologia consistiu da aplicação de Modelos de Análise de Variância de efeitos fixos com a adoção de modificações nas estatísticas de teste, metodologias de correções para múltiplos testes e a construção de gráficos vulcão. Já, a segunda metodologia consistiu da contextualização e aplicação da Teoria da Resposta ao Item TRI aos experimentos de Microarrays, abordagem esta pouco explorada na análise deste tipo de dado, mas a qual possibilita a seleção de genes diferencialmente expressos a partir de uma medida latente estimada para cada gene e a construção de uma escala para as categorias de resposta de expressão gênica. A motivação para este trabalho originou de um experimento de Microarrays com ratos congênicos disponibilizado pelo Laboratório de Cardiologia e Genética Molecular do Instituto do Coração (InCor-USP) cujo objetivo é identificar genes associados à hipertensão. / Recently developed, the biotechnology denominated Microarrays permits a simultaneous monitoring of the gene expression values of hundred thousands of genes; fact that introduces a new interpretation of the results obtained in researches developed in many distinct areas including, for example, Pharmacology and Medicine, once the obtained results are read according to the molecular level. However, despite the fact that much technology is used in the Microarrays technique, its application still causes some implications, for example, the countless sources of existing variance, the scale of answers or the natural difficulty in analyzing a large number of genetic fragments measured by few experimental units. Facing such complications, a lot of methodologies were suggested in order to reduce or eliminate the problems caused by the Microarrays technique and also foster the obtainment of more reliable results from the gene expression values, yet many challenges still persist. Under this perspective, the present work aimed at exploring two alternative methodologies regarding concepts, despite both were contextualized according to the Microarrays problem and applied with the same objective: enabling the identification of the genes differently expressed under different experimental conditions. The first methodology was composed by the application of Analysis of Variance Models of fixed effects with changes in the test statistics, correction methodologies for multiple tests and volcano plot. The second methodology consisted of the contextualization and application of the Item Response Theory IRT towards the Microarrays experiments, being this one not much explored in analysis that use this kind of data, but enabling the selection of genes differently expressed from an estimated latent trait for each gene and the construction of a scale for the categories of gene expression answers. The motivation for the present work came from an experiment of Microarrays with congenic mice made available by the Cardiology and Molecular Genetics Laboratory of the Heart Institute (InCor-USP) that aimed at identifying genes associated with hypertension.

La carcinose péritonéale est une atteinte néoplasique métastatique de la séreuse péritonéale caractérisée par la diffusion de multiples nodules tumoraux. Son pronostic est sombre, marqué par une chimiorésistance. Les traitements intrapéritonéaux, développés pour délivrer des drogues de chimiothérapie anti-cancéreuse directement au contact de ces nodules, ont permis d’améliorer en partie les résultats oncologiques de cette pathologie. Le principe est de mettre à profit la barrière péritonéo-plasmatique pour administrer des posologies plus élevées de drogues, directement au contact des nodules, et ainsi majorer leur cytotoxicité. En stratégie curative, la chimiothérapie intrapéritonéale est associée à une chirurgie de cytoréduction (CRS) complète et son efficacité est majorée par l’adjonction d’une hyperthermie (ChimioHyperthermie IntraPéritonéale - CHIP). Si ce traitement combiné a transformé le pronostic de patients sélectionnés, les résultats restent insatisfaisants. Par exemple les patients atteints de carcinose d’origine colorectale présentent un taux de survie globale à 5 ans de 40% lorsqu’ils sont éligibles à la CRS-CHIP et une médiane de survie de l’ordre de 16 mois quand le traitement se cantonne à de la chimiothérapie systémique.Une meilleure compréhension des mécanismes cellulaires impliqués dans cette chimiorésistance est donc nécessaire pour déterminer de nouvelles cibles thérapeutiques. Les protéines de choc thermique jouent un rôle fondamental dans l’homéostasie protéique intracellulaire en agissant comme protéines chaperonnes et en régulant l’architecture du cytosquelette. L’Hsp27 (ou HspB1) en particulier est impliquée dans la réponse à différents stress cellulaires comme le choc thermique, le stress oxydatif et l’exposition aux drogues de chimiothérapie. Via des mécanismes finement régulés, Hsp27 exerce une protection garantissant la survie cellulaire, en adaptant ses niveaux d’expression, d’oligomérisation et de phosphorylation. Le taux d’Hsp27 est dès lors augmenté dans la plupart des cancers et apparaît comme marqueur fort de mauvais pronostic. Cela en fait un acteur clé de la chimiorésistance et une cible thérapeutique potentielle.Parmi les thérapeutiques ciblées basées sur l’ARN, les oligonucléotides antisens (ASO) sont des molécules issues du génie génétique capables de bloquer spécifiquement la traduction d’un ARN messager cible en protéine. L’apatorsen, un ASO anti-Hsp27 de deuxième génération, a été développé pour bloquer la synthèse d’Hsp27 au sein de la cellule cancéreuse et ainsi rétablir la chimiosensibilité. Après avoir mis en place un modèle de carcinose péritonéale colorectale traitée par CRS et CHIP chez le rat, nous avons étudié in vitro et in vivo, l’effet de l’adjonction de l’apatorsen au traitement standard de cette maladie. Nos résultats ne montrent pas de gain significatif de survie et donnent lieu à une discussion sur cette stratégie de traitement / Peritoneal carcinomatosis is a neoplasic metastatic process of the peritoneal serous lining characterized by the spread of multiple tumoral nodules. The prognosis of such attempt is very poor, characterized by a global chemoresistance. Intraperitoneal treatments were developed to improve drug’s cytoxicity by delivering them directly on nodules. The principle is to take advantage of the peritoneal-plasma barrier that allows to deliver higher drug’s concentration directly onto nodules and so to improve cytotoxicity. In curative intent strategy intraperitoneal chemotherapy is combined to a complete surgical cytoreduction (CRS) and to hyperthermia to enhance efficiency (Hyperthermic Intraperitoneal Chemotherapy - HIPEC). Thanks to this strategy overall survival improved in selected patients but still be flawed. For example, patients with colorectale peritoneal carcinomatosis present a 40% five-year overall survival, whereas those not eligible to that aggressive treatment present a 16 months median survival. So a better understanding of cellular molecular mechanisms responsible for this chemoresistance that will allow identifying new therapeutic targets is needed. Heat shock proteins play a fundamental role in intracellular protein homeostasis by acting as chaperone and regulating cytoskeleton architecture. In particular, Hsp27 acts as a regulator of the cellular response to various stress, such as thermic choc, oxidative stress, exposition to antineoplasic drugs. Through finely regulated process, Hsp27 exerts a cytoprotective role to guaranty cell survival, by adapting its level of expression, oligomerization and phosphorylation. As so Hsp27 is a key actor of chemoresistance and a designated therapeutic target.Antisens oligonucleotides are a new class of molecular targeted treatment able to specifically block the traduction into protein of a messenger RNA. Apatorsen, a second generation anti-Hsp27 ASO, has been developed to decrease Hsp27 levels in neoplastic cells and so restore chemosensitivity.After establishing a colorectal peritoneal carcinomatosis rat model with CRS and HIPEC, we studied in vitro and in vivo the effect of the apatorsen adjunction to this standard treatment. Our results did not show a significant survival improvement and give rise to a discussion upon this treatment strategy

Une étude récente sur le transfert peptidique pH dépendant effectuée avec divers ARNt aminoacyles a révélé la dépendance au pH du transfert peptidique. L’instabilité hydrolytique rend impossible l’obtention de la valeur expérimentale du pKa de l’eau donné pour le groupement α-amino des esters 3'-aminoacyladenosine. Comme les analogues de la puromycine sont les analogues les plus proches du 3’-terminal des ARNt aminoacyles et qu’ils contiennent une liaison amide stable en position 3’, il est intéressant de déterminer la valeur du pKa du groupement α-amino de différents analogues de la puromycine mais aussi de corréler ces valeurs de pKa aux valeurs de pKa des groupements ARNt aminoacyles correspondants obtenues par le transfert peptidique pH dépendant. Le premier chapitre de la thèse se concentre sur la synthèse de différents analogues de la puromycine et sur la détermination de leur basicité par une analyse RMN pH dépendante. Ce chapitre discutera aussi la conformation intrinsèque des analogues de la puromycine mesurée par la pH dépendance de leur constante de couplage J1’-2’. Les synthèses d’analogues dinucléotidiques, d’un analogue xylo-puromycine et d’un analogue de désoxyxylopuromycine seront aussi décrites. Les conjugués peptidyl-ARN miment des fragments importants d’intermédiaires de la transduction. Ces analogues peuvent être utilisés comme outils expérimentaux pour comprendre l’évolution de la synthèse codée des peptides. L’innovation dans le concept de ‘négoce moleculaire’ entre les peptides, les oligonucléotides et les bicouches lipidiques, qui pourrait être à la base de l’évolution de la synthèse peptidique contrôlée par l’ARN, nous a poussé à synthétiser des conjugués peptidyl-ARN amphiphiliques et à étudier leurs interactions avec les bicouches lipidiques. Dans le deuxième chapitre les stratégies de synthèse sur support solide utilisant des analogues de puromycine comme élément constitutif seront discutées / A recent pH dependent peptidyl transfer assay in the ribosome with various aminoacyl tRNAs revealed the pH dependence of the peptidyl transfer. Hydrolytic instability makes impossible to obtain the experimental bulk water pKa data for the α-amino groups of 3'-aminoacyladenosine esters. Since puromycin analogues are the most similar analogues of the 3’-end of the aminoacyl tRNAs and they contain a stable amide bond in 3’-position, the determination of the pKa value of the α-amino groups of different puromycin analogues and correlation of these pKa values with those of α-amino groups of the corresponding aminoacyl tRNAs obtained by pH dependent peptidyl transfer deserves attention. Chapter 1 of the thesis focuses on the synthesis of different puromycin analogues and on the determination of their basicities by a pH dependent NMR analysis. This chapter also analyses the intrinsic conformations accessed by the puromycin analogues, as measured by the pH dependence of their J1’-2’ coupling constants. The synthesis of dinucleotide analogues, a xylo-puromycin analogue and a deoxyxylopuromycin analogue will also be described. Peptidyl-RNA conjugates mimic important fragments of natural intermediates of translation. These analogues can be used as an experimental tool to understand the evolution of the coded synthesis of peptides. The novelty in the concept of a ‘molecular deal’ between peptides, oligonucleotides and lipidic bilayers, which may be the basis for the evolution of RNA controlled peptide synthesis, prompted us to synthesize amphiphilic peptidyl-RNA conjugates and to study their interactions with lipidic bilayers. In chapter 2 the solid support synthetic strategies using puromycin analogues as the building blocks will be discussed

ABSTRACT The morphological premalignant changes in prostate epithelium such as high grade prostatic intraepithelial neoplasia (HGPIN) precede invasive prostate cancer (PC) by several decades. The overall aim of this project was to identify patterns of gene expression in HGPIN and early PC which increase our understanding of the early biology of PC and identify genes and pathways that correlate with an aggressive phenotype. A comprehensive tissue cohort of premalignant prostate lesions was collected in a tissue microarray (TMA) platform that was utilised for high-throughput validation of target genes. Using this unique resource, the expression of the tumour suppressor gene PTEN was assessed using immunohistochemistry in an initial candidate gene approach based on mouse models implicating PTEN in carcinogenesis. No significant difference in expression of PTEN was detected in premalignant and benign epithelium. A transcript profiling approach was undertaken by integrating laser capture microdissection, linear RNA amplification and oligonucleotide microarrays to perform a screen of matched patient samples of normal, HGPIN and PC cells. The expression patterns of two genes encoding secreted proteins, neuropeptide Y (NPY) and macrophage inhibitory cytokine (MIC-1) were validated using immunohistochemistry on TMAs representing the progression model of early PC. Increased expression of these proteins in PC was confirmed to occur early in the disease process and altered expression of NPY and MIC-1 was associated with worse clinical outcome. Further analysis of global gene expression patterns using a structured network knowledge base identified a notable aberration in the expression of extracellular matrix and extracellular matrix associated proteins in HGPIN and provided novel evidence for the role of this class of molecules in the development of PC. In summary, contrary to current dogma based on work in animal models, altered PTEN expression is unlikely to represent an important event in the development of malignancy in the human prostate. In contrast, the expression patterns and prognostic value of NPY and MIC-1 in HGPIN support their further evaluation as biomarkers for the development and progression of PC. The aberrant expression of genes and networks of genes detected in HGPIN will assist in further identification of biological pathways which may be targeted in therapeutic strategies against the development and progression of PC.

<p>When drug molecules are passively absorbed through the cell membrane in the small intestine, the first key step is partitioning of the drug into the membrane. Partition data can therefore be used to predict drug absorption. The partitioning of a solute can be analyzed by drug partition chromatography on immobilized model membranes, where the chromatographic retention of the solute reflects the partitioning. The aims of this thesis were to develop the model membranes used in drug partition chromatography and to study the effects of different membrane components and membrane structures on drug partitioning, in order to characterize drug–membrane interactions.</p><p>Electrostatic effects were observed on the partitioning of charged drugs into liposomes containing charged detergent, lipid or phospholipid; bilayer disks; proteoliposomes and porcine intestinal brush border membrane vesicles (BBMVs), and on the retention of an oligonucleotide on positive liposomes. Biological membranes are naturally charged, which will affect drug partitioning in the human body.</p><p>Proteoliposomes containing transmembrane proteins and cholesterol, BBMVs and bilayer disks were used as novel model membranes in drug partition chromatography. Partition data obtained on proteoliposomes and BBMVs demonstrated how cholesterol and transmembrane proteins interact with drug molecules. Such interactions will occur between drugs and natural cell membranes. In the use of immobilized BBMVs for drug partition chromatography, yet unsolved problems with the stability of the membrane were encountered. A comparison of partition data obtained on bilayer disks with data on multi- and unilamellar liposomes indicated that the structure of the membrane affect the partitioning. The most accurate partition values might be obtained on bilayer disks.</p><p>Drug partition data obtained on immobilized model membranes include both hydrophobic and electrostatic interactions. Such partition data should preferably be used when deriving algorithms or computer programs for prediction of drug absorption.</p>

<p>The positron emitting radionuclide ⁶⁸Ga (T_1/2 = 68 min) might become of practical interest for clinical positron emission tomography (PET). The metallic cation, ⁶⁸Ga(III), is suitable for complexation with chelators, either naked or conjugated with biological macromolecules. Such labelling procedures require pure and concentrated preparations of ⁶⁸Ga(III), which cannot be sufficiently fulfilled by the presently available ⁶⁸Ge/⁶⁸Ga generator eluate. This thesis presents methods to increase the concentration and purity of ⁶⁸Ga obtained from a commercial ⁶⁸Ge/⁶⁸Ga generator. The use of the preconcentrated and purified ⁶⁸Ga eluate along with microwave heating allowed quantitative ⁶⁸Ga-labelling of peptide conjugates within 15 min. The specific radioactivity of the radiolabelled peptides was improved considerably compared to previously applied techniques using non-treated generator eluate and conventional heating. A commercial ⁶⁸Ge/⁶⁸Ga generator in combination with the method for preconcentration/purification and microwave heated labelling might result in an automated device for ⁶⁸Ga-based radiopharmaceutical kit production with quantitative incorporation of ⁶⁸Ga(III).</p><p>Macromolecules were labelled with ⁶⁸Ga(III) either directly or via a chelator. The bifunctional chelator, DOTA, was conjugated in solution to peptides, an antibody and oligonucleotides. The peptides had varied pI values, constitution, and length ranging from 8 to 53 amino acid residues. The oligonucleotides were of various sequences and length with modifications in backbone, sugar moiety and both 3' and 5' ends with a molecular weight up to 9.8 kDa. The bioconjugates were labeled with ⁶⁸Ga(III), and the resulting tracers were characterised chemically and biologically. The identity of the ⁶⁸Ga-labelled bioconjugates was verified. The tracers were found to be stable and their biological activity maintained. Specific radioactivity was shown to be an important parameter influencing the feasibility of accurate imaging data quantification.</p><p>Furthermore, ⁶⁸Ga-labelled peptide imaging was shown to be a useful tool to study peptide adsorption to microstructures in a chemical analysis device.</p>

The positron emitting radionuclide 68Ga (T1/2 = 68 min) might become of practical interest for clinical positron emission tomography (PET). The metallic cation, 68Ga(III), is suitable for complexation with chelators, either naked or conjugated with biological macromolecules. Such labelling procedures require pure and concentrated preparations of 68Ga(III), which cannot be sufficiently fulfilled by the presently available 68Ge/68Ga generator eluate. This thesis presents methods to increase the concentration and purity of 68Ga obtained from a commercial 68Ge/68Ga generator. The use of the preconcentrated and purified 68Ga eluate along with microwave heating allowed quantitative 68Ga-labelling of peptide conjugates within 15 min. The specific radioactivity of the radiolabelled peptides was improved considerably compared to previously applied techniques using non-treated generator eluate and conventional heating. A commercial 68Ge/68Ga generator in combination with the method for preconcentration/purification and microwave heated labelling might result in an automated device for 68Ga-based radiopharmaceutical kit production with quantitative incorporation of 68Ga(III). Macromolecules were labelled with 68Ga(III) either directly or via a chelator. The bifunctional chelator, DOTA, was conjugated in solution to peptides, an antibody and oligonucleotides. The peptides had varied pI values, constitution, and length ranging from 8 to 53 amino acid residues. The oligonucleotides were of various sequences and length with modifications in backbone, sugar moiety and both 3' and 5' ends with a molecular weight up to 9.8 kDa. The bioconjugates were labeled with 68Ga(III), and the resulting tracers were characterised chemically and biologically. The identity of the 68Ga-labelled bioconjugates was verified. The tracers were found to be stable and their biological activity maintained. Specific radioactivity was shown to be an important parameter influencing the feasibility of accurate imaging data quantification. Furthermore, 68Ga-labelled peptide imaging was shown to be a useful tool to study peptide adsorption to microstructures in a chemical analysis device.

Traditionally, bacterial culture has been used for bacterial detection, allowing study of living microorganisms. Molecular methods are rapid and allow simultaneous identification of numerous species and uncultivated phylotypes. The objective of this doctoral thesis was to investigate the role of the oral microbiota, including poorly characterized and uncultivated bacteria, in dental caries and periodontitis, by comprehensive molecular, clinical, and statistical methods. The microbiota of 275 pre-school children (75 with caries and 200 caries-free) was examined by whole genomic DNA probes, 16S rDNA cloning and sequencing, and PCR. Streptococcus mutans, exhibiting a combined association with Streptococcus sobrinus, was significantly associated with Early Childhood Caries (ECC). Plaque from children with Severe Early Childhood Caries (S-ECC) was diverse with 138 identified and 107 unidentified taxa, which possibly included novel phylotypes. Other species/phylotypes associated with childhood caries included Lactobacillus gasseri (p&lt;0.01), Lactobacillus fermentum, Actinomyces israelii, and Actinomyces odontolyticus (all p&lt;0.05, ECC), Veillonella parvula (p&lt;0.01), Veillonella atypica (p&lt;0.05), and Veillonella sp. HOT-780 (p&lt;0.01, S-ECC). Lactobacillus acidophilus and Lactobacillus reuteri, both used as probiotic therapy species, were detected more frequently in caries-free children than those with ECC. Fastidious periodontal species, including Parvimonas micra, Aggregatibacter actinomycetemcomitans, Eubacterium brachy, Filifactor alocis (all p &lt;0.05), and Porphyromonas gingivalis (p&lt;0.01), were also more frequently detected in children with dental caries than in caries-free children. Other variables associated with ECC were race, dental visit, snacking (all p&lt;0.05), and visible dental plaque (p&lt;0.01). The oral microbiota of early periodontitis in young adults (N=141) was analyzed by whole genomic and oligonucleotide DNA probes, and PCR. Species detected more frequently in early periodontitis than periodontal health included Treponema denticola, F. alocis, Porphyromonas endodontalis, Bacteroidetes sp. HOT-274 (oral clone AU126), and A. odontolyticus (p&lt;0.01) by oligonucleotide DNA probes, and P. gingivalis (p&lt;0.001) and T. forsythia (p=0.03) by PCR. Subgingival samples exhibited a higher prevalence of periodontitis-associated species than samples from tongue surface, including A. actinomycetemcomitans, T. denticola, T. forsythia (all p&lt;0.05), and uncultivated TM7, Treponema, and Actinobaculum clones (all p&lt;0.05). P. gingivalis (p&lt;0.01) by PCR was associated with periodontal disease progression. Early periodontitis was associated with older age (p=0.01), male gender (p=0.04), and cigarette smoking (p=0.05). The role of bacterial subgroups in periodontitis was examined by studying the serotypeability of 313 genotyped clinical A. actinomycetemcomitans isolates (189 subjects). A total of 95 strains (30 subjects) remained non-serotypeable, although PCR revealed presence of the serotype- specific genes. The absence of the immunodominant serotype-specific antigen was confirmed by immunoblot assays. No major DNA rearrangement in the studied serotype-specific gene clusters was found. In summary, detection of previously cultured species and uncultivated phylotypes revealed the diversity of the oral microbiota in dental diseases and health already early in life. Bacterial species have insufficiently characterized subgroups that may have attributes to evade the host response. Molecular approaches used in this study enable comprehensive, culture-independent characterization of the oral microbiome that may in the future lead to identification of diagnostic bacterial profiles for dental diseases.