Os antibióticos aminoglicosídeos adquiriram uma posição relevante no cenário terapêutico devido ao interesse na regulação da síntese protéica bacteriana em nível de RNA, uma vez que são ligantes inespecíficos para diversos tipos de RNA bacterianos, como RNA mensageiro, RNA transportador e RNA ribossômico. Esta classe de antibióticos apresenta amplo espectro de ação, particularmente contra bactérias Gram-negativas. Recente abordagem estende o uso dos antibióticos aminoglicosídeos como agentes antivirais devido a sua afinidade de ligação ao RRE-, Rev Responsive Element, e TAR-, Trans-Acting Responsive sequence HIV RNA. Por conseguinte, há uma inibição competitiva envolvendo seus correspondentes ligantes naturais, as proteínas Rev e Tat, interrompendo a replicação, do vírus HIV-tipo 1. Em virtude da importância de derivados simplificados dos antibióticos aminoglicosídeos na busca por derivados vestíbulo-tóxico seletivos ou RNA-ligantes, o presente trabalho propõe a síntese do amino- e carba-açúcar 2-desoxiestreptamina, 16, a qual apresenta um desafio sintético interessante devido à presença de cinco centros estereogênicos contínuos com substituintes em relação trans no anel e pode ser utilizada na construção de moléculas mais complexas A estratégia sintética proposta para preparação do composto meso 2-desoxiestreptamina (16), envolve metodologia inédita e foi desenvolvida em duas rotas sintéticas: (i) preparação do carba-açúcar precursor 46 e (ii) preparação de 16 propriamente dito. / Aminoglycoside antibiotics received a relevant position in the therapeutic scenario due to the interest in the regulation of bacterial protein synthesis at the RNA-level, since they are a unspecific ligands to several bacterials RNA types, such as mRNA, tRNA and rRNA. These types of antibiotics show a broad spectrum of activity, particulary against gram negative bacteria. New approach extends the use of aminoglycosides as antiviral agents owing to their binding affinity to RRE- Rev Responsive Element and TAR- Trans-Acting Responsive sequence of HIV RNA. Thus, there is a competitive inhibition involving their corresponding natural ligands Rev and Tat proteins, disrupting the HIV-1 virus replication. Regarding the importance of simplified aminoglycoside antibiotics in the search for selective vestibule-toxic derivatives or RNA-ligands, this work focuses on the synthesis of the amino- and carba-sugar 2-deoxyestreptamine, 16, which has an interesting synthetic challenge related to the presence of five continuous stereogenic centre with substituents in trans disposition in the ring, and may be employed in the construction of more complex molecules. The synthetic strategy proposed to prepare meso 2-deoxyestreptamine (16) involves a new methodology and was performed in two synthetic routes: (i) the synthesis of precursory carba-sugar (46) and (ii) the synthesis of (16) properly.

Este trabalho propõe estudos sobre a caracterização do comportamento térmico dos aminoglicosídeos estreptomicina e tobramicina, que são antibióticos bactericidas, utilizados no combate a microorganismos patogênicos, que agem interrompendo a síntese de proteínas. Após a caracterização espectroscópica dos analitos, foram realizadas medidas termogravimétricas, em atmosfera de ar e nitrogênio, que possibilitaram a determinação da estabilidade térmica do fármaco e o reconhecimento das etapas de decomposição. A calorimetria exploratória diferencial forneceu informações a respeito de processos físicos com variação de entalpia. Os gases envolvidos foram analisados usando termogravimetria acoplada à espectroscopia vibracional na região do infravermelho (TG-FTIR), possibilitando a proposta de um mecanismo para sua decomposição térmica. Intermediários de decomposição térmica foram caracterizados por CG-MS e o conjunto de todas essas informações forneceu um possível mecanismo para o comportamento térmico dessas drogas. Também foi sintetizado, caracterizado e analisado por TG, DSC e TG-FTIR, o complexo de tobramicina com o íon Cu+2. / A study regarding the thermal behavior characterization of the aminoglycosides streptomycin and tobramycin which are bactericidal antibiotics is presented. These antibiotics are widely against pathogenic microorganisms and act by interrupting the synthesis of proteins. Thermogravimetric measurements were performed under air and nitrogen conditions. To evaluate thermal stability of the drugs and their decomposition steps. A differential scanning calorimetry provided information on physical processes with enthalpy change. Evolved gas analysis was performed using thermogravimetry coupled to infrared spectroscopy (TG-FTIR), and was used to characterize the gases released during the thermal heating of the samples. Decomposition intermediates were characterized by CG-MS and the set of all these resultsallowed the proposition of a mechanism for the thermal behavior of drugs. The complex of tobramycin with the Cu+2 ion was also synthesized, characterized and analyzed by TG, DSC and TG-FTIR.

Cost containment measures within hospital systems push for earlier discharges on stable patients. Due to patient placement difficulties and costs associated with skilled facilities, antibiotic use in home health care settings is becoming a common occurrence. This trend will likely increase as care continues to shift to outpatient areas. Lack of sufficient serum drug concentrations needed in severe infections and increasing resistance to many of the oral options often necessitates the use of the intravenous (IV) route. Home health care practitioners may have minimal information on patients or limited experience with IV antibiotics that may impact quality of care. This review summarizes key points relevant to IV antibiotics routinely used by home health prescribers, nurses, technicians, and care managers. This review will focus on antibacterial agents including vancomycin, aminoglycosides, beta-lactams, daptomycin, tigecycline, and telavancin. Appropriate dosing, indications, adverse events, monitoring parameters, and feasibility of using IV antibiotics are discussed.

Les concentrations sous-inhibitrices (sub-CMI) de antibiotiques jouent un rôle important dans la sélection et le développement des résistances. Contrairement à Escherichia coli, Vibrio cholerae induit la réponse SOS en présence de sub-CMI d'aminosides. SOS est également impliquée dans la plasticité du génome et dans l'acquisition de la résistance aux antibiotiques. Afin de sélectionner des mutants de V. cholerae qui n'induisent pas SOS en présence de sub-CMI d'aminosides, nous avons développé un crible génétique pour l'isolement de mutants dans lesquels l'induction de la réponse SOS est perdue. L'un de ces mutants est inactivé pour le gène radD, qui code pour une hélicase ADN/ARN putative. RadD est impliquée dans la résolution de cassures d'ADN double brin (DSB) provoquées par des sub-CMI de tobramycine. Nous avons montré que les R-loops sont à l'origine des DSB formés en absence de radD en tobramycine. Nous suggérons que les lésions de l'ADN formées lors du traitement par aminoglycosides soient réparées par la formation d'intermédiaires ssDNA induisant SOS. L’ARNPol bloquée sur ces lésions peut faciliter la formation de R-loops qui, si elles ne sont pas réparées, peuvent entraîner la formation de DSB et l'instabilité du génome. RadD pourrait jouer un rôle dans la résolution des R-loops. Ces résultats ont mis en évidence le fait que les sub-CMI de tobramycine conduisent à DSB, dues en partie aux R-loops. La tobramycine est un aminoside qui cible le ribosome. La formation de DSB par un tel antibiotique peut être surprenante car la formation de lésions de l'ADN par un antibiotique qui cible la traduction n'est pas attendue. Afin de comprendre les voies impliquées dans la réponse à de sub-CMI de tobramycine, nous avons adopté une approche Tn-seq à haut débit pour déterminer quels gènes sont importants pour maintenir l'intégrité de la cellule en présence d'antibiotiques à faibles doses. / Sub-inhibitory concentrations (sub-MIC) of antibiotics play an important role in selection and development of resistances. Unlike Escherichia coli, Vibrio cholerae induces its SOS response in presence of sub-MIC aminoglycosides. SOS is also involved in genome plasticity and in the acquisition of resistance to antibiotics. In order to select for V. cholerae mutants that do not induce low aminoglycoside-mediated SOS induction, we developed a genetic screen for the isolation of mutants in which induction of the SOS response by sub-MICs of aminoglycosides is lost. One of these mutants is inactivated for the radD gene, which encodes a putative DNA/RNA helicase. RadD is involved in the resolution of double strand DNA breaks caused by treatment with sub-MIC of tobramycine. We demonstrate that R-loops are at the origin of DSBs formed in the absence of radD in tobramycine.We propose that DNA lesions formed upon aminoglycoside treatment are repaired through the formation of ssDNA intermediates, inducing SOS. RNAP could stalls on these lesions and forms R-loops, that, if not repaired, can lead to the formation of DSB and genome instability. RadD could play a role in the resolution of R-loops. These results highlighted the fact that sub-MIC of tobramycine leads to DNA double strand breaks, at least partly through R-loop formation. Tobramycin is an aminoglycoside that targets the ribosome. The formation of DSBs by such an antibiotic can be surprising as DNA damage formation by an antibiotic that targets translation is not expected. In order to understand the pathways involved in the response to low doses of tobramycin we adopted a high throughput Tn-seq approach to determine which genes are important in maintaining the integrity of the cell in the presence of antibiotics at low doses.

The work presented in this thesis details the synthetic modification of the clinically important aminoglycoside antibiotics, neomycin B, paromomycin and tobramycin. We sought to modify aminoglycosides by attaching lipophilic groups, including fatty acids and steroids, with a view to improving the bacterial membrane permeability of these species, and ultimately their efficacy in the treatment of tuberculosis. Our initial synthetic strategy involved direct and specific functionalization of the singular primary hydroxyl group of the aminoglycoside antibiotic neomycin B, with lipophilic groups containing carboxylic acid functions via Mitsunobu esterification. Although, direct and selective Mitsunobu acylation of the primary hydroxyl group proved unsuccessful in the case of the pseudo tetrasaccharide neomycin B, the Mitsunobu reaction did however result in selective chemistry elsewhere in the molecule and this has been exploited for modification of the ido (ring IV) and streptamine (ring II) ring systems. Under carefully controlled conditions, the Mitsunobu reaction has been used for the selective dehydration of the ido ring, to give the talo epoxide, and, under more forcing Mitsunobu dehydration conditions, an aziridine function has been introduced into the streptamine moiety. Both the epoxide and the epoxide-aziridine neomycin building blocks were utilized as synthons in subsequent chemical transformations. Seventeen novel neomycin derivatives featuring modification of ring IV and/or ring II were obtained using this approach. Explicit structural elucidation of all the synthetic intermediates and the final products was achieved using high temperature NMR spectroscopy. Direct and specific functionalization of the singular primary hydroxyl group at the C5 position of the ribose ring (ring III) of neomycin B was achieved, via a procedure based in part on selective tripsylation of the C5III primary hydroxyl group of neomycin B reported previously, followed by subsequent displacement of the tripsyl group by azide. Terminal alkyne containing lipophilic esters were then successfully attached to the ribose residue of neomycin B via Cu(I)-mediated azide-alkyne coupling reaction. In addition to the isolation of two fortuitous, new and versatile synthons i.e. monoanhydro neomycin and bis-anhydro neomycin for modification of ring IV and ring II of neomycin, a third synthon based on neomycin framework, allowing stepwise modification of ring III and ring IV was designed and synthesized. This synthon features an epoxide function in the ido ring, and a protected amine function at the C5 position of the ribose ring. Examples of the stepwise use of this synthon for further synthetic modification of the neomycin framework were demonstrated. Fourteen novel neomycin derivatives featuring modification of ring III and /or ring IV were obtained and characterized. Regioselective Mitsunobu esterification of the single primary hydroxyl group of the pseudo trisaccharide tobramycin was utilized successfully to link a variety of hydrophobic esters with tobramycin. Nine lipophilic tobramycin derivatives with significant structural diversity were synthesised and characterized. In a preliminary study, the applicability of the Mitsunobu dehydration reaction for the regioselective formation of an epoxide ring in the ido moiety of the pseudo tetrasaccharide aminoglycoside antibiotic paromomycin system was confirmed. The regioselective ring-opening of the derived epoxide with azide at C3IV of paromomycin was also successfully demonstrated. In total, forty-two new potential aminoglycoside antibiotics have been synthesized and characterized.

La résistance aux antibiotiques apparaît aujourd'hui comme un problème majeur de santé publique, en particulier à cause de l'apparition de souches de bactéries multirésistantes par production d'enzymes de modification de ces antibiotiques. Nous avons étudié une de ces enzymes de résistance, l'AAC(6')-Ib conférant la résistance aux aminoglycosides, antibiotiques à large spectre utilisés principalement en milieu hospitalier pour lutter contre des infections sévères. Deux variants de cette enzyme se sont répandus dans les souches cliniques résistantes : le premier confère une résistance élargie à tous les aminoglycosides, le second confère une résistance élargie à une autre classe d'antibiotiques, les fluoroquinolones. Nous avons résolu la structure de l'enzyme sauvage et du premier variant par cristallographie aux rayons X. Nous avons également modélisé la structure du deuxième variant. Ces structures nous ont permis d'apporter une explication possible sur l'adaptation de cette enzyme aux différents antibiotiques. En parallèle, nous avons réalisé un criblage de ligands de cette enzyme par RMN à flux continu robotisé. Nous avons pu isoler plusieurs motifs se fixant dans le site actif de l'enzyme constituant des pistes intéressantes dans la conception d'inhibiteurs de l'activité enzymatique.

<p>Poly(A) polymerase (PAP) is the enzyme catalyzing the synthesis of the adenine tail to the 3’-end of mRNA. This A-tail is present on the majority of the primary RNA transcripts of protein-coding genes, and is important for mRNA stability, export to the cytoplasm and translation. Therefore, PAP is a key regulator of eukaryotic gene expression. This thesis describes the heterogeneity of PAP and the functional significance of multiple isoforms of PAP. </p><p>PAP exists in many different isoforms generated by three different mechanisms, gene duplication, alternative mRNA processing and post-translational modification. In HeLa cell extracts three different forms of PAP being 90, 100 and 106 kDa in size have been detected, where the 106 kDa isoform is a phosphorylated version of the 100 kDa species. It is shown that the N-terminal region of PAP contains a region required for catalysis, while the C-terminal end is important for the interaction with the cleavage and polyadenylation specificity factor (CPSF). Interestingly, it was found that also the extreme N-terminal end is important for the interaction with CPSF. This region is post-translationally modified by phosphorylation. Five alternatively spliced forms of PAP mRNAs are encoded by the PAPOLA gene while one unique species is encoded by the PAPOLG gene. The analysis showed that the exact structure of the alternatively spliced C-terminal end of PAP played an important role for catalytic efficiency. Thus, the C-terminal end contains a region important for modulating the catalytic efficiency of PAP.</p><p>Aminoglycoside antibiotics inhibit PAP activity, most likely by displacement of catalytically important divalent metal ions. Data shows that different aminoglycosides inhibit PAP activity by different mechanisms suggesting that the binding sites for the different aminoglycosides do not completely overlap. It is concluded that aminoglycosides interfere with enzymes important for housekeeping functions in mammalian cell, which may explain some of the toxic side effects caused by aminoglycoside antibiotics in clinical practice.</p>

Graduation date: 1998

Les ARN constituent des cibles thérapeutiques extrêmement intéressantes bien qu'encore assez peu exploitées. En effet, les obstacles pour la conception de ligands spécifiques de ces cibles non traditionnelles, polyanioniques et très flexibles, sont encore loin d'être levés. Les aminoglycosides, utilisés depuis longtemps pour leurs propriétés antibiotiques, sont souvent décrits comme des " ligands universels " d'ARN. Leur structure constitue donc une architecture favorable pour l'élaboration de nouveaux ligands spécifiques des ARN.Le but de cette thèse a été de développer une méthode systémique originale combinant chimie organique et microbiologie pour synthétiser de nouvelles molécules de structure analogue aux aminoglycosides, se fixant de façon spécifique sur des cibles ARN. Ce travail repose sur la compréhension récente des voies de biosynthèse des aminoglycosides permettant leur ingénierie rationnelle selon une stratégie de mutasynthèse. Cette approche expérimentale s'appuie sur la conception de mimes de métabolites naturels pouvant être transformés par des bactéries génétiquement modifiées. Le développement de méthodologies novatrices en ingénierie métabolique, synthèse organique et chimie analytique nous a permis de concevoir des analogues d'aminoglycosides fluorés qui se sont avérées être d'excellentes sondes dans l'étude des ARN par RMN du fluor.

Poly(A) polymerase (PAP) is the enzyme catalyzing the synthesis of the adenine tail to the 3’-end of mRNA. This A-tail is present on the majority of the primary RNA transcripts of protein-coding genes, and is important for mRNA stability, export to the cytoplasm and translation. Therefore, PAP is a key regulator of eukaryotic gene expression. This thesis describes the heterogeneity of PAP and the functional significance of multiple isoforms of PAP. PAP exists in many different isoforms generated by three different mechanisms, gene duplication, alternative mRNA processing and post-translational modification. In HeLa cell extracts three different forms of PAP being 90, 100 and 106 kDa in size have been detected, where the 106 kDa isoform is a phosphorylated version of the 100 kDa species. It is shown that the N-terminal region of PAP contains a region required for catalysis, while the C-terminal end is important for the interaction with the cleavage and polyadenylation specificity factor (CPSF). Interestingly, it was found that also the extreme N-terminal end is important for the interaction with CPSF. This region is post-translationally modified by phosphorylation. Five alternatively spliced forms of PAP mRNAs are encoded by the PAPOLA gene while one unique species is encoded by the PAPOLG gene. The analysis showed that the exact structure of the alternatively spliced C-terminal end of PAP played an important role for catalytic efficiency. Thus, the C-terminal end contains a region important for modulating the catalytic efficiency of PAP. Aminoglycoside antibiotics inhibit PAP activity, most likely by displacement of catalytically important divalent metal ions. Data shows that different aminoglycosides inhibit PAP activity by different mechanisms suggesting that the binding sites for the different aminoglycosides do not completely overlap. It is concluded that aminoglycosides interfere with enzymes important for housekeeping functions in mammalian cell, which may explain some of the toxic side effects caused by aminoglycoside antibiotics in clinical practice.