La Prodigiosine est un métabolite secondaire de couleur rouge produit principalement par la bactérie Serratia marcescens. Cette molécule, de structure tripyrrolique, présente des activités antitumorales, immunosuppressives, antibiotiques, antifongiques et antipaludiques. Ses nombreuses activités en font un composé potentiellement intéressant pour des applications thérapeutiques. Notre équipe a développé une méthodologie de synthèse basée sur la réactivité de dérivés pyrroliques vis-à-vis des nitrones et des N-hydroxylamines pour mener sélectivement à des structures dipyrrométhanes et dipyrrométhènes. Cette méthodologie a été le point de départ de la première étude de ce manuscrit. Nous avons ainsi développé une voie d'accès vers la synthèse d'analogues de la Prodigiosine. Ces derniers, substitués en position méso, n'ont jamais fais l'objet d'étude. Pour cela, il a fallu développer une voie d'accès au 4-méthoxy-2,2'-bipyrrole, précurseur principal de la Prodigiosine. Nous avons également mis au point une voie d'accès à des 2,2'-bipyrroles dissymétriques. Ces derniers sont des briques élémentaires utilisés en chimie des porphyrines étendues. Ces macrocycles pyrroliques trouvent des applications dans de nombreux domaines allant des polymères conducteurs aux cristaux liquides en passant par des applications biologiques. Notre méthodologie permet la formation de bipyrroles en six étapes, à partir de substrats facilement accessibles, avec des rendements globaux pouvant atteindre 20 %. Cette méthode a également été étendue à la synthèse du motif terpyrrole. / Prodigiosin is a secondary metabolite mainly produced by Serratia marcescens. This red pigment possessing a tripyrrolic structure, shows antitumor, immunosuppressive, antibiotic, antifungal and anti-malarial activities. These activities make it a valuable compound for therapeutic applications. Our team has developed a synthetic methodology based on the addition of pyrroles onto nitrones and N-hydroxylamines to afford selectively either dipyrromethanes or dipyrromethenes. This methodology has been the starting point of the first study in this manuscript. We have developed a pathway for the synthesis of Prodigiosin's analogues. These analogues, substituted in meso position, have never been studied. In the first stage, it was necessary to develop a synthetic sequence leading to the 4-methoxy-2, 2'-bipyrrole, a precursor of Prodigiosin. We also developed a sequence allowing access to unsymmetrical 2,2'-bipyrroles. These building blocks are used in the chemistry of expanded porphyrins. These pyrrole macrocycles show applications in many fields like conductive polymers, liquid crystals and other biological applications. Our methodology allows the formation of bipyrroles in six steps from readily available substrates with overall yields of up to 20%. This method has also been extended to the synthesis of terpyrrole.

Serratia sp. ATCC 39006 (S39006) is a Gram-negative bacterium that is virulent in plant (potato) and animal (Caenorhabditis elegans) models. It produces two secondary metabolite antibiotics, prodigiosin and a carbapenem, and the plant cell wall degrading exoenzymes, pectate lyase and cellulase. A complex regulatory network controls production of prodigiosin, including a quorum sensing (QS) system, and the role of post-transcriptional regulation was investigated. It was hypothesized that Hfq-dependent small regulatory RNAs (sRNAs) might also play a role. Hfq is an RNA chaperone involved in post-transcriptional regulation that plays a key role in stress response and virulence in other bacterial species. An S39006 ∆hfq mutant was constructed and in the mutants production of prodigiosin and carbapenem was abolished, while production of the QS molecule, butanoyl homoserine lactone (BHL), was unaffected. Using transcriptional fusions, it was found that Hfq regulated the QS response regulators, SmaR and CarR. Additionally, exoenzyme production and swimming motility were decreased in the ∆hfq mutant, and virulence was attenuated in potato and C. elegans. It was also shown that the phenotype of an hfq mutant is independent of its role in regulating the stationary phase sigma factor, rpoS. In order to define the complete regulon of Hfq and identify relevant potential sRNAs, deep sequencing of strand-specific cDNAs (RNA-seq) was used to analyse the whole transcriptome of S39006 WT and the ∆hfq mutant. The regulon of another post-transcriptional regulator, RsmA, also involved in regulating prodigiosin production, was investigated by performing RNA-seq on an rsmA mutant. Moreover, global changes in the proteome of the hfq mutant was analysed using an LC-MS/MS approach with isobaric tags for relative and absolute quantification (iTRAQ). This study confirms a role for Hfq in pathogenesis and the regulation of antibiotic production in S39006, and begins to provide a systems-level understanding of Hfq and RsmA regulation using a combination of transcriptomics and proteomics.

<p dir="ltr"><i>Serratia marcescens </i>is a bacterium with a ubiquitous environmental distribution and the ability to cause opportunistic infections. This research explores three different group behaviors in <i>S. marcescen</i>s. These are biofilm formation, microbial hitchhiking, and responses to cannabinoid-induced stress. To study biofilm development, we used a crystal violet assay to measure biofilm and compared that to the bacterial growth of those cultures. We looked at the role of nutrients and temperature in biofilm produced by <i>S. marcescens</i> and tested four <i>S. marcescens</i> strains. We found that there were differences in the ratio of biofilm to growth when <i>S. marcescens</i> was grown in different media. The exact relationship between temperature and media composition requires more information than could be attained from these studies. Next, we wanted to investigate whether <i>S. marcescens</i> could also utilize movement of other, more highly motile species of bacteria through a process called microbial hitchhiking. <i>S. marcescens</i> was grown with a highly motile <i>Paenibacillus</i> sp. isolate. <i>S. marcescens</i> was tracked by the red pigment that it produces. It was observed that <i>S. marcescens</i> consistently spread farther across a surface when it was co-cultured with <i>Paenibacillus</i> sp. than when grown alone. This was repeated with three other <i>S. marcescens</i> strains and three different species of <i>Paenibacillus.</i><i> </i>Hitchhiking behavior was observed in all cases. To understand the mechanism by which <i>S. marcescens</i> hitchhikes on <i>Paenibacillus </i>spp., a <i>S. marcescens </i>flagellar mutant was used. Even in the absence of a flagellum, <i>S. marcescens</i> was still able to hitchhike implying that another mechanism must be involved. Finally, we evaluated the response of <i>S. marcescens </i>to cannabidiol (CBD) a phytocannabinoid with antimicrobial and antibiofilm properties, though it has limited potency against Gram-negative bacteria like <i>S. marcescens</i>. We found that CBD did not kill <i>S. marcescens </i>nor did it affect its biofilm development. Interestingly, <i>S. marcescens </i>cultures showed enhanced pigment production in response to high-dose CBD exposure compared to vehicle controls. This response was also observed with exposure to three additional phytocannabinoids. Results from these studies add to our understanding of how <i>S. marcescens</i> can access new areas and persist in a broad range of environments.</p>

Serratia sp. ATCC 39006 (S39006) is known for producing carbapenem and prodiginine antibiotics; 1-carbapen-2-em-3-carboxylic acid (car) and prodigiosin. It displays different motility mechanisms, such as swimming and swarming aided by flagellar rotation and biosurfactant production. In addition, S39006 produces gas vesicles to float in aqueous environments and enable colonization of air-liquid interfaces. Gas vesicles are thought to be constructed solely from proteins expressed from a gene cluster composed of two contiguous operons, gvpA1-gvpY and gvrA-gvrC. Prior to this study, three cognate regulators, GvrA, GvrB, and GvrC, encoded by the right hand operon were known to be essential for gas vesicle synthesis. Post-transcriptional regulators such as RsmA-rsmB were also known to be involved in the inverse regulation of gas vesicles and flagella based motility. Furthermore, gas vesicle formation, antibiotic production, and motility in S39006 were affected by cell population densities and de-repressed at high cellular densities through a quorum sensing (QS) system. The aim of this research study was to identify novel regulatory inputs to gas vesicle production. Mutants were generated by random transposon mutagenesis followed by extensive screening, then sequencing and bioinformatic identification of the corresponding mutant genes. After screening, 31 mutants and seven novel regulatory genes impacting on cell buoyancy were identified. Phenotypic and genetic analysis revealed that the mutations were pleiotropic and involved in cell morphology, ion transport and central metabolism. Two new pleiotropic regulators were characterized in detail. Mutations in an ion transporter gene (trkH) and a putative transcriptional regulator gene (floR) showed opposite phenotypic impacts on flotation, flagella-based motility and prodigiosin, whereas production of the carbapenem antibiotic was affected in the transcription regulator mutant. Gene expression assays with reporter fusions, phenotypic assays in single and double mutants, and proteomics suggested that these regulatory genes couple different physiological inputs to QS and RsmA-dependent and RsmA-independent pathways.

Ces travaux ont été réalisés en collaboration avec le groupe du professeur William Skene. / Le couplage des aldéhydes aryliques et des amines pour donner les azométhines est une alternative intéressante pour la synthèse des comonomères conjugués. Contrairement aux techniques de couplage classiques qui conduisent à des mélanges de produits, il est possible, par cette méthode, d’obtenir sélectivement des composés ciblés et dissymétriques tout en contrôlant la stœchiométrie des réactifs et les solvants. Dans le cadre de nos recherches sur les matériaux fonctionnels ayant des propriétés électrochromiques améliorées, nous avons planifié de conjuguer des thiophènes et des bipyrroles dissymétriques par les liaisons azométhines. Tout d’abord des analogues des 4-méthoxy-2,2’-bipyrroles 1-2 (chapitre 2) et 3-6 (chapitre 3) ont été synthétisés par une voie générale à partir de 4-hydroxyproline et convertis ensuite en dialdéhydes 8-13 (chapitre 3) qui, à leur tour, ont subit des condensations avec différents aminothiophènes pour donner les azométhines conjugués 17-23 (chapitre 3). / The condensation of amine and aldehyde functional groups is an attractive strategy for the synthesis of conjugated, conductive polymers. Unlike conventional coupling techniques that give a mixture of products, selective product formation affording unsymmetric products is possible by controlling the reagent stoechiometry and solvents. A series of such polymers 17-23 (chapter 3) were synthesized by the dehydration of aminothiophenes and a series of asymmetric bisaldehydes 8-13 (chapter 3) featuring an asymmetric 4-methoxy-2,2'-bipyrrole core. The latter was constructed by a general route from 4-hydroxyproline providing derivatives 1-2 (chapter 2) and 3-6 (chapter 3), which were diformylated in the last step to afford the bisaldehyde monomers 8-13 (chapter 3). In the search for functional materials, the electrochromic properties of polymers 17-23 (chapter 3) were evaluated.

Le couplage des aldéhydes aryliques et des amines pour donner les azométhines est une alternative intéressante pour la synthèse des comonomères conjugués. Contrairement aux techniques de couplage classiques qui conduisent à des mélanges de produits, il est possible, par cette méthode, d’obtenir sélectivement des composés ciblés et dissymétriques tout en contrôlant la stœchiométrie des réactifs et les solvants. Dans le cadre de nos recherches sur les matériaux fonctionnels ayant des propriétés électrochromiques améliorées, nous avons planifié de conjuguer des thiophènes et des bipyrroles dissymétriques par les liaisons azométhines. Tout d’abord des analogues des 4-méthoxy-2,2’-bipyrroles 1-2 (chapitre 2) et 3-6 (chapitre 3) ont été synthétisés par une voie générale à partir de 4-hydroxyproline et convertis ensuite en dialdéhydes 8-13 (chapitre 3) qui, à leur tour, ont subit des condensations avec différents aminothiophènes pour donner les azométhines conjugués 17-23 (chapitre 3). / The condensation of amine and aldehyde functional groups is an attractive strategy for the synthesis of conjugated, conductive polymers. Unlike conventional coupling techniques that give a mixture of products, selective product formation affording unsymmetric products is possible by controlling the reagent stoechiometry and solvents. A series of such polymers 17-23 (chapter 3) were synthesized by the dehydration of aminothiophenes and a series of asymmetric bisaldehydes 8-13 (chapter 3) featuring an asymmetric 4-methoxy-2,2'-bipyrrole core. The latter was constructed by a general route from 4-hydroxyproline providing derivatives 1-2 (chapter 2) and 3-6 (chapter 3), which were diformylated in the last step to afford the bisaldehyde monomers 8-13 (chapter 3). In the search for functional materials, the electrochromic properties of polymers 17-23 (chapter 3) were evaluated. / Ces travaux ont été réalisés en collaboration avec le groupe du professeur William Skene.