This work deals with the problem of microbial degradation of the waste materials from food industry. This work is focused on the production of technological significant enzymes producing by microorganisms, which were able to use the waste as a sole carbon source. In the first part of this work, the attention was focused on the production of pectolytic enzymes. This part was made within study interships in Slovak Academy of Sciences, department of Glycomics in Bratislava. The grape pomace as the waste form winegrowing was used as a sole carbon source for microbial growth and enzymes production. The production of pectolytic enzymes was tested on this waste. After screening the most suitable microorganisms was chosen with the highest production of polygalacturonase activity. Produced enzymes were isolated by extraction techniques, purified and then identified proteomically. The aim of the second part of this work was the waste water treatment containing lipids and lipolytic enzymes. The reason was the cooperation with the company constructing grease traps. The characterization of supplied commercial preparations was the subject of this work and the other reason was the characterization of conditions for lipases secreting by microorganisms, identification of microorganisms present in the commercial preparation and testing of new microbial cultures for the development of new preparation for the grease traps.

La tuberculose (TB) reste la maladie infectieuse la plus meurtrière au monde. L’absence de développement de médicaments accompagnée de l'émergence de la résistance aux molécules existantes se traduit principalement par l'échec du traitement et la mort. M. tb infecte l'homme par l'inhalation. Le patient peut rester en bonne santé sans aucun symptôme, on parle alors de tuberculose latente. Dans ce cas, la bactérie résider dans le macrophage. La principale caractéristique de M. tb est de rester cacher à l'intérieur de ces cellules, puis se réactiver lorsque le système immunitaire s’affaibli.Mon travail a été consacrée à l'étude de nouveaux analogues de Cyclophostin / Cyclipostins (CyCs) et Oxadiazolone. Nombreuses molécules présentaient des activités antibactériennes lorsque la bactérie était cultivée dans le milieu liquide ou à l'intérieur du macrophage sans aucun effet toxique sur les macrophages.En utilisant le meilleur inhibiteur de CyC17, nous avons identifié 23 protéines cibles potentielles, étant impliquées dans le métabolisme des lipides de M. tb et / ou dans la biosynthèse des lipides de la paroi cellulaire. Parmi ces cibles, Ag85C et TesA, ont été caractérisées biochimiquement et structurallemnent.De plus, nous avons établi que les CyC sont des inhibiteurs puissants et sélectifs de la croissance des mycobactéries. De manière intéressante, ces composés étaient également actifs contre de nombreuses souches cliniques de M. abscessus, un pathogène opportuniste également appelés « cauchemars pour les antibiotiques », ouvrant ainsi la voie à la recherche de solutions alternatives pour lutter contre les souches mycobactériennes résistantes. / Tuberculosis (TB) is one of the deadliest infectious diseases worldwide. The stagnation in drug development accompanied with the emergence of drug resistance mainly results in treatment failure and death. M. tb infect human through inhalation. Patient can remains healthy without any symptom in which case it is known as latent TB. In latent TB, the bacteria is known to be reside in the macrophage - a type of white blood cell of the immune system, that engulfs and digests infected microorganisms. The famous characteristic of M. tb is the ability to stay inside and avoid to be killed by these cells, then reactivate when the immune system is weak.My work was devoted to the study of two series of new compounds, namely analogs of Cyclophostin/Cyclipostins (CyCs) and Oxadiazolone (OXs). Many molecules exhibited antibacterial activities when the bacteria was grown in the liquid medium or inside the macrophage without any toxic effect to the macrophages.Using the best CyC17 inhibitor, we identified 23 potential candidate target proteins, being involved in M. tb lipid metabolism and/or in cell wall lipid biosynthesis. Among these targets, two important protein, i.e. Ag85C and TesA, were biochemically and structurally characterized.Moreover, we clearly established that the CyCs are powerful and selective growth inhibitors of mycobacteria, with no effect on Gram-negative or Gram-positive bacteria. Interestingly, these compounds were also active against numerous M. abscessus clinical strains, an opportunistic pathogens also called “nightmare for antibiotic”, thus opening the way to find alternative solutions to fight against resistant mycobacterial strains.

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In this thesis, optimization of production of lipolytic enzymes by submerzed cultivation of Bacillus subtilis (BS) was studied. Production of lipolytic enzymes was tested in three nutrient media, which differed mainly in main sources of carbon, respectively of nitrogen. The first medium contained mainly extract from calf brain and beef heart (BHIB), the second medium contained peptone and yeast extract (NB) and the third one contained peptone and yeast extract with the addition of 2% (w/v) glucose (NBG). The highest lipolytic activity (0.0784 Uml-1) was measured in NBG medium. Maximum of lipolytic activity was observed before the end of the exponential phase of BS growth in all the media. Temperature optimum in NBG medium was determined from 30 to 50 °C, pH optimum in the range of 5 to 11 and subsequently the temperature stability of lipolytic enzymes produced by the BS was estimated. The activity value was determined spectrometrically using p-nitrophenyllaurate as a substrate. Produced lipolytic enzymes showed maximum activity at 37 °C in the alkaline pH of 8.0. Measurement of temperature stability showed that lipolytic enzymes are relatively thermostable enzymes retaining 100 % of the activity even after 1 hour of cultivation at 30 - 50 °C. The presence of 1% (w/v) olive oil in medium NBG caused a decrease in lipolytic activity by 65 % as well as in pH from 6.5 to 5.4 after 14 days of cultivation. After substitution of glucose by fructose in medium NBG, lipolytic activity showed comparable values during the first week of cultivation. On the other hand, the decrease of lipolytic activity by 29 % in the medium with fructose was observed after 14 days of cultivation. A procedure for the identification of lipolytic enzymes of BS by peptide massfingerprinting was developed to understand the potential of synthetic polyester - poly(e-caprolactone) as a lipase inductor. Degradation study of commercial polyester poly(e-caprolactone) was carried out by submerged cultivation of Bacillus subtilis in NBG medium at initial pH 7.0 and 30 °C for 14 days. PCL (Mn = 10,000, Mw = 14 000) was studied in the form of films (1.0 x 1.0 cm), which were prepared by melt-pressing, rapid cooling of the melt to 4 °C and evaporation of the solvent from 2 % dichlormethane solution. The evaluation of the films shown occurrence of weight loss (7.8 - 17.0 wt.%) together with the formation of numerous holes and cracks in the sample surface in relation to the method of the films preparation. Lipolytic activity values increased by 9 - 17 % in the degradation media compared to control samples. Densitometric monitoring showed also higher increase in cell mass in the degradation medium compared with control samples. Based on the results obtained, the degradation process induced by BS could be suggested.

Les enzymes lipolytiques sont solubles en phase aqueuse mais hydrolysent des substrats insolubles. Leurs activités lipolytiques dépendent donc fortement de l’organisation des substrats lipidiques présents sous forme de structures interfaciales telles que des émulsions, des micelles, des liposomes, ou des bicouches lipidiques. Les propriétés cinétiques et la spécificité de substrat de ces enzymes résultent de l’étape initiale d’adsorption à l’interface lipide-eau et des interactions entre le substrat et le site actif. Dans le cadre de ce travail de thèse, la technique des films monomoléculaires a été utilisée pour étudier en détail les étapes séquentielles d’adsorption, de catalyse et d’inhibition de l’enzyme à l’interface lipide-eau. Dans une première partie, nous avons réalisé la caractérisation physico-chimique de la lipase gastrique de chien (DGL), avec l’étude :  de son adsorption sur un film non substrat de dilauroylphosphatidylcholine ; ‚ de l’hydrolyse interfaciale de la 1,2-dicaprine dans des films mixtes en présence d’Orlistat. Concernant l’étape de catalyse, nous avons étudié l’effet du propeptide sur la spécificité de substrat et l’activité interfaciale de la phospholipase A2 sécrétée de groupe X de souris. Enfin, dans une troisième partie, nous avons comparé les propriétés interfaciales de la lipase YLLIP2 de la levure Yarrowia lipolytica qui serait un bon candidat pour l’enzymothérapie de substitution chez les patients atteints d’insuffisance pancréatique exocrine (IPE), la lipase pancréatique humaine et la DGL. Nos résultats ont confirmé le rôle d’YLLIP2 en tant qu’excellent « substitut » non seulement de la HPL en cas d’IPE, mais aussi de la DGL. / Lipolytic enzymes are water-soluble whereas their substrates are insoluble in water. Their lipolytic activities depend strongly on the organization of the lipid substrates present in interfacial structures such as oil-in-water emulsions, micelles, liposomes, and membrane bilayers. The kinetic properties and substrate specificity of these enzymes result from both their adsorption at the lipid-water interface, and the interactions occurring between the substrate and the active site. In this thesis work, the monomolecular film technique was used to study in details the sequential steps of adsorption, catalysis and inhibition of model enzymes at the lipid-water interface. In a first part, we performed the physico-chemical characterization of the dog gastric lipase (DGL), by studying:  its adsorption onto a dilauroylphosphatidylcholine non-substrate film; ‚ its interfacial hydrolysis of 1,2-dicaprin in mixed films with various amounts of Orlistat. Regarding the catalysis step, we studied the effect of the propeptide on the substrate specificity and interfacial activity of the murine group X secreted phospholipase A2. A model of this enzyme with its propeptide was built from the available 3D structure of the corresponding mature human enzyme. Finally, in the third part, we compared the interfacial kinetic properties of YLLIP2 lipase of the yeast Yarrowia lipolytica which has been identified as a good candidate for enzyme replacement therapy for patients with exocrine pancreatic insufficiency (EPI), human pancreatic lipase and DGL. Our results confirmed the role of YLLIP2 as an excellent "substitute" not only for HPL in case of PEI, but also for the DGL at acidic pH values.

The theoretical part of work is focused on the issue of biomass which can be used for energy purposes, inparticular agricultural waste, as well as can serve as a substrate for biogas station. It also deals with proteomics, its goals and approaches, separation methods. The aim of this work was to measure each sample of enzyme activity of biomass, which are used as a raw materials for biogas plants and their proteomic identification.