MSc (Microbiology) / Department of Microbiology / Background: The occurrence of microorganisms and endocrine disrupting chemicals (EDCs) in water poses a serious concern due to their effects on humans, animals and environment. In recent years, EDCs have been increasingly reported in rivers that receive large amounts of wastewater effluents. Of all the EDCs, natural and synthetic hormones are among those that are recognized for their potential to mimic or interfere with normal hormonal functions of humans and animals. The present study aimed at assessing the occurrence of these hormones in relation to the molecular diversity of Aeromonas and evaluating the resistance of Aeromonas to antibiotics as well as to assess anti-bacterial activity of two selected traditional medicinal plants. Methods: Wastewater, water and fish samples were collected from various sources (rivers, wastewater treatment plants, taps, and dams) for the detection of hormones and isolation of Aeromonas species. The analysis of hormones from various organs of the fish and from water samples was conducted, after extraction using enzymelinked immunosorbent assays (ELISA). Different types of hormones including Estriol, Estradiol, Ethinylesradiol and Testosterone were detected, and their concentrations determined. Aeromonas spp were isolated rom the samples using microbiological methods and Conventional PCR was used for genotyping as well as for detection of the beta-lactamase genes. Kirby-bauer method was used to determine the susceptibility profiles of Aeromonas to different antibiotics. Microdilution assay was used to determine the Anti-bacterial activity of the plant (Annoniceae and Zornia milneana) extracts against Aeromonas species. Results: A total of 144 samples were collected from 23 different locations in two countries: South Africa and Zambia. These included wastewater and treated wastewater, River water, fish and tap water. 17α-ethinylestradiol (EE2) was detected in most of the samples (92.7%) with concentrations varying from 0.59 ng/ml to 65 ng/ml. The hormones were also detected from drinking water, with testosterone detected at high concentrations of up to 140 ng/ml in tap water. Most sewage treatment plants were not able to remove the EE2 from the wastewater as the concentration of this hormone in the final effluent was almost always higher than that in the influent. These homones were also detected in drinking water at high concentrations of up to 53.49 ng/ml in the tap water for EE2 and 1777 ng/ml for E2. The overall detection of Aeromonas species in the samples was 84.5%. A. caviae was the most prevalent species accounting for 73.6%, followed by A. veronii with 64.6%. The bacteria were completely resistant to cefuroxime accounting for 100% resistance. Aeromonas isolates also showed high resistance to trimethroprim (88.7% for A. hydrophila), cefazolin (highest 97.8% for A. cavie), and ceftazidime (83.9% for A. sobria). TEM was the most prevalent beta-lactamase gene with detection rate of 87%. All isolates lacked the presence of the CTX-M3 gene. Also, wastewater had the highest prevalence of A. veronni and A. caviae accounting for 87.5% and 82.5% respectively. Multiple antibiotic resistance was also observed with the Aeromonas isolates being resistant to up to 11 antibiotics. High prevalence of 77.1% of Aeromonas hydrophila was observed in the presence of ethinylestradiol (EE2). Aeromonas veronii and Aeromonas caviae were the most predominant species in the presence of total estriol, A. veronii had a prevalence of 57.1% and A. caviae had a prevalence of 52.8%. Aeromonas hydrophila and Aeromonas caviae had the lower prevalence in the presence of hormones with the percentages of 26.1% and 27.8% respectively. The methanol extracts of both Zornia milneana and Annona species showed good activity against the Aeromonas spp with the lowest MIC of 0.078 mg/ml. Ethyl acetate extracts were the least effective. Conclusion: This study has shown high occurrence of steroid hormones in all types of environmental samples tested. These included tap water, river water, wastewater and fish both in Zambia and South Africa. Therefore, steroid hormones constitute and important health problem in the Southern African Sub-Region. The incapacity of the wastewater treatment plants to remove EE2 is an important problem that needs to be tackled immediately. The prevalence of Aeromonas species is very high in our environmental water as well as in drinking water, with the highest prevalence observed in fish and wastewater. It was also revealed that there is relationship between steroid hormones and Aeromonas species, with the hormones supporting the growth of Aeromonas species. The presence of beta-lactamase genes which causes Aeromonas to be resistant to antibiotics was also noted. Methanol extracts of Zornia milneana and Annona spp were the most effective against Aeromonas spp and could serve as primary sources for the isolation of lead compounds. / NRF

MSc (Microbiology) / Department of Microbiology / BACKGROUND: Antibiotic resistance amongst microbial pathogens has become a challenge over past decades, bringing about genuine and frequently deadly contaminations that can't be dealt with by ordinary means. This has led to a search on developing solutions to this problem by searching for new source of antimicrobial agents or chemically altering the existing ones. Traditional medicinal plants and nanoparticles are highly targeted as promising agents to address the challenge. Pyrenacantha grandiflora Baill from Icacenaceae family possess pharmaceutical activities and is used by Vhavenda people to cure gastrointestinal related infections, diarrhea and tooth pain. OBJECTIVES: The present study aimed to synthesize, characterize and evaluate the efficacy of Pyranacantha grandiflora extracts alone and when conjugated with selected nanoparticles against pathogenic microorganisms. Furthermore, this study investigated the efficacy of selected antibiotics when conjugated with nanoparticles against selected pathogenic microbes. METHODS: Pyrenacantha grandiflora Baill (tubers) were collected from Masisi area. Bioactive compounds were extracted using different solvents such as methanol, acetone, hot water, dichloromethane and chloroform. Preliminary phytochemical screening was done to identify different phytochemicals in the extracts and their functional groups were identified by Fourier Transform Infrared spectroscopy (FTIR). Extracts were further assessed for their total phenolic and flavonoids content. Thin layer chromatography was used to separate the compounds from the plant extracts and active compounds/group of compounds were identified by bioautography. The antioxidant ability of the extracts to scavenge free radical DPPH was also determined. Silver and gold nanoparticles were synthesized using chemical and biological methods, characterized by Ultraviolet-Visible Spectrophotometry (UV-VIS), Transmission Electron Microscopy (TEM) and Energy dispersive X-ray analysis (EDX). Plant extracts, nanoparticles and antibiotics were xix conjugated differently, and conjugates were analyzed by FTIR and their antimicrobial activities were evaluated against different bacteria and fungi. The conjugates were tested for antimicrobial activity against extended beta-lactamase producing Escherichia coli (ATCC 35218), Escherichia coli (ATCC 25922), methicillin-resistant Staphylococcus aureus (ATCC 25923), methicillin-susceptible Staphylococcus aureus (ATCC 33591) and beta-lactamase producing Klebsiella pneumonia (ATCC 700603) using agar diffusion assay and the minimum inhibitory concentrations (MIC) were determined using the microdilution method. The minimum bactericidal concentration (MBC) and minimum fungicidal concentration (MFC) were determined by sub-culturing from the MIC plates on Mueller-Hinton Agar. RESULTS: Pyrenacantha grandiflora was found to contain phenolics, saponins, alkaloids, tannin, steroids, terpenoids and flavonoids. FTIR spectroscopic studies revealed different characteristic peak values with various functional compounds similar in most extracts but differed with transmittance values. The total phenolic contents in the examined extracts ranged from 14.167 to 19.02 mg GA/g. The total flavonoid content in the examined extracts ranged from 26.603 to 34.621 mg QE/g. Thin-layer chromatography revealed various Rf values and when analyzed with bioautography, well-defined inhibition zones within the Rf value of 0.236 was identified against E. coli and K. pneumonia. The MICs of the extracts were determined, and all the extracts showed some antimicrobial activity against all tested strains ranging from 0.06-7.5 mg ml/g. Some extracts appeared to be fungicidal and hot water extracts were more active against Cryptococcus neoformans with the MFC value of 0.06 mg/ml. The methanol extract was also active against most tested strains including Candida tropicalis with the minimum fungicidal concentration value of 3.75 mg/ml. Pyrenacantha grandiflora tuber extracts conjugated with silver or gold nanoparticles exhibited a good antibacterial activity against all bacterial strain used and very few were able to exhibit bactericidal activity. Penicillin showed improvement of antibacterial activity xx when conjugated with compounds from the acetone extracts and vancomycin was found to be more effective when conjugated with silver nanoparticles and water extracts. CONCLUSION: The present study validated the efficacy of conjugated P. grandiflora tuber extracts which is used in traditional medicine. The results revealed that water extracts which are generally used by the traditional healers are active against most microorganisms tested as well as methanol and acetone extracts and the synergistic effect was observed when they were conjugated to gold and silver nanoparticles. The results of the present investigation clearly indicate that antimicrobial activity of Pyrenacantha grandiflora Baill tuber when conjugated with selected nanoparticles and antibiotics vary with test strain and the type of solvent used during extraction, thus giving hope for future development of drug leads. / NRF

Le problème croissant de l’antibiorésistance fait en sorte que l'utilisation systématique des antibiotiques en production animale n'est plus considérée comme une pratique raisonnable et viable. De plus, la préservation de l'efficacité des antibiotiques représente un enjeu majeur pour la santé publique et la santé animale. Les Producteurs de poulet du Canada ont élaboré et mis en place une stratégie de réduction de l'utilisation des antibiotiques ayant comme objectif ultime d'éliminer l'utilisation préventive des antibiotiques d’importance en médecine humaine dans les productions de poulets à griller et de dindons. Alors que l’on sait que la réduction des antibiotiques en élevage de poulets de chair est associée à une augmentation de l’incidence d’entérite nécrotique causée par Clostridium perfringens, dont une proportion de cette population bactérienne produit l’entérotoxine qui peut engendrer des conséquences sur la santé humaine, il est difficile de prédire les impacts réels d’une telle stratégie sur les écosystèmes complexes que sont l’intestin des oiseaux et les élevages commerciaux de poulets de chair. Les principaux objectifs de la présente étude étaient donc de quantifier l'abondance des gènes de résistance aux antibiotiques, d'évaluer la présence de C. perfringens et de son entérotoxine et de caractériser la composition du microbiote cæcal dans les bâtiments de six fermes commerciales de poulets de chair, au Québec. À court terme (15 mois), les bâtiments de ces fermes ont été soumis à un régime conventionnel ou à un régime sans antibiotiques. Puis, à long terme (6 ans), les bâtiments ont utilisé un régime promouvant une utilisation judicieuse des antibiotiques ou un régime conventionnel. La mise en place d'un régime sans antibiotiques pendant une période de 15 mois n'a pas permis d’observer une réduction de l'abondance de plusieurs gènes de résistance aux antibiotiques, contrairement à l'utilisation judicieuse des antibiotiques pendant 6 ans. Le retrait des antibiotiques à court terme et l’utilisation judicieuse à long terme ont modifié la composition du microbiote cæcal, les familles de Ruminococcaceae et de Lachnospiraceae étant influencées négativement, en plus de diminuer les performances zootechniques et d’augmenter les populations de C. perfringens à court terme. Le régime conventionnel à long terme dans les élevages commerciaux de poulets de chair a été associé à une augmentation de plusieurs gènes de résistance aux antibiotiques dans de nombreuses fermes. Cette étude met en évidence les impacts potentiels des différents régimes d'élevage en production avicole et aidera à orienter les futures politiques afin de réduire l'utilisation des antibiotiques et ultimement contrer le phénomène de la résistance aux antibiotiques. / The ever-increasing problem of antibiotic resistance makes routine use of antibiotics in animal production no longer considered as a reasonable and viable practice. Preserving the effectiveness of antibiotics represents a major challenge for public and animal health. The Chicken Farmers of Canada have developed and are implementing an Antimicrobial Use Reduction Strategy which ultimate goal is eliminating the preventive use of medically-important antibiotics in broiler chicken and turkey productions. While it is known that the reduction of antibiotics in broiler chicken farms is associated with an increase in the incidence of necrotic enteritis caused by Clostridium perfringens, to which a proportion of this bacterial population produces the enterotoxin who can also generates consequences for human health, very little is known about the real overall impact of an antibiotic use reduction strategy in complex ecosystems such as the bird intestine or the commercial broiler chicken farm. The main objectives of the present study were to quantify the abundance of antibiotic resistance genes, to assess the presence of Clostridium perfringens and his enterotoxin and to characterize the composition of the cæcal microbiota in broiler chicken flocks from six commercial farms located in Québec and submitted to either a short-term conventional or drug-free program (15 months) or a long-term conventional or judicious antibiotic use program (six years). Implementing an antibiotic-free program over a 15-month period did not reduce the abundance of many antibiotic resistance-encoding genes, whereas a judicious use of antibiotics over six years did. The short-term antibiotic withdrawal and the long-term judicious use strategy altered the cæcal microbiota composition, with Ruminococcaceae and Lachnospiraceae families being negatively impacted, in agreement with the lower production performance and with the increased C. perfringens populations observed for farms phasing out the use of antibiotics in a short-term antibiotic withdrawal. Adopting a long-term conventional rearing program on commercial broiler chicken farms selected for specific antibiotic resistance-encoding genes in many barns. This study highlights the potential impacts of different rearing programs in poultry production and will help guide future policies in order to reduce the use of antibiotics and ultimately reduce the phenomenon of antibiotic resistance.

Detta projekt genomfördes på företaget Sangair som för närvarande utvecklar medicinsk utrustning för att behandla bakteriemi med ozon. Bakteriemi uppstår när bakterier hamnar i blodomloppet, vilket kan trigga sepsis och septisk chock, med potentiellt dödligt utfall om obehandlat. För närvarande används antibiotika för att behandla bakteriemi, men det ökande hotet med antibiotikaresistens världen över innebär att forskare behöver hitta nya vägar för att behandla bakteriemi. Som en del av Sangairs utveckling gjordes en undersökning för att se hur bakterier påverkas av ozon. Projektet syftade till att 1) utveckla en metod för att detektera lysering av bakterier och 2) använda metoden för att se om ozon hade lyserande effekt på model-organismen Escherichia coli. För att testa metoden transformerades stam BL21 av E. coli med en pUC-19 plasmid för att producera beta-galaktosidas. Proteinets aktivitet mättes sedan i sonikerade bakterier, vilket visade att det var en effekitiv metod för att lysera bakterier och sedan mäta aktiviteten. För att undersöka om ozon hade en lyserande effekt, och samtidigt bestämma om man kunde mäta protein fann man att det optimala experimentella upplägget var att använde en ozonkoncentration på 6 g/m3, ett gasflöde på 5 ml/min och ett vätskeflöde på 25 ml/min. Resultatet från studien indikerade att ozon har en lyserande effekt, men fler studier behövs göras för att verifiera resultatet. Man undersökte också om detektionen av Beta-galaktosidas kunde förbättras genom att tillsätta Bovin serumalbumin (BSA) för att inhibera resterande ozon i prover som annars skulle kunna inaktivera Beta-galaktosidas. Resultaten indikerade dock inte någon effekt. Som ett sista experiment mättes även endotoxiner som frigjordes vid behandling, och det visade sig att när bakterier behandlas med ozon frigörs lipopolysackarider (LPS) och peptidoglykaner, vilket också kan tyda på lysis. / This project was conducted at Sangair. The company is currently developing a medical device aimed at treating bacteremia with ozone. Bacteremia is a condition that occurs when bacteria enters the bloodstream, and can trigger sepsis and septic shock, potentially leading to death if untreated. Antibiotics have traditionally been the way to treat bacteremia, but the looming threat of antibiotic resistance worldwide threatens this way of treatment, and research into novel approaches to eradicate the bacteria needs to be done. As part of Sangairs development, an investigation was done to see how ozone interacts with bacteria. The project aimed to 1) develop a method to detect bacterial lysis and 2) use the method to detect if ozone had a lysing effect on the bacterial model organism Escherechia coli. To test the method, the BL21 strain of  E. coli was transformed with the pUC-19 plasmid to produce the reporter enzyme Beta-galactosidase. The Beta-galactosidase activity was then measured in a supernatant of sonicated bacteria, which confirmed the suitability of the method to detect bacteria cell lysis. To be able to see if ozone had a lysing effect, while still being able to measure Beta-galactosidase, it was found that the optimal setup for this was using an ozone concentration of 6 g/m3, a gas flow of 5 ml/min and a liquid flow of 25 ml/min. The results acquired with this setup indicated that ozone had a lysing effect on E. coli but more studies are needed to verify this. It was further investigated if Beta-galactosidase detection could be improved by addition of bovine serum albumin (BSA) to quench residual ozone in the samples, but the results showed that it did not have any effect on the Beta-galactosidase enzymatic activity. As a final experiment, endotoxins that were released upon treatment were also measured, and it was found that when bacteria are treated with ozone, lipopolysaccharides (LPS) and peptidoglycans are released, further confirming lysis of the bacterial cells.

[ES] El mundo se enfrenta a una profunda crisis asociada al agua y la reutilización de aguas residuales urbanas (UWW), especialmente en agricultura, se presenta como una posible solución para abordar este problema. No obstante, la reutilización se debe promover dentro de unos límites mínimos de calidad del agua, los cuales pueden alcanzarse mediante la implementación de eficientes tratamientos terciaros en las actuales plantas de tratamiento de aguas residuales urbanas. En las últimas décadas, los Procesos de Oxidación Avanzada (POA), basados en la generación de especies reactivas del oxígeno altamente oxidantes y no selectivas, se han planteado como alternativa a los tratamientos convencionales para desinfección y descontaminación de agua residual. El objetivo general de este estudio es, por tanto, la evaluación de nuevos POA para desinfección y descontaminación simultánea de agua, investigando: (i) fotocatálisis heterogénea solar con ZnO modificado (Ce, Yb y Fe) y TiO2-P25 de referencia, (ii) peroximonosulfato (PMS) bajo radiación solar natural (PMS/Solar), (iii) POA basados en radical sulfato utilizando PMS y radiación UV-C (PMS/UV-C) y (iv) combinación de ZnO modificado con PMS como estrategia de tratamiento. Los objetivos biológicos y químicos analizados en este estudio fueron: tres patógenos de impacto en salud humana (dos bacterias gram-negativas Escherichia coli, Pseudomonas spp y una gram-positiva Enterococcus spp) y tres Contaminantes de Preocupación Emergente (CE) (Diclofenaco-DCF, Sulfametoxazol-SMX y Trimetoprim-TMP). La fotoactividad de ZnO modificado con Ce, Yb o Fe se evaluó a escala de laboratorio (200 mL), obteniendo buenas cinéticas de inactivación bacteriana y degradación de CE. El ZnO-Ce mostró el mejor rendimiento, no obstante, se descartó el escalado de este proceso tanto su aplicación directa, considerando su similar eficiencia en comparación con TiO2-P25 y por el alto coste del tratamiento, como en combinación con PMS, por la la liberación de Zn2+ al agua tratada. El uso directo de PMS como agente oxidante para el tratamiento de agua y UWW se ha demostrado en este estudio, aumentado su eficiencia al ser el sistema irradiado tanto con lámparas UV-C como con luz solar natural. Se han postulado diferentes mecanismos de inactivación y degradación de CE para cada tipo de irradiación: activación de PMS para generar radicales (con fotones UV-C) y la no activación o mecanismo de oxidación directo (con luz solar natural). La capacidad de los procesos PMS/Solar y PMS/UV-C se evaluó en UWW a escala de planta piloto en un Colector Parabólico Compuesto (10 L) y en una planta piloto de UV-C (80 L), respectivamente. El mejor rendimiento de tratamiento se alcanzó con una concentración de PMS de 1 mM en ambos casos, logrando una inactivación exitosa de todos los objetivos microbianos (incluyendo bacterias resistentes a antibióticos), sin observar recrecimiento bacteriano tras 48 h y eliminando de manera eficiente los CE. Por otro lado, la eliminación eficiente de genes de resistentes a antibióticos y productos de transformación se obtuvo con PMS/UV-C, mientras que éstos parámetros siguen siendo un reto a abordar en el caso del proceso PMS/Solar. En ningún caso se observó toxicidad del agua tratada para Aliivibrio fischeri, excluyendo un efecto nocivo para el medio ambiente receptor del efluente, y solo un leve efecto fitotóxico en el crecimiento de dos de las tres semillas analizadas (L. sativum y S. alba), indicando la idoneidad del efluente para su reutilización en riego. Finalmente, el análisis de costes demostró que este factor clave podría ser una barrera importante para la implementación del proceso PMS/Solar en plantas centralizadas de tratamiento de UWW. No obstante, su consideración como sistemas descentralizados asociados a pequeños volúmenes de agua en zonas con alta incidencia de radiación solar, ahorrando costes energéticos mediante el aprovechamiento de la luz solar, podría ser una opción real y asequible. / [CA] El món s'enfronta a una profunda crisi associada a l'aigua i la reutilització d'aigües residuals urbanes (UWW), especialment en agricultura, es presenta com una possible solució per a abordar aquest problema. No obstant això, la reutilització s'ha de promoure dins d'uns límits mínims de qualitat de l'aigua, els quals poden aconseguir-se mitjançant la implementació d'eficients tractaments terciaris en les actuals plantes de tractament d'aigües residuals urbanes. En les últimes dècades, els Processos Avançats d'Oxidació (PAO), basats en la generació d'espècies reactives d'oxigen altament oxidants i no selectives, s'han plantejat com a alternativa als tractaments convencionals per a desinfecció i descontaminació d'aigua residual. L'objectiu general d'aquest estudi és, per tant, l'avaluació de nous POA per a desinfecció i descontaminació simultània d'aigua, investigant: (i) fotocatàlisi heterogènia solar amb ZnO modificat (Ce, Yb i Fe) i TiO2-P25 de referència, (ii) peroximonosulfat (PMS) baix radiació solar natural (PMS/Solar), (iii) POA basats en radical sulfat utilitzant PMS i radiació UV-C (PMS/UV-C) i (iv) combinació de ZnO modificat amb PMS com a estratègia de tractament. Els objectius biològics i químics analitzats en aquest estudi van ser: tres patògens d'impacte en salut humana (dos bacteris gram-negatius Escherichia coli, Pseudomonas spp i un gram-positiu Enterococcus spp) i tres Contaminants de Preocupació Emergent (CE) (Diclofenac-DCF, Sulfametoxazol-SMX i Trimetoprim-TMP). La fotoactivitat de ZnO modificat amb Ce, Yb o Fe es va avaluar a escala de laboratori (200 mL), obtenint bones cinètiques d'inactivació bacteriana i degradació de CE. El ZnO-Ce va mostrar el millor rendiment, no obstant això, es va descartar l'escalat d'aquest procés tant mitançant la seua aplicació directa o com en combinació amb PMS, considerant la seua similar eficiència en comparació amb TiO2-P25, l'alt cost del tractament i l'alliberament de Zn2+ a l'aigua tractada. L'ús directe de PMS com a agent oxidant per al tractament d'aigua i UWW s'ha demostrat en aquest estudi, augmentat la seua eficiència quan el sistema és irradiat tant amb llums UV-C com amb llum solar natural. S'han postulat diferents mecanismes d'inactivació i degradació de CE per a cada tipus d'irradiació: activació de PMS per a generar radicals (amb fotons UV-C) i la no activació o mecanisme d'oxidació directe (amb llum solar natural). La capacitat dels processos PMS/Solar i PMS/UV-C es va avaluar en UWW a escala de planta pilot en un Col·lector Parabòlic Compost (10 L) i en una planta pilot d'UV-C (80 L), respectivament. El millor rendiment de tractament es va aconseguir amb una concentració de PMS d'1 mm en tots dos casos, aconseguint una inactivació reeixida de tots els objectius microbians (incloent bacteris resistents a antibiòtics), sense observar recreixement bacterià després de 48 h i eliminant de manera eficient els CE. D'altra banda, l'eliminació eficient de gens de resistents a antibiòtics i productes de transformació es va obtindre amb PMS/UV-C, mentre que aquests paràmetres continuen sent un repte a abordar en el cas del procés PMS/Solar. En cap cas es va observar toxicitat a l'aigua tractada per a Aliivibrio fischeri, excloent un efecte nociu per al medi ambient receptor de l'efluent, i només un lleu efecte fitotòxic en el creixement de dos de les tres llavors analitzades (L. sativum i S. alba), indicant la idoneïtat de l'efluent per a la seua reutilització en reg. Finalment, l'anàlisi de costos va demostrar que aquest factor clau podria ser una barrera important per a la implementació del procés PMS/Solar en plantes centralitzades de tractament de UWW. No obstant això, la seua consideració com a sistemes descentralitzats associats a xicotets volums d'aigua en zones amb alta incidència de radiació solar, estalviant costos energètics mitjançant l'aprofitament de la llum solar, podria ser una opció real i assequible. / [EN] It is well recognized that the world is facing a water crisis and the reuse of urban wastewater (UWW) in agriculture, has been gaining attention as a reliable solution to address this problem. It is mandatory to promote the safe water reuse and minimum water quality limits could be achieved by upgrading the Urban Wastewater Treatment Plants, through the addition of an efficient tertiary treatment. In the last decades, Advanced Oxidation Processes (AOPs), relying on the potential generation of highly oxidant, reactive and non-selective Reactive Oxygen Species (ROS), have been raised as alternative to conventional treatments for both water disinfection and decontamination. The general aim of this study is the assessment of novel AOPs for the simultaneous disinfection and decontamination of water, investigating (i) solar heterogeneous photocatalysis, involving modified ZnO with Ce, Yb and Fe and the benchmark TiO2-P25, (ii) peroxymonosulfate (PMS) under natural solar radiation (PMS/Solar), (iii) Sulfate radical-based AOPs (SR-AOPs) involving PMS and UV-C radiation (PMS/UV-C) and (iv) combination of the best-performing photocatalytic material with PMS (PMS/modified ZnO). The involved biological and chemical targets in this study were: three human health impact pathogens (two gram-negative bacteria Escherichia coli, Pseudomonas spp. and the gram-positive Enterococcus spp.) and three Contaminants of Emerging Concern (CECs, Diclofenac-DCF, Sulfamethoxazole-SMX and Trimethoprim-TMP). Photoactivity of modified ZnO with Ce, Yb or Fe was assessed in 200-mL vessel reactors, attaining good target's removal kinetic rates. Best performing material was ZnO-Ce, but its feasibility for a further up-scaling was discarded both as photocatalyst alone, considering the similar performances obtained, compared to TiO2-P25 and the high treatment cost, and in combination with PMS, due to the release of high amount of Zn2+. PMS alone has been proven to be an effective oxidant agent for water and UWW treatment, increasing its effectiveness when illuminated with photons from UV-C lamps and natural sunlight. Nevertheless, different inactivation and CECs degradation mechanisms have been postulated for each type of irradiation, and according to the activation of PMS (with UV-C photons) or non-activation (under natural sunlight). The capability of PMS/Solar and PMS/UV-C processes were evaluated in actual UWW at pilot plant scale in 10-L Compound Parabolic Collector and in 80L UV-C pilot plant, respectively. Optimal load of PMS was found to be 1 mM in both cases, achieving successful inactivation of natural occurring bacteria and their antibiotic resistant counterparts, without observing bacterial regrowth after 48h and efficiently eliminating CECs. Efficient removal of antibiotic resistant genes (ARGs) and transformation products (TPs) was obtained by PMS/UV-C, while their elimination is still a challenge to be addressed in PMS/Solar process. Reclaimed UWW obtained by both PMS/Solar and PMS/UV-C process showed no toxicity towards Aliivibrio fischeri, excluding a harmful effect towards the receiving aquatic environment after effluent discharge, and a very slightly phytotoxic effect for growth of two out of the three tested seeds (L. sativum and S. alba), indicating the suitability of this water for its subsequent reuse for agriculture. The analysis of the treatment cost revealed that this key factor could be an important barrier for implementation of PMS/Solar process in large centralized UWW treatment plants. Nevertheless, its consideration as decentralized systems associated to small volume of water in areas with a high solar radiation incidence, saving energy costs by using natural solar radiation, could be a real and affordable option. / Berruti, I. (2022). Assessment of novel Advanced Oxidation Processes for the Simultaneous Disinfection and Decontamination of Water [Tesis doctoral]. Universitat Politècnica de València. https://doi.org/10.4995/Thesis/10251/183052

L’habileté des enzymes à évoluer joue un rôle fondamental dans l'adaptation des organismes à leur environnement, leur permettant de s'adapter aux changements de température, aux nutriments disponibles ou encore à l'introduction de composés cytotoxiques. Au cours des dernières décennies, cette capacité a conduit à l'émergence rapide de mécanismes de résistance aux antibiotiques chez des bactéries pathogènes pour l’humain, notamment dans le cas de l'antibiotique synthétique triméthoprime. Dix ans après l'introduction de cet antibiotique, l'enzyme dihydrofolate réductase de type B (DfrB) a été identifiée comme conférant une résistance aux bactéries l'exprimant en catalysant par voie d’enzyme alternative la réaction inhibée par l’antibiotique. Des études structurales, cinétiques et mécanistiques de la DfrB en ont révélé la nature atypique, et suggèrent que cette enzyme est un modèle d’enzyme primitive. En particulier, son site actif unique est formé via l’interface de quatre protomères identiques. Puisque les DfrB ne sont pas apparentées sur le plan évolutif à des protéines connues et caractérisées, on ne connait pas comment elles ont évolué pour ultimement contribuer à la résistance au triméthoprime, et en particulier comment leur capacité catalytique a émergé au sein du petit domaine codé par leurs gènes. Ainsi, cette thèse vise à approfondir notre compréhension de l’évolution des enzymes en examinant spécifiquement l’évolution des DfrB et les propriétés qui ont guidé ce processus. Puisque les gènes des DfrB ont rarement été rapportés, je présente d’abord nos efforts déployés pour identifier et caractériser de manière génomique les DfrB dans les bases de données publiques. Ces efforts ont conduit à la découverte, pour la première fois, de DfrB en dehors du contexte clinique. Nous avons ensuite caractérisé, sur le plan biophysique et enzymatique, des homologues protéiques aux DfrB que nous avons identifiés dans des bases de données de protéines putatives. Nous avons démontré la capacité d’homologues identifiés dans des contextes environnementaux, non associés aux activités humaines, à catalyser la réduction du dihydrofolate de la même façon que les DfrB. Enfin, une large exploration d’homologues de séquence, suivie d'une caractérisation expérimentale et computationnelle, nous a permis d'identifier des homologues distants des DfrB, certains capables de procurer une résistance au triméthoprime, et d'autres dépourvus de cette capacité. Ces résultats nous ont permis de proposer un modèle expliquant l’émergence de l'activité catalytique au sein du domaine protéique des DfrB. En résumé, cette thèse présente une approche multidisciplinaire pour l’exploration et la caractérisation de l’espace de séquence d’une famille de protéines. Cette approche, qui comprend des analyses génomiques, enzymologiques, biophysiques et bio-informatiques, nous a permis d’identifier les caractéristiques structurales et de séquences nécessaires à la formation d’une enzyme DfrB fonctionnelle. Nous avons également proposé un modèle pour expliquer l’évolution de cette enzyme primitive. Dans l’ensemble, nos résultats suggèrent que la capacité catalytique des DfrB a évolué indépendamment de l’introduction de l’antibiotique triméthoprime, et donc que ce mécanisme de résistance existait dans l’environnement préalablement à son recrutement génomique dans un contexte clinique. Ces travaux contribuent à notre compréhension fondamentale des mécanismes sous-jacents à l’émergence de l’activité catalytique au sein d’un domaine protéique non catalytique, et informent les études des mécanismes développés par les bactéries pour proliférer en présence d’antibiotiques. / The ability of enzymes to evolve plays a fundamental role in the adaptation of organisms to their environment, allowing them to adjust to changes in temperature, available nutrients, or the introduction of cytotoxic compounds. In recent decades, this ability has led to the rapid emergence of antibiotic resistance mechanisms in human pathogenic bacteria, particularly in the case of the synthetic antibiotic trimethoprim. Ten years after the introduction of this antibiotic, the type B dihydrofolate reductase (DfrB) was identified as conferring resistance to bacteria expressing it by providing an alternative enzyme to catalyze the reaction inhibited by the antibiotic. Structural, kinetic, and mechanistic studies of DfrB have revealed its atypical nature and suggest that this enzyme is a model of a primitive enzyme. In particular, its unique active site is formed by the interface of four identical protomers. Since DfrB enzymes are not evolutionarily related to any known and characterized proteins, it is not known how they evolved to ultimately contribute to trimethoprim resistance, and in particular how their catalytic ability arose within the small domain encoded by their genes. Thus, this thesis aims to deepen our understanding of enzyme evolution by specifically examining the evolution of DfrB and the properties that guided this process. Since DfrB genes have rarely been reported, I first present our efforts to genomically identify and characterize DfrB in public databases. These efforts led to the first discovery of DfrB genes outside the clinical context. We then biophysically and enzymatically characterized protein homologues of the DfrB we identified in putative protein databases. We demonstrated the ability of homologues identified in environmental contexts unrelated to human activities to catalyze dihydrofolate reduction in the same manner as DfrB. Finally, a broad search for sequence homologues, followed by experimental and computational characterization, allowed us to identify distant DfrB homologues, some capable of conferring resistance to trimethoprim and others lacking this ability. These results have allowed us to propose a model that explains the emergence of catalytic activity within the DfrB domain. In summary, this thesis presents a multidisciplinary approach to explore and characterize the sequence space of a protein family. This approach, which includes genomic, enzymatic, biophysical and bioinformatic analyses, has enabled us to identify the structural and sequence features necessary for the formation of a functional DfrB enzyme. We have also proposed a model to explain the evolution of this primitive enzyme. Overall, our results suggest that the catalytic capacity of DfrB evolved independently of the introduction of the antibiotic trimethoprim, and thus that this resistance mechanism existed in the environment prior to its genomic recruitment in a clinical context. This work contributes to our fundamental understanding of the mechanisms underlying the emergence of catalytic activity within a non-catalytic protein domain, and informs studies of the mechanisms developed by bacteria to proliferate in the presence of antibiotics.

This diploma thesis is focused on the evaluation of six selected zoonoses with the occurrence in South Bohemia (campylobacteriosis, salmonellosis, listeriosis, tick-borne meningoencephalitis, Lyme borreliosis, tularemia) between the years 2003-2013. Campylobacteriosis and salmonellosis were evaluated the most common zoonoses in the South Bohemian Region during the monitored period. Their common feature is the alimentary transmission. Between 2003 to 2008 salmonellosis recorded the highest number of reported cases, on the contrary, campylobacteriosis has reported the highest number of occurrences since 2008. District of Czech Budweis showed the highest incidence of both zoonoses during the monitored period (4,139 cases of salmonellosis and 4,924 cases of campylobacteriosis). Another but not less important zoonotic is tick-borne meningoencephalitis, which incidence had the highest number in South Bohemian Region of all the regions of Czech Republic. The second part of the thesis is based on questionnaire studies focused on awareness of zoonoses and the issue of resistance and overuse of antibiotics. In total 479 questionnaires were evaluated. The survey findings may be equally described as interesting and positive, since the respondents had considerable awareness of the issue of antibiotic resistance.